Rajeev Varshney  from Murdoch University in Perth Australia.
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    Professor Rajeev Varshney
    PhD

    Professor

    About me

    Professor Varshney is a Clarivate Analytics’ highly cited researcher in the field of Agricultural Science, specializing in genomics, genetics, molecular breeding and capacity building in developing countries. He is engaged in discovering, developing, and delivering innovative R&D solutions to tackle wicked problems facing global agriculture.

    Professor Varshney has made significant contributions to improving food security in Asia and Africa by creating genomic resources of major “orphan” tropical crops. He has developed and deployed DNA marker technologies for the identification of useful genetic variation in tropical crops. Varshney, together with his team, has used these resources and technologies to identify genetic loci/candidate genes for drought and pest tolerances in key staple crops for sub-Saharan Africa and India. He has initiated and led major international programs that are creating and delivering superior crop varieties to some of the world’s poorest farmers.

    Professor Varshney has supervised large international teams (up to 200 members) representing a range of diversity in ethnicity, nationality and gender. In these roles, he has provided expertise in R&D management, product development, innovative ideas and promoted an inclusive culture and inter-disciplinary and collaborative research ecosystem. His leadership efforts have led mainstreaming of genomics in crop breeding programs at many institutes in several countries including India, China, Ethiopia, Kenya, Malawi, Ghana, Mali, Burkina Faso.

    Awards and grants

    • Shanti Swarup Bhatnagar Prize for Science and Technology by Government of India, 2015 (Honoured by Prime Minister, Mr. Narendra Modi).
    • Rafi Ahmed Kidwai Award, the top-most agriculture science award from Government of India, 2020
    • Scientific and Technological Co-operation Award by Government of Guangdong Province China, 2020
    • GD Birla Award for Scientific Rese
    • arch by KK Birla Foundation, India, 2018
    • Prof. Lalji Singh Achievement Award by ADNAT, 2019
    • Prof Jayashankar Lifetime Achievement Award by Prof Jayashankar Telangana State Agri Univ, 2019
    • JC Bose Fellowship for the outstanding performance from the Science and Engineering Research Board, Department of Science and Technology, Government of India, 2018
    • Certificate and Honor for Outstanding Science Contribution by Uttar Pradesh Government, 2018 (honoured by His Excellency, Governor and Hon’ble Chief Minister, Uttar Pradesh, India)
    • One of the“40 Most Influential Foreign Experts” in the past 40 years of Shandong Province since the initiation of Reform and Opening Up policy by The Association for International Exchange of Talents in Shandong, Shandong International Talent Network, China, 2018
    • Outstanding Faculty Research Award by Carrers360, 2018 (honoured by Hon’ble Minister for Human Resource Development, Government of India)
    • Qilu Friendship Award by People’s Government of Shandong Province, China, 2016
    • Doreen Margaret Mashler Award, the most prestigious ICRISAT award by ICRISAT Governing Board, 2016
    • Highly Cited Researcher by Thomson Reuters/ Clarivate Analytics, 2019, 2018, 2017, 2016, 2015, 2014
    • Research Excellence India Citation Award by Thomson Reuters, 2015
    • IPGI Science Leadership Award by the International Peanut Genome Initiative, 2017
    • The Illumina Agricultural Greater Good Initiative Award (US$100,000 for lab), 2013
    • Young Crop Scientist Award by Crop Science Society of America (CSSA), 2013
    • NASI-Scopus Young Scientist Award by National Academy of Sciences, India & Elsevier, South Asia, 2010
    • INSA-Young Scientist Medal by the Indian National Science Academy (INSA), 2008
    • NASI-Young Scientist Platinum Jubilee Award by the National Academy of Sciences, India (NASI), 2007

    Publications

    Books

    • Varshney R.K., Roorkiwal M., Sorrells M.E., (2017), Genomic Selection for Crop Improvement: New Molecular Breeding Strategies for Crop Improvement, Springer International Publishing, Cham, pp. 1-258.
    • Varshney R.K., Tuberosa R., (2013), Translational Genomics for Crop Breeding, Volume I: Biotic Stress, Wiley & Blackwell, DOI:10.1002/9781118728475, pp. 1-357.
    • Lübberstedt T., Varshney R.K., (2013), Diagnostics in Plant Breeding, Springer, Dorderecht, pp. 1-521.
    • Gupta P.K., Varshney R.K., (2013), Cereal Genomics II, Springer, Dorderecht, pp. 1-438.
    • De Oliveira A.C., Varshney R.K., (2011), Root Genomics, Springer-Verlag, Berlin Heidelberg, pp. 1-318.
    • Varshney R.K., Tuberosa R., (2007), Genomics-Assisted Crop Improvement, 1, Springer, Dorderecht, pp. 1-386.
    • Varshney R.K., Tuberosa R., (2007), Genomics-Assisted Crop Improvement, 2, Springer, Dorderecht, pp. 1-509.
    • Varshney R.K., Koebne R.M.D., (2006), Model Plants and Crop Improvement, CRC Taylor & Francis, Boca Raton, pp. 1-336.
    • Gupta P.K., Varshney R.K., (2005), Cereal Genomics, Springer, Dorderecht, pp. 1-639.

     

    Book Chapters

    • Serba D.D., Yadav R.S., Varshney R.K., Gupta S.K., Mahalingam G., Srivastava R.K., Gupta R., Perumal R., Tesso T.T., (2020), ‘Genomic designing of pearl millet: A resilient crop for arid and semi-arid environments’, Genomic Designing of Climate-Smart Cereal Crops, 221-286.
    • Gangurde S.S., Kumar R., Pandey A.K., Burow M., Laza H.E., Nayak S.N., Guo B., Liao B., Bhat R.S., Madhuri N., Hemalatha S., Sudini H.K., Janila P., Latha P., Khan H., Motagi B.N., Radhakrishnan T., Puppala N., Varshney R.K., Pandey M.K., (2019), ‘Climate-smart groundnuts for achieving high productivity and improved quality: Current status, challenges, and opportunities’, Genomic Designing of Climate-Smart Oilseed Crops, 133-172.
    • Saxena R.K., Saxena K.B., Varshney R.K., (2019), ‘Pigeonpea (Cajanus cajan L. Millsp.): An ideal crop for sustainable agriculture’, Advances in Plant Breeding Strategies: Legumes, 7, 409-429.
    • Pandey M.K., Varshney R.K., (2018), ‘Groundnut entered post-genome sequencing era: Opportunities and challenges in translating genomic information from genome to field’, Biotechnologies of Crop Improvement, Volume 3: Genomic Approaches, 199-209.
    • Bharadwaj C., Sachdeva S., Singh R.K., Patil B.S., Roorkiwal M., Chaturvedi S., Varshney R., (2018), ‘Chickpea genomics’, Biotechnologies of Crop Improvement, Volume 3: Genomic Approaches, 289-316.
    • Varshney R.K., Pandey M.K., Chitikineni A., (2018), ‘Plant genetics and molecular biology: An introduction’, Advances in Biochemical Engineering/Biotechnology, 164, 1-9.
    • Jain A., Roorkiwal M., Pandey M.K., Varshney R.K., (2017), ‘Current status and prospects of genomic selection in legumes’, Genomic Selection for Crop Improvement: New Molecular Breeding Strategies for Crop Improvement, 131-147.
    • Varshney R.K., Roorkiwal M., Sorrells M.E., (2017), ‘Genomic selection for crop improvement: An introduction’, Genomic Selection for Crop Improvement: New Molecular Breeding Strategies for Crop Improvement, 1-6.
    • Sharma S., Upadhyaya H.D., Roorkiwal M., Varshney R.K., (2017), ‘Interspecific hybridization for chickpea (Cicer arietinum L.) improvement’, Polyploidy and Hybridization for Crop Improvement, 445-470.
    • Guo B., Khera P., Wang H., Peng Z., Sudini H., Wang X., Osiru M., Chen J., Vadez V., Yuan M., Wang C.T., Zhang X., Waliyar F., Wang J., Varshney R.K., (2016), ‘Annotation of Trait Loci on Integrated Genetic Maps of Arachis Species’, Peanuts: Genetics, Processing, and Utilization, 163-207.
    • Nayak S.N., Singh V.K., Varshney R.K., (2016), ‘Marker-Assisted Selection’, Encyclopedia of Applied Plant Sciences, 2, 183-197.
    • Mallikarjuna N., Srikanth S., Kumar C.V.S., Srivastava R.K., Saxena R.K., Varshney R.K., (2014), ‘Pigeonpea’, Broadening the Genetic Base of Grain Legumes, 149-159.
    • Mallikarjuna N., Shilpa K., Pandey M., Janila P., Varshney R.K., (2014), ‘Groundnut’, Broadening the Genetic Base of Grain Legumes, 161-173.
    • Gaur P.M., Thudi M., Samineni S., Varshney R.K., (2014), ‘Advances in chickpea genomics’, Legumes in the Omic Era, 73-94.
    • Bohra A., Saxena R.K., Saxena K.B., Sameerkumar C.V., Varshney R.K., (2014), ‘Advances in pigeonpea genomics’, Legumes in the Omic Era, 95-110.
    • Burow M.D., Leal-Bertioli S.C.M., Simpson C.E., Ozias-Akins P., Chu Y., Denwar N.N., Chagoya J., Starr J.L., Moretzsohn M.C., Pandey M.K., Varshney R.K., Corley Holbrook C., Bertioli D.J., (2013), ‘Marker-assisted selection for biotic stress resistance in Peanut’, Translational Genomics for Crop Breeding, Volume I: Biotic Stress, 125-150.
    • Upadhyaya H.D., Sharma S., Reddy K.N., Saxena R., Varshney R.K., Gowda C.L.L., (2013), ‘Pigeonpea’, Genetic and Genomic Resources of Grain Legume Improvement, 181-202.
    • Varshney R.K., Tuberosa R., (2013), ‘Translational genomics in crop breeding for biotic stress resistance: An introduction’, Translational Genomics for Crop Breeding, Volume I: Biotic Stress, 1-9.
    • Mir R.R., Hiremath P.J., Riera-Lizarazu O., Varshney R.K., (2013), ‘Evolving molecular marker technologies in plants: From RFLPs to GBS’, Diagnostics in Plant Breeding, 229-247.
    • McKeown P.C., Keshavaiah C., Fort A., Tuteja R., Chatterjee M., Varshney R.K., Spillane C., (2013), ‘Genomics in agriculture and food processing’, Biotechnology in Agriculture and Food Processing: Opportunities and Challenges, 45-70.
    • Sharma S., Upadhyaya H.D., Roorkiwal M., Varshney R.K., Gowda C., (2013), ‘Chickpea’, Genetic and Genomic Resources of Grain Legume Improvement, 81-111.
    • Gupta P.K., Varshney R.K., (2013), ‘Cereal genomics: Excitements, challenges and opportunities’, Cereal Genomics II, 9789400764019,1-9.
    • Mir R.R., Varshney R.K., (2012), ‘Future Prospects of Molecular Markers in Plants’, Molecular Markers in Plants, 169-190.
    • Rouf Mir R., Thudi M., Chamarthi S.K., Krishnamurthy L., Gaur P.M., Varshney R.K., (2012), ‘Translational Root Genomics for Crop Improvement’, Root Genomics and Soil Interactions, 249-264.
    • Fakrudin B., Tuberosa R., Varshney R.K., (2012), ‘Omics Techniques in Crop Research: An Overview’, Improving Crop Resistance to Abiotic Stress, 1, 289-300.
    • Varshney R.K., Pazhamala L., Kashiwagi J., Gaur P.M., Krishnamurthy L., Hoisington D., (2011), ‘Genomics and physiological approaches for root trait breeding to improve drought tolerance in chickpea (Cicer arietinum L.)’, Root Genomics, 233-250.
    • Chamarthi S.K., Kumar A., Vuong T.D., Blair M.W., Gaur P.M., Nguyen H.T., Varshney R.K., (2011), ‘Trait mapping and molecular breeding’, Biology and Breeding of Food Legumes, 296-313.
    • Burstin J., Gallardo K., Mir R.R., Varshney R.K., Duc G., (2011), ‘Improving protein content and nutrition quality’, Biology and Breeding of Food Legumes, 314-328.
    • Varshney R.K., Thudi M., May G.D., Jackson S.A., (2010), ‘Legume Genomics and Breeding’, Plant Breeding Reviews, 33, 257-304.
    • Varshney R.K., (2009), ‘Gene-Based marker systems in plants: High throughput approaches for marker discovery and genotyping’, Molecular Techniques in Crop Improvement: 2nd Edition, 119-142.
    • Varshney R.K., Tuberosa R., (2007), ‘Genomics-assisted crop improvement: An overview’, Genomics-Assisted Crop Improvement, 1, 1-12.
    • Varshney R.K., Mahendar T., Aggarwal R.K., Börner A., (2007), ‘Genic molecular markers in plants: Development and applications’, Genomics-Assisted Crop Improvement, 1, , 13-29.
    • Varshney R.K., Hoisington D.A., Upadhyaya H.D., Gaur P.M., Nigam S.N., Saxena K., Vadez V., Sethy N.K., Bhatia S., Aruna R., Channabyre Gowda M.V., Singh N.K., (2007), ‘Molecular genetics and breeding of grain legume crops for the semi-arid tropics’, Genomics-Assisted Crop Improvement, 2, , 207-241.
    • Koebne R.M.D., Varshney R.K., (2006), ‘Development and application of genomic models for large-crop plant genomes’, Model Plants and Crop Improvement, 1-10.
    • Gupta P.K., Varshney R.K., (2005), ‘Cereal genomics: An overview’, Cereal Genomics, 1-18.
    • Varshney R.K., Korzun V., Börner A., (2005), ‘Molecular maps in cereals: Methodology and progress’, Cereal Genomics, 35-82.
    • Sreenivasulu N., Varshney R.K., Kavi Kishor P.B., Weschke W., (2005), ‘Functional genomics for tolerance to abiotic stress in cereals’, Cereal Genomics, 483-514.
    • Schulman A.H., Gupta P.K., Varshney R.K., (2005), ‘Organization of retrotransposons and microsatellites in cereal genomes’, Cereal Genomics, 83-118.
    • Varshney R.K., Prasad M., Graner A., (2005), ‘Molecular marker maps of barley: A resource for intra- and interspecific genomics’, Biotechnology in Agriculture and Forestry, 55, 229-243.

     

    Articles

    • Mir R.R., Choudhary N., Bawa V., Jan S., Singh B., Bhat M.A., Paliwal R., Kumar A., Chitikineni A., Thudi M., Varshney R.K., (2021), ‘Allelic Diversity, Structural Analysis, and Genome-Wide Association Study (GWAS) for Yield and Related Traits Using Unexplored Common Bean (Phaseolus vulgaris L.) Germplasm From Western Himalayas’, Frontiers in Genetics, 11.
    • Ghatak A., Chaturvedi P., Bachmann G., Valledor L., Ramšak R., Bazargani M.M., Bajaj P., Jegadeesan S., Li W., Sun X., Gruden K., Varshney R.K., Weckwerth W., (2021), ‘Physiological and Proteomic Signatures Reveal Mechanisms of Superior Drought Resilience in Pearl Millet Compared to Wheat’, Frontiers in Plant Science, 11.
    • Pandey M.K., Gangurde S.S., Sharma V., Pattanashetti S.K., Naidu G.K., Faye I., Hamidou F., Desmae H., Kane N.A., Yuan M., Vadez V., Nigam S.N., Varshney R.K., (2021), ‘Improved genetic map identified major qtls for drought tolerance-and iron deficiency tolerance-related traits in groundnut’, Genes, 12, 1, 1-22.
    • Saxena R.K., Hake A., Bohra A., Khan A.W., Hingane A., Sultana R., Singh I.P., Naik S.J.S., Varshney R.K., (2021), ‘A diagnostic marker kit for Fusarium wilt and sterility mosaic diseases resistance in pigeonpea’, Theoretical and Applied Genetics, 134, 1, 367-379.
    • Bharadwaj C., Tripathi S., Soren K.R., Thudi M., Singh R.K., Sheoran S., Roorkiwal M., Patil B.S., Chitikineni A., Palakurthi R., Vemula A., Rathore A., Kumar Y., Chaturvedi S.K., Mondal B., Shanmugavadivel P.S., Srivastava A.K., Dixit G.P., Singh N.P., Varshney R.K., (2021), ‘Introgression of “QTL-hotspot” region enhances drought tolerance and grain yield in three elite chickpea cultivars’, Plant Genome, 14, 1.
    • Barmukh R., Roorkiwal M., Jaba J., Chitikineni A., Mishra S.P., Sagurthi S.R., Munghate R., Sharma H.C., Varshney R.K., (2021), ‘Development of a dense genetic map and QTL analysis for pod borer Helicoverpa armigera (Hübner) resistance component traits in chickpea (Cicer arietinum L.)’, Plant Genome, 14, 1.
    • Srivastava A.K., Saxena D.R., Saabale P.R., Raghuvanshi K.S., Anandani V.P., Singh R.K., Sharma O.P., Wasinikar A.R., Sahni S., Varshney R.K., Singh N.P., Dixit G.P., (2021), ‘Delineation of genotype-by-environment interactions for identification and validation of resistant genotypes in chickpea to fusarium wilt using GGE biplot’, Crop Protection, 144.
    • Bohra A., Rathore A., Gandham P., Saxena R.K., Satheesh Naik S.J., Dutta D., Singh I.P., Singh F., Rathore M., Varshney R.K., Singh N.P., (2021), ‘Genome-wide comparative transcriptome analysis of the A4-CMS line ICPA 2043 and its maintainer ICPB 2043 during the floral bud development of pigeonpea’, Functional and Integrative Genomics, 21, 2, 251-263.
    • Bohra A., Gandham P., Rathore A., Thakur V., Saxena R.K., Naik S.J.S., Varshney R.K., Singh N.P., (2021), ‘Identification of microRNAs and their gene targets in cytoplasmic male sterile and fertile maintainer lines of pigeonpea’, Planta, 253, 2.
    • Kamdar J.H., Jasani M.D., Ajay B.C., Rani K., Manivannan N., Vasanthi R.P., Dobariya K.L., Pandey M.K., Janila P., Radhakrishnan T., Varshney R.K., Bera S.K., (2021), ‘Fatty acid desaturase-2 (ahFAD2) mutant alleles in peanut (Arachis hypogaea L.) pre-breeding lines: an insight into the source, features, discourse, and selection of novel pre-breeding lines’, Genetic Resources and Crop Evolution, 68, 2, 529-549.
    • Daudi H., Shimelis H., Mathew I., Oteng‐Frimpong R., Ojiewo C., Varshney R.K., (2020), ‘Genetic diversity and population structure of groundnut (Arachis hypogaea L.) accessions using phenotypic traits and SSR markers: implications for rust resistance breeding’, Genetic Resources and Crop Evolution.
    • Song X., Sun P., Yuan J., Gong K., Li N., Meng F., Zhang Z., Li X., Hu J., Wang J., Yang Q., Jiao B., Nie F., Liu T., Chen W., Feng S., Pei Q., Yu T., Kang X., Zhao W., Cui C., Yu Y., Wu T., Shan L., Liu M., Qin Z., Lin H., Varshney R.K., Li X.-Q., Paterson A.H., Wang X., (2020), ‘The celery genome sequence reveals sequential paleo-polyploidizations, karyotype evolution and resistance gene reduction in apiales’, Plant Biotechnology Journal.
    • Liu H., Liang X., Lu Q., Li H., Liu H., Li S., Varshney R., Hong Y., Chen X., (2020), ‘Global transcriptome analysis of subterranean pod and seed in peanut (Arachis hypogaea L.) unravels the complexity of fruit development under dark condition’, Scientific Reports, 10, 1.
    • Subramaniam G., Thakur V., Saxena R.K., Vadlamudi S., Purohit S., Kumar V., Rathore A., Chitikineni A., Varshney R.K., (2020), ‘Complete genome sequence of sixteen plant growth promoting Streptomyces strains’, Scientific Reports, 10, 1.
    • Bhogireddy S., Xavier A., Garg V., Layland N., Arias R., Payton P., Nayak S.N., Pandey M.K., Puppala N., Varshney R.K., (2020), ‘Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms’, Scientific Reports, 10, 1.
    • Obala J., Saxena R.K., Singh V.K., Kale S.M., Garg V., Kumar C.V.S., Saxena K.B., Tongoona P., Sibiya J., Varshney R.K., (2020), ‘Seed protein content and its relationships with agronomic traits in pigeonpea is controlled by both main and epistatic effects QTLs’, Scientific Reports, 10, 1.
    • Wang X., Xu P., Ren Y., Yin L., Li S., Wang Y., Shi Y., Li H., Cao X., Chi X., Yu T., Pandey M.K., Varshney R.K., Yuan M., (2020), ‘Genome-wide identification of meiotic recombination hot spots detected by SLAF in peanut (Arachis hypogaea L.)’, Scientific Reports, 10, 1.
    • Fountain J.C., Clevenger J.P., Nadon B., Youngblood R.C., Korani W., Chang P.-K., Starr D., Wang H., Isett B., Richard Johnston H., Wiggins R., Agarwal G., Chu Y., Kemerait R.C., Pandey M.K., Bhatnagar D., Ozias-Akins P., Varshney R.K., Scheffler B.E., Vaughn J.N., Guo B., (2020), ‘Two new aspergillus flavus reference genomes reveal a large insertion potentially contributing to isolate stress tolerance and aflatoxin production’, G3: Genes, Genomes, Genetics, 10, 10, 3515-3531.
    • Mwalongo S., Akpo E., Lukurugu G.A., Muricho G., Vernooy R., Minja A., Ojiewo C., Njuguna E., Otieno G., Varshney R., (2020), ‘Factors influencing preferences and adoption of improved groundnut varieties among farmers in Tanzania’, Agronomy, 10, 9.
    • Saxena R.K., Hake A., Hingane A.J., Kumar C.V.S., Bohra A., Sonnappa M., Rathore A., Kumar A.V., Mishra A., Tikle A.N., Sudhakar C., Rajamani S., Patil D.K., Singh I.P., Singh N.P., Varshney R.K., (2020), ‘Translational pigeonpea genomics consortium for accelerating genetic gains in pigeonpea (cajanus cajan l.)’, Agronomy, 10, 9.
    • Santantonio N., Atanda S.A., Beyene Y., Varshney R.K., Olsen M., Jones E., Roorkiwal M., Gowda M., Bharadwaj C., Gaur P.M., Zhang X., Dreher K., Ayala-Hernández C., Crossa J., Pérez-Rodríguez P., Rathore A., Gao S.Y., McCouch S., Robbins K.R., (2020), ‘Strategies for Effective Use of Genomic Information in Crop Breeding Programs Serving Africa and South Asia’, Frontiers in Plant Science, 11.
    • Akpo E., Feleke G., Fikre A., Chichaybelu M., Ojiewo C.O., Varshney R.K., (2020), ‘Analyzing pathways of nurturing informal seed production into formal private ventures for sustainable seed delivery and crop productivity: Experiences from Ethiopia’, Sustainability (Switzerland), 12, 17.
    • Yu B., Jiang H., Pandey M.K., Huang L., Huai D., Zhou X., Kang Y., Varshney R.K., Sudini H.K., Ren X., Luo H., Liu N., Chen W., Guo J., Li W., Ding Y., Jiang Y., Lei Y., Liao B., (2020), ‘Identification of two novel peanut genotypes resistant to aflatoxin production and their SNP markers associated with resistance’, Toxins, 12, 3.
    • Jensen S.E., Charles J.R., Muleta K., Bradbury P.J., Casstevens T., Deshpande S.P., Gore M.A., Gupta R., Ilut D.C., Johnson L., Lozano R., Miller Z., Ramu P., Rathore A., Romay M.C., Upadhyaya H.D., Varshney R.K., Morris G.P., Pressoir G., Buckler E.S., Ramstein G.P., (2020), ‘A sorghum practical haplotype graph facilitates genome-wide imputation and cost-effective genomic prediction’, Plant Genome, 13, 1.
    • McCouch S., Navabi Z.K., Abberton M., Anglin N.L., Barbieri R.L., Baum M., Bett K., Booker H., Brown G.L., Bryan G.J., Cattivelli L., Charest D., Eversole K., Freitas M., Ghamkhar K., Grattipaglia D., Henry R., Valadares Inglis M.C., Islam T., Kehel Z., Kersey P.J., King G.J., Kresovich S., Marden E., Mayes S., Ndjiondjiop M.N., Nguyen H.T., Paiva S.R., Papa R., Phillips P.W.B., Rasheed A., Richards C., Rouard M., Amstalden Sampaio M.J., Scholz U., Shaw P.D., Sherman B., Staton S.E., Stein N., Svensson J., Tester M., Montenegro Valls J.F., Varshney R., Visscher S., von Wettberg E., Waugh R., Wenzl P., Rieseberg L.H., (2020), ‘Mobilizing Crop Biodiversity’, Molecular Plant, 13, 10, 1341-1344.
    • Pazhamala L.T., Chaturvedi P., Bajaj P., Srikanth S., Ghatak A., Chitikineni A., Bellaire A., Hingane A., Kumar C.V.S., Saxena K.B., Weckwerth W., Saxena R.K., Varshney R.K., (2020), ‘Multiomics approach unravels fertility transition in a pigeonpea line for a two-line hybrid system’, Plant Genome, 13, 2.
    • Fountain J.C., Pandey A.K., Nayak S.N., Bajaj P., Wang H., Kumar V., Chitikineni A., Abbas H.K., Scully B.T., Kemerait R.C., Pandey M.K., Guo B., Varshney R.K., (2020), ‘Transcriptional responses of toxigenic and atoxigenic isolates of Aspergillus flavus to oxidative stress in aflatoxin-conducive and non-conducive media’, World Mycotoxin Journal, 13, 4, 443-457.
    • Pandey M.K., Chaudhari S., Jarquin D., Janila P., Crossa J., Patil S.C., Sundravadana S., Khare D., Bhat R.S., Radhakrishnan T., Hickey J.M., Varshney R.K., (2020), ‘Genome-based trait prediction in multi- environment breeding trials in groundnut’, Theoretical and Applied Genetics, 133, 11, 3101-3117.
    • Saxena R.K., Kale S., Mir R.R., Mallikarjuna N., Yadav P., Das R.R., Molla J., Sonnappa M., Ghanta A., Narasimhan Y., Rathore A., Kumar C.V.S., Varshney R.K., (2020), ‘Genotyping-by-sequencing and multilocation evaluation of two interspecific backcross populations identify QTLs for yield-related traits in pigeonpea’, Theoretical and Applied Genetics, 133, 3, 737-749.
    • Gupta S.K., Patil K.S., Rathore A., Yadav D.V., Sharma L.D., Mungra K.D., Patil H.T., Gupta S.K., Kumar R., Chaudhary V., Das R.R., Kumar A., Singh V., Srivastava R.K., Gupta R., Boratkar M., Varshney R.K., Rai K.N., Yadav O.P., (2020), ‘Identification of heterotic groups in South-Asian-bred hybrid parents of pearl millet’, Theoretical and Applied Genetics, 133, 3, 873-888.
    • Luo H., Pandey M.K., Zhi Y., Zhang H., Xu S., Guo J., Wu B., Chen H., Ren X., Zhou X., Chen Y., Chen W., Huang L., Liu N., Sudini H.K., Varshney R.K., Lei Y., Liao B., Jiang H., (2020), ‘Discovery of two novel and adjacent QTLs on chromosome B02 controlling resistance against bacterial wilt in peanut variety Zhonghua 6′, Theoretical and Applied Genetics, 133, 4, 1133-1148.
    • Khan S.A., Chen H., Deng Y., Chen Y., Zhang C., Cai T., Ali N., Mamadou G., Xie D., Guo B., Varshney R.K., Zhuang W., (2020), ‘High-density SNP map facilitates fine mapping of QTLs and candidate genes discovery for Aspergillus flavus resistance in peanut (Arachis hypogaea)’, Theoretical and Applied Genetics, 133, 7, 2239-2257.
    • Pattanashetti S.K., Pandey M.K., Naidu G.K., Vishwakarma M.K., Singh O.K., Shasidhar Y., Boodi I.H., Biradar B.D., Das R.R., Rathore A., Varshney R.K., (2020), ‘Identification of quantitative trait loci associated with iron deficiency chlorosis resistance in groundnut (Arachis hypogaea)’, Plant Breeding, 139, 4, 790-803.
    • Singh U.M., Sinha P., Dixit S., Abbai R., Venkateshwarlu C., Chitikineni A., Singh V.K., Varshney R.K., Kumar A., (2020), ‘Unraveling candidate genomic regions responsible for delayed leaf senescence in rice’, PLoS ONE, 15, 44479.
    • Sachdeva S., Bharadwaj C., Singh R.K., Jain P.K., Patil B.S., Roorkiwal M., Varshney R., (2020), ‘Characterization of ASR gene and its role in drought tolerance in chickpea (Cicer arietinum L.)’, PLoS ONE, 15, 7.
    • Sinha P., Bajaj P., Pazhamala L.T., Nayak S.N., Pandey M.K., Chitikineni A., Huai D., Khan A.W., Desai A., Jiang H., Zhuang W., Guo B., Liao B., Varshney R.K., (2020), ‘Arachis hypogaea gene expression atlas for fastigiata subspecies of cultivated groundnut to accelerate functional and translational genomics applications’, Plant Biotechnology Journal, 18, 11, 2187-2200.
    • Sinha P., Singh V.K., Saxena R.K., Khan A.W., Abbai R., Chitikineni A., Desai A., Molla J., Upadhyaya H.D., Kumar A., Varshney R.K., (2020), ‘Superior haplotypes for haplotype-based breeding for drought tolerance in pigeonpea (Cajanus cajan L.)’, Plant Biotechnology Journal, 18, 12, 2482-2490.
    • Li S., Zhu Y., Varshney R.K., Zhan J., Zheng X., Shi J., Wang X., Liu G., Wang H., (2020), ‘A systematic dissection of the mechanisms underlying the natural variation of silique number in rapeseed (Brassica napus L.) germplasm’, Plant Biotechnology Journal, 18, 2, 568-580.
    • Huang L., Liu X., Pandey M.K., Ren X., Chen H., Xue X., Liu N., Huai D., Chen Y., Zhou X., Luo H., Chen W., Lei Y., Liu K., Xiao Y., Varshney R.K., Liao B., Jiang H., (2020), ‘Genome-wide expression quantitative trait locus analysis in a recombinant inbred line population for trait dissection in peanut’, Plant Biotechnology Journal, 18, 3, 779-790.
    • Kumar R., Janila P., Vishwakarma M.K., Khan A.W., Manohar S.S., Gangurde S.S., Variath M.T., Shasidhar Y., Pandey M.K., Varshney R.K., (2020), ‘Whole-genome resequencing-based QTL-seq identified candidate genes and molecular markers for fresh seed dormancy in groundnut’, Plant Biotechnology Journal, 18, 4, 992-1003.
    • Gangurde S.S., Wang H., Yaduru S., Pandey M.K., Fountain J.C., Chu Y., Isleib T., Holbrook C.C., Xavier A., Culbreath A.K., Ozias-Akins P., Varshney R.K., Guo B., (2020), ‘Nested-association mapping (NAM)-based genetic dissection uncovers candidate genes for seed and pod weights in peanut (Arachis hypogaea)’, Plant Biotechnology Journal, 18, 6, 1457-1471.
    • Sinha P., Singh V.K., Saxena R.K., Kale S.M., Li Y., Garg V., Meifang T., Khan A.W., Kim K.D., Chitikineni A., Saxena K.B., Sameer Kumar C.V., Liu X., Xu X., Jackson S., Powell W., Nevo E., Searle I.R., Lodha M., Varshney R.K., (2020), ‘Genome-wide analysis of epigenetic and transcriptional changes associated with heterosis in pigeonpea’, Plant Biotechnology Journal, 18, 8, 1697-1710.
    • Zhao J., Bayer P.E., Ruperao P., Saxena R.K., Khan A.W., Golicz A.A., Nguyen H.T., Batley J., Edwards D., Varshney R.K., (2020), ‘Trait associations in the pangenome of pigeon pea (Cajanus cajan)’, Plant Biotechnology Journal, 18, 9, 1946-1954.
    • Wan L., Lei Y., Yan L., Liu Y., Pandey M.K., Wan X., Varshney R.K., Fang J., Liao B., (2020), ‘Transcriptome and metabolome reveal redirection of flavonoids in a white testa peanut mutant’, BMC Plant Biology, 20, 1.
    • Saxena R.K., Molla J., Yadav P., Varshney R.K., (2020), ‘High resolution mapping of restoration of fertility (Rf) by combining large population and high density genetic map in pigeonpea [Cajanus cajan (L.) Millsp]‘, BMC Genomics, 21, 1.
    • Liu N., Huang L., Chen W., Wu B., Pandey M.K., Luo H., Zhou X., Guo J., Chen H., Huai D., Chen Y., Lei Y., Liao B., Ren X., Varshney R.K., Jiang H., (2020), ‘Dissection of the genetic basis of oil content in Chinese peanut cultivars through association mapping’, BMC Genetics, 21, 1.
    • Soren K.R., Madugula P., Kumar N., Barmukh R., Sengar M.S., Bharadwaj C., Sharma P.C., Singh S., Bhandari A., Singh J., Sanwal S.K., Pal M., Sneha Priya P.R., Mann A., Sagurthi S.R., Shanmugavadivel P.S., Siddique K.H.M., Singh N.P., Roorkiwal M., Varshney R.K., (2020), ‘Genetic dissection and identification of candidate genes for salinity tolerance using axiom®cicerSNP array in chickpea’, International Journal of Molecular Sciences, 21, 14, 1-17.
    • Bhaskarla V., Zinta G., Ford R., Jain M., Varshney R.K., Mantri N., (2020), ‘Comparative root transcriptomics provide insights into drought adaptation strategies in chickpea (Cicer arietinum L.)’, International Journal of Molecular Sciences, 21, 5.
    • Rathnakumar A.L., Manohar S.S., Nadaf H.L., Patil S.C., Deshmukh M.P., Thirumalaisamy P.P., Kumar N., Lalwani H.B., Nagaraju P., Yenagi B., Patil S.S., Suryawanshi J., Khatod J., Kumbhar C.T., Kathmale D.K., Naik K.S.S., Rajesh P., Vemana K., Sundaravadana S., Premalatha N., Variath M.T., Chaudhari S., Radhakrishnan T., Pandey M.K., Varshney R.K., Janila P., (2020), ‘G × E interactions in QTL introgression lines of Spanish-type groundnut (Arachis hypogaea L.)’, Euphytica, 216, 6.
    • Palit P., Kudapa H., Zougmore R., Kholova J., Whitbread A., Sharma M., Varshney R.K., (2020), ‘An integrated research framework combining genomics, systems biology, physiology, modelling and breeding for legume improvement in response to elevated CO2 under climate change scenario’, Current Plant Biology, 22.
    • Akpo E., Muricho G., Lukurugu G.A., Opie H., Ojiewo C.O., Varshney R., (2020), ‘Legume seed production for sustainable seed supply and crop productivity: case of groundnut in Tanzania and Uganda’, Journal of Crop Improvement, 34, 4, 518-539.
    • Soni P., Nayak S.N., Kumar R., Pandey M.K., Singh N., Sudini H.K., Bajaj P., Fountain J.C., Singam P., Hong Y., Chen X., Zhuang W., Liao B., Guo B., Varshney R.K., (2020), ‘Transcriptome analysis identified coordinated control of key pathways regulating cellular physiology and metabolism upon aspergillus flavus infection resulting in reduced aflatoxin production in groundnut’, Journal of Fungi, 6, 4, 1-23.
    • Sab S., Lokesha R., Mannur D.M., Somasekhar, Jadhav K., Mallikarjuna B.P., Laxuman C., Yeri S., Valluri V., Bajaj P., Chitikineni A., Vemula A., Rathore A., Varshney R.K., Shankergoud I., Thudi M., (2020), ‘Genome-Wide SNP Discovery and Mapping QTLs for Seed Iron and Zinc Concentrations in Chickpea (Cicer arietinum L.)’, Frontiers in Nutrition, 7.
    • Shasidhar Y., Variath M.T., Vishwakarma M.K., Manohar S.S., Gangurde S.S., Sriswathi M., Sudini H.K., Dobariya K.L., Bera S.K., Radhakrishnan T., Pandey M.K., Janila P., Varshney R.K., (2020), ‘Improvement of three popular Indian groundnut varieties for foliar disease resistance and high oleic acid using SSR markers and SNP array in marker-assisted backcrossing’, Crop Journal, 8, 1, 1-15.
    • Pandey A.K., Sudini H.K., Upadhyaya H.D., Varshney R.K., Pandey M.K., (2019), ‘Hypoallergen Peanut Lines Identified Through Large-Scale Phenotyping of Global Diversity Panel: Providing Hope Toward Addressing One of the Major Global Food Safety Concerns’, Frontiers in Genetics, 10.
    • Valliyodan B., Cannon S.B., Bayer P.E., Shu S., Brown A.V., Ren L., Jenkins J., Chung C.Y.L., Chan T.-F., Daum C.G., Plott C., Hastie A., Baruch K., Barry K.W., Huang W., Patil G., Varshney R.K., Hu H., Batley J., Yuan Y., Song Q., Stupar R.M., Goodstein D.M., Stacey G., Lam H.-M., Jackson S.A., Schmutz J., Grimwood J., Edwards D., Nguyen H.T., (2019), ‘Construction and comparison of three reference-quality genome assemblies for soybean’, Plant Journal, 100, 5, 1066-1082.
    • Gumma M.K., Tsusaka T.W., Mohammed I., Chavula G., Ganga Rao N.V.P.R., Okori P., Ojiewo C.O., Varshney R., Siambi M., Whitbread A., (2019), ‘Monitoring changes in the cultivation of pigeonpea and groundnut in Malawi using time series satellite imagery for sustainable food systems’, Remote Sensing, 11, 12.
    • Rezaei M.K., Deokar A.A., Arganosa G., Roorkiwal M., Pandey S.K., Warkentin T.D., Varshney R.K., Tar’an B., (2019), ‘Mapping quantitative trait loci for carotenoid concentration in three f2 populations of chickpea’, Plant Genome, 12, 3.
    • Chen X., Lu Q., Liu H., Zhang J., Hong Y., Lan H., Li H., Wang J., Liu H., Li S., Pandey M.K., Zhang Z., Zhou G., Yu J., Zhang G., Yuan J., Li X., Wen S., Meng F., Yu S., Wang X., Siddique K.H.M., Liu Z.-J., Paterson A.H., Varshney R.K., Liang X., (2019), ‘Sequencing of Cultivated Peanut, Arachis hypogaea, Yields Insights into Genome Evolution and Oil Improvement’, Molecular Plant, 12, 7, 920-934.
    • Dodia S.M., Joshi B., Gangurde S.S., Thirumalaisamy P.P., Mishra G.P., Narandrakumar D., Soni P., Rathnakumar A.L., Dobaria J.R., Sangh C., Chitikineni A., Chanda S.V., Pandey M.K., Varshney R.K., Thankappan R., (2019), ‘Genotyping-by-sequencing based genetic mapping reveals large number of epistatic interactions for stem rot resistance in groundnut’, Theoretical and Applied Genetics, 132, 4, 1001-1016.
    • Varshney R.K., Ojiewo C., Monyo E., (2019), ‘A decade of Tropical Legumes projects: Development and adoption of improved varieties, creation of market-demand to benefit smallholder farmers and empowerment of national programmes in sub-Saharan Africa and South Asia’, Plant Breeding, 138, 4, 379-388.
    • Rubyogo J.-C., Akpo E., Omoigui L., Pooran G., Chaturvedi S.K., Fikre A., Haile D., Hakeem A., Monyo E., Nkalubo S., Fenta B., Binagwa P., Kilango M., Williams M., Mponda O., Okello D., Chichaybelu M., Miningou A., Bationo J., Sako D., Kouyate Z., Diallo S., Oteng-Frimpong R., Yirzagla J., Iorlamen T., Garba U., Mohammed H., Ojiewo C., Kamara A., Varshney R., Nigam S.N., Janila P., Nadaf H.L., Kalemera S., (2019), ‘Market-led options to scale up legume seeds in developing countries: Experiences from the Tropical Legumes Project’, Plant Breeding, 138, 4, 474-486.
    • Jadhav Y., Manohar S.S., Sunkad G., Kannalli V.P., Pandey M.K., Variath M.T., Yaduru S., Kona P., Varshney R.K., Pasupuleti J., (2019), ‘Genomic regions associated with resistance to peanut bud necrosis disease (PBND) in a recombinant inbred line (RIL) population’, Plant Breeding, 138, 6, 748-760.
    • Bera S.K., Kamdar J.H., Kasundra S.V., Patel S.V., Jasani M.D., Maurya A.K., Dash P., Chandrashekar A.B., Rani K., Manivannan N., Janila P., Pandey M.K., Vasanthi R.P., Dobariya K.L., Radhakrishnan T., Varshney R.K., (2019), ‘Steady expression of high oleic acid in peanut bred by marker-assisted backcrossing for fatty acid desaturase mutant alleles and its effect on seed germination along with other seedling traits’, PLoS ONE, 14, 12.
    • Jain A., Roorkiwal M., Kale S., Garg V., Yadala R., Varshney R.K., (2019), ‘InDel markers: An extended marker resource for molecular breeding in chickpea’, PLoS ONE, 14, 3.
    • Arbelaez J.D., Tandayu E., Reveche M.Y., Jarana A., van Rogen P., Sandager L., Stolt P., Ng E., Varshney R.K., Kretzschmar T., Cobb J., (2019), ‘Methodology: SSB-MASS: A single seed-based sampling strategy for marker-assisted selection in rice’, Plant Methods, 15, 1, 1-11.
    • Luo H., Pandey M.K., Khan A.W., Wu B., Guo J., Ren X., Zhou X., Chen Y., Chen W., Huang L., Liu N., Lei Y., Liao B., Varshney R.K., Jiang H., (2019), ‘Next-generation sequencing identified genomic region and diagnostic markers for resistance to bacterial wilt on chromosome B02 in peanut (Arachis hypogaea L.)’, Plant Biotechnology Journal, 17, 12, 2356-2369.
    • Ha J., Shim S., Lee T., Kang Y.J., Hwang W.J., Jeong H., Laosatit K., Lee J., Kim S.K., Satyawan D., Lestari P., Yoon M.Y., Kim M.Y., Chitikineni A., Tanya P., Somta P., Srinives P., Varshney R.K., Lee S.-H., (2019), ‘Genome sequence of Jatropha curcas L., a non-edible biodiesel plant, provides a resource to improve seed-related traits’, Plant Biotechnology Journal, 17, 2, 517-530.
    • Garg V., Khan A.W., Kudapa H., Kale S.M., Chitikineni A., Qiwei S., Sharma M., Li C., Zhang B., Xin L., Kishor P.B.K., Varshney R.K., (2019), ‘Integrated transcriptome, small RNA and degradome sequencing approaches provide insights into Ascochyta blight resistance in chickpea’, Plant Biotechnology Journal, 17, 5, 914-931.
    • Luo H., Pandey M.K., Khan A.W., Guo J., Wu B., Cai Y., Huang L., Zhou X., Chen Y., Chen W., Liu N., Lei Y., Liao B., Varshney R.K., Jiang H., (2019), ‘Discovery of genomic regions and candidate genes controlling shelling percentage using QTL-seq approach in cultivated peanut (Arachis hypogaea L.)’, Plant Biotechnology Journal, 17, 7, 1248-1260.
    • Abbai R., Singh V.K., Nachimuthu V.V., Sinha P., Selvaraj R., Vipparla A.K., Singh A.K., Singh U.M., Varshney R.K., Kumar A., (2019), ‘Haplotype analysis of key genes governing grain yield and quality traits across 3K RG panel reveals scope for the development of tailor-made rice with enhanced genetic gains’, Plant Biotechnology Journal, 17, 8, 1612-1622.
    • Fountain J.C., Yang L., Pandey M.K., Bajaj P., Alexander D., Chen S., Kemerait R.C., Varshney R.K., Guo B., (2019), ‘Carbohydrate, glutathione, and polyamine metabolism are central to Aspergillus flavus oxidative stress responses over time’, BMC microbiology, 19, 1, 209.
    • Lu Q., Hong Y., Li S., Liu H., Li H., Zhang J., Lan H., Liu H., Li X., Wen S., Zhou G., Varshney R.K., Jiang H., Chen X., Liang X., (2019), ‘Genome-wide identification of microsatellite markers from cultivated peanut (Arachis hypogaea L.)’, BMC Genomics, 20, 1.
    • Subedi S.R., Sandhu N., Singh V.K., Sinha P., Kumar S., Singh S.P., Ghimire S.K., Pandey M., Yadaw R.B., Varshney R.K., Kumar A., (2019), ‘Genome-wide association study reveals significant genomic regions for improving yield, adaptability of rice under dry direct seeded cultivation condition’, BMC Genomics, 20, 1.
    • Yadav P., Saxena K.B., Hingane A., Kumar C.V.S., Kandalkar V.S., Varshney R.K., Saxena R.K., (2019), ‘An “axiom Cajanus SNP Array” based high density genetic map and QTL mapping for high-selfing flower and seed quality traits in pigeonpea’, BMC Genomics, 20, 1.
    • Yu B., Huai D., Huang L., Kang Y., Ren X., Chen Y., Zhou X., Luo H., Liu N., Chen W., Lei Y., Pandey M.K., Sudini H., Varshney R.K., Liao B., Jiang H., (2019), ‘Identification of genomic regions and diagnostic markers for resistance to aflatoxin contamination in peanut (Arachis hypogaea L.)’, BMC Genetics, 20, 1.
    • Banerjee A., Somani V.K., Chakraborty P., Bhatnagar R., Varshney R.K., Echeverría-Vega A., Cuadros-Orellana S., Bandopadhyay R., (2019), ‘Molecular and genomic characterization of pfab2: A non-virulent bacillus anthracis strain isolated from an indian hot spring’, Current Genomics, 20, 7, 491-507.
    • Liu H., Pandey M.K., Xu Z., Rao D., Huang Z., Chen M., Feng D., Varshney R.K., Hong Y., (2019), ‘Analysis and evaluation of quality traits of peanut varieties with near infra-red spectroscopy technology’, International Journal of Agriculture and Biology, 21, 3, 491-498.
    • Obala J., Saxena R.K., Singh V.K., Kumar C.V.S., Saxena K.B., Tongoona P., Sibiya J., Varshney R.K., (2019), ‘Development of sequence-based markers for seed protein content in pigeonpea’, Molecular Genetics and Genomics, 294, 1, 57-68.
    • Khera P., Pandey M.K., Mallikarjuna N., Sriswathi M., Roorkiwal M., Janila P., Sharma S., Shilpa K., Sudini H., Guo B., Varshney R.K., (2019), ‘Genetic imprints of domestication for disease resistance, oil quality, and yield component traits in groundnut (Arachis hypogaea L.)’, Molecular Genetics and Genomics, 294, 2, 365-378.
    • Varshney R.K., Godwin I.D., Mohapatra T., Jones J.D.G., McCouch S.R., (2019), ‘A SWEET solution to rice blight’, Nature Biotechnology, 37, 11, 1280-1282.
    • Mannur D.M., Babbar A., Thudi M., Sabbavarapu M.M., Roorkiwal M., Yeri S.B., Bansal V.P., Jayalakshmi S.K., Singh Yadav S., Rathore A., Chamarthi S.K., Mallikarjuna B.P., Gaur P.M., Varshney R.K., (2019), ‘Super Annigeri 1 and improved JG 74: two Fusarium wilt-resistant introgression lines developed using marker-assisted backcrossing approach in chickpea (Cicer arietinum L.)’, Molecular Breeding, 39, 1.
    • Foyer C.H., Siddique K.H.M., Tai A.P.K., Anders S., Fodor N., Wong F.-L., Ludidi N., Chapman M.A., Ferguson B.J., Considine M.J., Zabel F., Prasad P.V.V., Varshney R.K., Nguyen H.T., Lam H.-M., (2019), ‘Modelling predicts that soybean is poised to dominate crop production across Africa’, Plant Cell and Environment, 42, 1, 373-385.
    • Varshney R.K., Thudi M., Roorkiwal M., He W., Upadhyaya H.D., Yang W., Bajaj P., Cubry P., Rathore A., Jian J., Doddamani D., Khan A.W., Garg V., Chitikineni A., Xu D., Gaur P.M., Singh N.P., Chaturvedi S.K., Nadigatla G.V.P.R., Krishnamurthy L., Dixit G.P., Fikre A., Kimurto P.K., Sreeman S.M., Bharadwaj C., Tripathi S., Wang J., Lee S.-H., Edwards D., Polavarapu K.K.B., Penmetsa R.V., Crossa J., Nguyen H.T., Siddique K.H.M., Colmer T.D., Sutton T., von Wettberg E., Vigouroux Y., Xu X., Liu X., (2019), ‘Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits’, Nature Genetics, 51, 5, 857-864.
    • Zhuang W., Chen H., Yang M., Wang J., Pandey M.K., Zhang C., Chang W.-C., Zhang L., Zhang X., Tang R., Garg V., Wang X., Tang H., Chow C.-N., Wang J., Deng Y., Wang D., Khan A.W., Yang Q., Cai T., Bajaj P., Wu K., Guo B., Zhang X., Li J., Liang F., Hu J., Liao B., Liu S., Chitikineni A., Yan H., Zheng Y., Shan S., Liu Q., Xie D., Wang Z., Khan S.A., Ali N., Zhao C., Li X., Luo Z., Zhang S., Zhuang R., Peng Z., Wang S., Mamadou G., Zhuang Y., Zhao Z., Yu W., Xiong F., Quan W., Yuan M., Li Y., Zou H., Xia H., Zha L., Fan J., Yu J., Xie W., Yuan J., Chen K., Zhao S., Chu W., Chen Y., Sun P., Meng F., Zhuo T., Zhao Y., Li C., He G., Zhao Y., Wang C., Kavikishor P.B., Pan R.-L., Paterson A.H., Wang X., Ming R., Varshney R.K., (2019), ‘The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication’, Nature Genetics, 51, 5, 865-876.
    • Bertioli D.J., Jenkins J., Clevenger J., Dudchenko O., Gao D., Seijo G., Leal-Bertioli S.C.M., Ren L., Farmer A.D., Pandey M.K., Samoluk S.S., Abernathy B., Agarwal G., Ballén-Taborda C., Cameron C., Campbell J., Chavarro C., Chitikineni A., Chu Y., Dash S., El Baidouri M., Guo B., Huang W., Kim K.D., Korani W., Lanciano S., Lui C.G., Mirouze M., Moretzsohn M.C., Pham M., Shin J.H., Shirasawa K., Sinharoy S., Sreedasyam A., Weeks N.T., Zhang X., Zheng Z., Sun Z., Froenicke L., Aiden E.L., Michelmore R., Varshney R.K., Holbrook C.C., Cannon E.K.S., Scheffler B.E., Grimwood J., Ozias-Akins P., Cannon S.B., Jackson S.A., Schmutz J., (2019), ‘The genome sequence of segmental allotetraploid peanut Arachis hypogaea’, Nature Genetics, 51, 5, 877-884.
    • Pandey A.K., Varshney R.K., Sudini H.K., Pandey M.K., (2019), ‘An improved enzyme-linked immunosorbent assay (ELISA) based protocol using seeds for detection of five major peanut allergens ara h 1, ara h 2, ara h 3, ara h 6, and ara h 8′, Frontiers in Nutrition, 6.
    • Sachdeva S., Bharadwaj C., Singh S., Roorkiwal M., Sharma V., Singh A., Varshney R., (2019), ‘Yield plasticity and molecular diversity analysis in chickpea (Cicer arietinum)’, Indian Journal of Agricultural Sciences, 89, 5, 834-841.
    • Sandhu N., Subedi S.R., Singh V.K., Sinha P., Kumar S., Singh S.P., Ghimire S.K., Pandey M., Yadaw R.B., Varshney R.K., Kumar A., (2019), ‘Deciphering the genetic basis of root morphology, nutrient uptake, yield, and yield-related traits in rice under dry direct-seeded cultivation systems’, Scientific Reports, 9, 1.
    • Agarwal G., Clevenger J., Kale S.M., Wang H., Pandey M.K., Choudhary D., Yuan M., Wang X., Culbreath A.K., Holbrook C.C., Liu X., Varshney R.K., Guo B., (2019), ‘A recombination bin-map identified a major QTL for resistance to Tomato Spotted Wilt Virus in peanut (Arachis hypogaea)’, Scientific Reports, 9, 1.
    • Yadav S., Sandhu N., Majumder R.R., Dixit S., Kumar S., Singh S.P., Mandal N.P., Das S.P., Yadaw R.B., Singh V.K., Sinha P., Varshney R.K., Kumar A., (2019), ‘Epistatic interactions of major effect drought QTLs with genetic background loci determine grain yield of rice under drought stress’, Scientific Reports, 9, 1.
    • Saxena R.K., Rathore A., Bohra A., Yadav P., Das R.R., Khan A.W., Singh V.K., Chitikineni A., Singh I.P., Kumar C.V.S., Saxena K.B., Varshney R.K., (2018), ‘Development and application of high-density axiom cajanus SNP array with 56K SNPs to understand the genome architecture of released cultivars and founder genotypes’, Plant Genome, 11.
    • Gayathri M., Shirasawa K., Varshney R.K., Pandey M.K., Bhat R.S., (2018), ‘Development of AhMITE1 markers through genome-wide analysis in peanut (Arachis hypogaea L.)’, BMC Research Notes, 11, 1.
    • Obala J., Saxena R.K., Singh V.K., Vechalapu S., Das R., Rathore A., Sameer-Kumar C.V., Saxena K., Tongoona P., Sibiya J., Varshney R.K., (2018), ‘Genetic variation and relationships of total seed protein content with some agronomic traits in pigeonpea (Cajanus cajan (L.) Millsp.)’, Australian Journal of Crop Science, 12, 12, 1859-1865.
    • Choudhary N., Bawa V., Paliwal R., Singh B., Ashraf Bhat M., Mir J.I., Gupta M., Sofi P.A., Thudi M., Varshney R.K., Mir R.R., (2018), ‘Gene/QTL discovery for Anthracnose in common bean (Phaseolus vulgaris L.) from North-western Himalayas’, PLoS ONE, 13, 2.
    • Mashaki K.M., Garg V., Nasrollahnezhad Ghomi A.A., Kudapa H., Chitikineni A., Nezhad K.Z., Yamchi A., Soltanloo H., Varshney R.K., Thudi M., (2018), ‘RNA-Seq analysis revealed genes associated with drought stress response in kabuli chickpea (Cicer arietinum L.)’, PLoS ONE, 13, 6.
    • Saxena R.K., Patel K., Sameer Kumar C.V., Tyagi K., Saxena K.B., Varshney R.K., (2018), ‘Molecular mapping and inheritance of restoration of fertility (Rf) in A4 hybrid system in pigeonpea (Cajanus cajan (L.) Millsp.)’, Theoretical and Applied Genetics, 131, 8, 1605-1614.
    • Bera S.K., Manohar S.S., Variath M.T., Chaudhari S., Yaduru S., Thankappan R., Narayana M., Kurapati S., Pandey M.K., Sudini H.K., Shanmugavel S., Kulandaivelu G., Varshney R.K., Pasupuleti J., (2018), ‘Assessing variability for disease resistance and nutritional quality traits in an interspecific collection of groundnut (Arachis hypogaea)’, Plant Breeding, 137, 6, 883-894.
    • Patil G., Vuong T.D., Kale S., Valliyodan B., Deshmukh R., Zhu C., Wu X., Bai Y., Yungbluth D., Lu F., Kumpatla S., Shannon J.G., Varshney R.K., Nguyen H.T., (2018), ‘Dissecting genomic hotspots underlying seed protein, oil, and sucrose content in an interspecific mapping population of soybean using high-density linkage mapping’, Plant Biotechnology Journal, 16, 11, 1939-1953.
    • Agarwal G., Clevenger J., Pandey M.K., Wang H., Shasidhar Y., Chu Y., Fountain J.C., Choudhary D., Culbreath A.K., Liu X., Huang G., Wang X., Deshmukh R., Holbrook C.C., Bertioli D.J., Ozias-Akins P., Jackson S.A., Varshney R.K., Guo B., (2018), ‘High-density genetic map using whole-genome resequencing for fine mapping and candidate gene discovery for disease resistance in peanut’, Plant Biotechnology Journal, 16, 11, 1954-1967.
    • Anggraeni T.D.A., Satyawan D., Kang Y.J., Ha J., Kim M.Y., Chitikineni A., Varshney R.K., Lee S.-H., (2018), ‘Genetic diversity of Jatropha curcas collections from different islands in Indonesia’, Plant Genetic Resources: Characterisation and Utilisation, 16, 4, 334-342.
    • Roorkiwal M., Jain A., Kale S.M., Doddamani D., Chitikineni A., Thudi M., Varshney R.K., (2018), ‘Development and evaluation of high-density Axiom®CicerSNP Array for high-resolution genetic mapping and breeding applications in chickpea’, Plant Biotechnology Journal, 16, 4, 890-901.
    • Sivasakthi K., Thudi M., Tharanya M., Kale S.M., Kholová J., Halime M.H., Jaganathan D., Baddam R., Thirunalasundari T., Gaur P.M., Varshney R.K., Vadez V., (2018), ‘Plant vigour QTLs co-map with an earlier reported QTL hotspot for drought tolerance while water saving QTLs map in other regions of the chickpea genome’, BMC Plant Biology, 18, 1.
    • Paul P.J., Samineni S., Thudi M., Sajja S.B., Rathore A., Das R.R., Khan A.W., Chaturvedi S.K., Lavanya G.R., Varshney R.K., Gaur P.M., (2018), ‘Molecular mapping of QTLs for heat tolerance in chickpea’, International Journal of Molecular Sciences, 19, 8.
    • Burgarella C., Cubry P., Kane N.A., Varshney R.K., Mariac C., Liu X., Shi C., Thudi M., Couderc M., Xu X., Chitikineni A., Scarcelli N., Barnaud A., Rhoné B., Dupuy C., François O., Berthouly-Salazar C., Vigouroux Y., (2018), ‘A western Sahara centre of domestication inferred from pearl millet genomes’, Nature Ecology and Evolution, 2, 9, 1377-1380.
    • Paul P.J., Samineni S., Sajja S.B., Rathore A., Das R.R., Chaturvedi S.K., Lavanya G.R., Varshney R.K., Gaur P.M., (2018), ‘Capturing genetic variability and selection of traits for heat tolerance in a chickpea recombinant inbred line (RIL) population under field conditions’, Euphytica, 214, 2.
    • Garg T., Mallikarjuna B.P., Thudi M., Samineni S., Singh S., Sandhu J.S., Kaur L., Singh I., Sirari A., Basandrai A.K., Basandrai D., Varshney R.K., Gaur P.M., (2018), ‘Identification of QTLs for resistance to Fusarium wilt and Ascochyta blight in a recombinant inbred population of chickpea (Cicer arietinum L.)’, Euphytica, 214, 3.
    • Bera S.K., Kamdar J.H., Kasundra S.V., Dash P., Maurya A.K., Jasani M.D., Chandrashekar A.B., Manivannan N., Vasanthi R.P., Dobariya K.L., Pandey M.K., Janila P., Radhakrishnan T., Varshney R.K., (2018), ‘Improving oil quality by altering levels of fatty acids through marker-assisted selection of ahfad2 alleles in peanut (Arachis hypogaea L.)’, Euphytica, 214, 9.
    • Wang X., Xu P., Yin L., Ren Y., Li S., Shi Y., Alcock T.D., Xiong Q., Qian W., Chi X., Pandey M.K., Varshney R.K., Yuan M., (2018), ‘Genomic and Transcriptomic Analysis Identified Gene Clusters and Candidate Genes for Oil Content in Peanut (Arachis hypogaea L.)’, Plant Molecular Biology Reporter, 36, 3, 518-529.
    • Khedikar Y., Pandey M.K., Sujay V., Singh S., Nayak S.N., Klein-Gebbinck H.W., Sarvamangala C., Mukri G., Garg V., Upadhyaya H.D., Nadaf H.L., Gowda M.V.C., Varshney R.K., Bhat R.S., (2018), ‘Identification of main effect and epistatic quantitative trait loci for morphological and yield-related traits in peanut (Arachis hypogaea L.)’, Molecular Breeding, 38, 1.
    • Kudapa H., Garg V., Chitikineni A., Varshney R.K., (2018), ‘The RNA-Seq-based high resolution gene expression atlas of chickpea (Cicer arietinum L.) reveals dynamic spatio-temporal changes associated with growth and development’, Plant Cell and Environment, 41, 9, 2209-2225.
    • Singh S., Gupta S.K., Thudi M., Das R.R., Vemula A., Garg V., Varshney R.K., Rathore A., Pahuja S.K., Yadav D.V., (2018), ‘Genetic diversity patterns and heterosis prediction based on SSRs and SNPs in hybrid parents of pearl millet’, Crop Science, 58, 6, 2379-2390.
    • Sachdeva S., Bharadwaj C., Sharma V., Patil B.S., Soren K.R., Roorkiwal M., Varshney R., Bhat K.V., (2018), ‘Molecular and phenotypic diversity among chickpea (Cicer arietinum) genotypes as a function of drought tolerance’, Crop and Pasture Science, 69, 2, 142-153.
    • Kaashyap M., Ford R., Kudapa H., Jain M., Edwards D., Varshney R., Mantri N., (2018), ‘Differential Regulation of Genes Involved in Root Morphogenesis and Cell Wall Modification is Associated with Salinity Tolerance in Chickpea’, Scientific Reports, 8, 1.
    • Paudel D., Kannan B., Yang X., Harris-Shultz K., Thudi M., Varshney R.K., Altpeter F., Wang J., (2018), ‘Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach)’, Scientific Reports, 8, 1.
    • Fountain J.C., Koh J., Yang L., Pandey M.K., Nayak S.N., Bajaj P., Zhuang W.-J., Chen Z.-Y., Kemerait R.C., Lee R.D., Chen S., Varshney R.K., Guo B., (2018), ‘Proteome analysis of Aspergillus flavus isolate-specific responses to oxidative stress in relationship to aflatoxin production capability’, Scientific Reports, 8, 1.
    • Roorkiwal M., Jarquin D., Singh M.K., Gaur P.M., Bharadwaj C., Rathore A., Howard R., Srinivasan S., Jain A., Garg V., Kale S., Chitikineni A., Tripathi S., Jones E., Robbins K.R., Crossa J., Varshney R.K., (2018), ‘Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea’, Scientific Reports, 8, 1.
    • Liang Z., Gupta S.K., Yeh C.-T., Zhang Y., Ngu D.W., Kumar R., Patil H.T., Mungra K.D., Yadav D.V., Rathore A., Srivastava R.K., Gupta R., Yang J., Varshney R.K., Schnable P.S., Schnable J.C., (2018), ‘Phenotypic data from inbred parents can improve genomic prediction in pearl millet hybrids’, G3: Genes, Genomes, Genetics, 8, 7, 2513-2522.
    • Shirasawa K., Bhat R.S., Khedikar Y.P., Sujay V., Kolekar R.M., Yeri S.B., Sukruth M., Cholin S., Asha B., Pandey M.K., Varshney R.K., Gowda M.V.C., (2018), ‘Sequencing analysis of genetic loci for resistance for late leaf spot and rust in peanut (arachis hypogaea l.)’, Frontiers in Plant Science, 871.
    • Lu Q., Li H., Hong Y., Zhang G., Wen S., Li X., Zhou G., Li S., Liu H., Liu H., Liu Z., Varshney R.K., Chen X., Liang X., (2018), ‘Genome sequencing and analysis of the peanut B-genome progenitor (Arachis ipaensis)’, Frontiers in Plant Science, 9.
    • Pushpavalli S.N.C.V.L., Yamini K.N., Anuradha, Rajani, Kumar G., Sudha Rani C., Sudhakar C., Saxena R.K., Varshney R.K., Sameer Kumar C.V., (2018), ‘Genetic variability and correlation in pigeonpea genotypes’, Electronic Journal of Plant Breeding, 9, 1, 343-349.
    • Kumari P.H., Kumar S.A., Ramesh K., Reddy P.S., Nagaraju M., Prakash A.B., Shah T., Henderson A., Srivastava R.K., Rajasheker G., Chitikineni A., Varshney R.K., Rathnagir P., Narasu M.L., Kishor P.B.K., (2018), ‘Genome-wide identification and analysis of arabidopsis sodium proton antiporter (NHX) and human sodium proton exchanger (NHE) homologs in sorghum bicolor’, Genes, 9, 5.
    • Clevenger J., Chu Y., Chavarro C., Agarwal G., Bertioli D.J., Leal-Bertioli S.C.M., Pandey M.K., Vaughn J., Abernathy B., Barkley N.A., Hovav R., Burow M., Nayak S.N., Chitikineni A., Isleib T.G., Holbrook C.C., Jackson S.A., Varshney R.K., Ozias-Akins P., (2017), ‘Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut’, Molecular Plant, 10, 2, 309-322.
    • Saxena R.K., Obala J., Sinjushin A., Kumar C.V.S., Saxena K.B., Varshney R.K., (2017), ‘Characterization and mapping of Dt1 locus which co-segregates with CcTFL1 for growth habit in pigeonpea’, Theoretical and Applied Genetics, 130, 9, 1773-1784.
    • Saxena K., Saxena R.K., Varshney R.K., (2017), ‘Use of immature seed germination and single seed descent for rapid genetic gains in pigeonpea’, Plant Breeding, 136, 6, 954-957.
    • Zongo A., Khera P., Sawadogo M., Shasidhar Y., Sriswathi M., Vishwakarma M.K., Sankara P., Ntare B.R., Varshney R.K., Pandey M.K., Desmae H., (2017), ‘SSR markers associated to early leaf spot disease resistance through selective genotyping and single marker analysis in groundnut (Arachis hypogaea L.)’, Biotechnology Reports, 15, , 132-137.
    • Singh V.K., Khan A.W., Saxena R.K., Sinha P., Kale S.M., Parupalli S., Kumar V., Chitikineni A., Vechalapu S., Sameer Kumar C.V., Sharma M., Ghanta A., Yamini K.N., Muniswamy S., Varshney R.K., (2017), ‘Indel-seq: a fast-forward genetics approach for identification of trait-associated putative candidate genomic regions and its application in pigeonpea (Cajanus cajan)’, Plant Biotechnology Journal, 15, 7, 906-914.
    • Pandey M.K., Khan A.W., Singh V.K., Vishwakarma M.K., Shasidhar Y., Kumar V., Garg V., Bhat R.S., Chitikineni A., Janila P., Guo B., Varshney R.K., (2017), ‘QTL-seq approach identified genomic regions and diagnostic markers for rust and late leaf spot resistance in groundnut (Arachis hypogaea L.)’, Plant Biotechnology Journal, 15, 8, 927-941.
    • Luo H., Ren X., Li Z., Xu Z., Li X., Huang L., Zhou X., Chen Y., Chen W., Lei Y., Liao B., Pandey M.K., Varshney R.K., Guo B., Jiang X., Liu F., Jiang H., (2017), ‘Co-localization of major quantitative trait loci for pod size and weight to a 3.7 cM interval on chromosome A05 in cultivated peanut (Arachis hypogaea L.)’, BMC Genomics, 18, 1.
    • Ramamoorthy P., Lakshmanan K., Upadhyaya H.D., Vadez V., Varshney R.K., (2017), ‘Root traits confer grain yield advantages under terminal drought in chickpea (Cicer arietinum L.)’, Field Crops Research, 201, , 146-161.
    • Pratap A., Chaturvedi S.K., Tomar R., Rajan N., Malviya N., Thudi M., Saabale P.R., Prajapati U., Varshney R.K., Singh N.P., (2017), ‘Marker-assisted introgression of resistance to fusarium wilt race 2 in Pusa 256, an elite cultivar of desi chickpea’, Molecular Genetics and Genomics, 292, 6, 1237-1245.
    • Varshney R.K., Shi C., Thudi M., Mariac C., Wallace J., Qi P., Zhang H., Zhao Y., Wang X., Rathore A., Srivastava R.K., Chitikineni A., Fan G., Bajaj P., Punnuri S., Gupta S.K., Wang H., Jiang Y., Couderc M., Katta M.A.V.S.K., Paudel D.R., Mungra K.D., Chen W., Harris-Shultz K.R., Garg V., Desai N., Doddamani D., Kane N.A., Conner J.A., Ghatak A., Chaturvedi P., Subramaniam S., Yadav O.P., Berthouly-Salazar C., Hamidou F., Wang J., Liang X., Clotault J., Upadhyaya H.D., Cubry P., Rhoné B., Gueye M.C., Sunkar R., Dupuy C., Sparvoli F., Cheng S., Mahala R.S., Singh B., Yadav R.S., Lyons E., Datta S.K., Tom Hash C., Devos K.M., Buckler E., Bennetzen J.L., Paterson A.H., Ozias-Akins P., Grando S., Wang J., Mohapatra T., Weckwerth W., Reif J.C., Liu X., Vigouroux Y., Xu X., (2017), ‘Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments’, Nature Biotechnology, 35, 10, 969-976.
    • Purushothaman R., Krishnamurthy L., Upadhyaya H.D., Vadez V., Varshney R.K., (2017), ‘Genotypic variation in soil water use and root distribution and their implications for drought tolerance in chickpea’, Functional Plant Biology, 44, 2, 235-252.
    • Varshney R.K., Saxena R.K., Upadhyaya H.D., Khan A.W., Yu Y., Kim C., Rathore A., Kim D., Kim J., An S., Kumar V., Anuradha G., Yamini K.N., Zhang W., Muniswamy S., Kim J.-S., Penmetsa R.V., Von Wettberg E., Datta S.K., (2017), ‘Whole-genome resequencing of 292 pigeonpea accessions identifies genomic regions associated with domestication and agronomic traits’, Nature Genetics, 49, 7, 1082-1088.
    • Halder U., Banerjee A., Chaudhry V., Varshney R.K., Mantri S., Bandopadhyay R., (2017), ‘Draft genome report of Bacillus altitudinis SORB11, isolated from the Indian sector of the Southern Ocean’, Genome Announcements, 5, 23.
    • Sharma S., Pandey M.K., Sudini H.K., Upadhyaya H.D., Varshney R.K., (2017), ‘Harnessing genetic diversity of wild arachis species for genetic enhancement of cultivated peanut’, Crop Science, 57, 3, 1121-1131.
    • Lin Y., Min J., Lai R., Wu Z., Chen Y., Yu L., Cheng C., Jin Y., Tian Q., Liu Q., Liu W., Zhang C., Lin L., Zhang D., Thu M., Zhang Z., Liu S., Zhong C., Fang X., Wang J., Yang H., Varshney R.K., Yin Y., Lai Z., (2017), ‘Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics’, GigaScience, 6, 5, 1-14.
    • Pazhamala L.T., Purohit S., Saxena R.K., Garg V., Krishnamurthy L., Verdier J., Varshney R.K., (2017), ‘Gene expression atlas of pigeonpea and its application to gain insights into genes associated with pollen fertility implicated in seed formation’, Journal of Experimental Botany, 68, 8, 2037-2054.
    • Pandey M.K., Agarwal G., Kale S.M., Clevenger J., Nayak S.N., Sriswathi M., Chitikineni A., Chavarro C., Chen X., Upadhyaya H.D., Vishwakarma M.K., Leal-Bertioli S., Liang X., Bertioli D.J., Guo B., Jackson S.A., Ozias-Akins P., Varshney R.K., (2017), ‘Development and Evaluation of a High Density Genotyping ‘Axiom-Arachis’ Array with 58 K SNPs for Accelerating Genetics and Breeding in Groundnut’, Scientific Reports, 7.
    • Kumari P.H., Kumar S.A., Sivan P., Katam R., Suravajhala P., Rao K.S., Varshney R.K., Kishor P.B.K., (2017), ‘Overexpression of a plasma membrane bound Na+/H+ antiporter-like protein (SbNHXLP) confers salt tolerance and improves fruit yield in tomato by maintaining ion homeostasis’, Frontiers in Plant Science, 7.
    • Xia Y., Li R., Bai G., Siddique K.H.M., Varshney R.K., Baum M., Yan G., Guo P., (2017), ‘Genetic variations of HvP5CS1 and their association with drought tolerance related traits in barley (Hordeum vulgare L.)’, Scientific Reports, 7, 1.
    • Atieno J., Li Y., Langridge P., Dowling K., Brien C., Berger B., Varshney R.K., Sutton T., (2017), ‘Exploring genetic variation for salinity tolerance in chickpea using image-based phenotyping’, Scientific Reports, 7, 1.
    • Nayak S.N., Agarwal G., Pandey M.K., Sudini H.K., Jayale A.S., Purohit S., Desai A., Wan L., Guo B., Liao B., Varshney R.K., (2017), ‘Aspergillus flavus infection triggered immune responses and host-pathogen cross-talks in groundnut during in-vitro seed colonization’, Scientific Reports, 7, 1.
    • Saxena R.K., Kale S.M., Kumar V., Parupali S., Joshi S., Singh V., Garg V., Das R.R., Sharma M., Yamini K.N., Ghanta A., Rathore A., Sameerkumar C.V., Saxena K.B., Varshney R.K., (2017), ‘Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea’, Scientific Reports, 7, 1.
    • Saxena R.K., Singh V.K., Kale S.M., Tathineni R., Parupalli S., Kumar V., Garg V., Das R.R., Sharma M., Yamini K.N., Muniswamy S., Ghanta A., Rathore A., Kumar C.V.S., Saxena K.B., Kishor P.B.K., Varshney R.K., (2017), ‘Construction of genotyping-by-sequencing based high-density genetic maps and QTL mapping for fusarium wilt resistance in pigeonpea’, Scientific Reports, 7, 1.
    • Vishwakarma M.K., Kale S.M., Sriswathi M., Naresh T., Shasidhar Y., Garg V., Pandey M.K., Varshney R.K., (2017), ‘Genome-wide discovery and deployment of insertions and deletions markers provided greater insights on species, genomes, and sections relationships in the genus arachis’, Frontiers in Plant Science, 8.
    • Zhao J., Huang L., Ren X., Pandey M.K., Wu B., Chen Y., Zhou X., Chen W., Xia Y., Li Z., Luo H., Lei Y., Varshney R.K., Liao B., Jiang H., (2017), ‘Genetic variation and association mapping of seed-related traits in cultivated peanut (Arachis hypogaea L.) using single-locus simple sequence repeat markers’, Frontiers in Plant Science, 8.
    • Zhao C., Qiu J., Agarwal G., Wang J., Ren X., Xia H., Guo B., Ma C., Wan S., Bertioli D.J., Varshney R.K., Pandey M.K., Wang X., (2017), ‘Genome-wide discovery of microsatellite markers from diploid progenitor species, arachis duranensis and A. Ipaensis, and their application in cultivated peanut (A. hypogaea)’, Frontiers in Plant Science, 8.
    • Mallikarjuna B.P., Samineni S., Thudi M., Sajja S.B., Khan A.W., Patil A., Viswanatha K.P., Varshney R.K., Gaur P.M., (2017), ‘Molecular mapping of flowering time major genes and QTLs in chickpea (Cicer arietinum L.)’, Frontiers in Plant Science, 8.
    • Iquebal M.A., Soren K.R., Gangwar P., Shanmugavadivel P.S., Aravind K., Singla D., Jaiswal S., Jasrotia R.S., Chaturvedi S.K., Singh N.P., Varshney R.K., Rai A., Kumar D., (2017), ‘Discovery of putative herbicide resistance genes and its regulatory network in chickpea using transcriptome sequencing’, Frontiers in Plant Science, 8.
    • Shasidhar Y., Vishwakarma M.K., Pandey M.K., Janila P., Variath M.T., Manohar S.S., Nigam S.N., Guo B., Varshney R.K., (2017), ‘Molecular mapping of oil content and fatty acids using dense genetic maps in groundnut (Arachis hypogaea L.)’, Frontiers in Plant Science, 8.
    • Garg V., Agarwal G., Pazhamala L.T., Nayak S.N., Kudapa H., Khan A.W., Doddamani D., Sharma M., Kavi Kishor P.B., Varshney R.K., (2017), ‘Genome-wide identification, characterization, and expression analysis of small RNA biogenesis purveyors reveal their role in regulation of biotic stress responses in three legume crops’, Frontiers in Plant Science, 8.
    • Hradilová I., Trněný O., Válková M., Cechová M., Janská A., Prokešová L., Aamir K., Krezdorn N., Rotter B., Winter P., Varshney R.K., Soukup A., Bednář P., Hanáček P., Smýkal P., (2017), ‘A combined comparative transcriptomic, metabolomic, and anatomical analyses of two key domestication traits: Pod dehiscence and seed dormancy in pea (pisum sp.)’, Frontiers in Plant Science, 8.
    • Bohra A., Jha R., Pandey G., Patil P.G., Saxena R.K., Singh I.P., Singh D., Mishra R.K., Mishra A., Singh F., Varshney R.K., Singh N.P., (2017), ‘New hypervariable SSR markers for diversity analysis, hybrid purity testing and trait mapping in pigeonpea [Cajanus cajan (L.) Millspaugh]‘, Frontiers in Plant Science, 8.
    • Pandey M.K., Wang H., Khera P., Vishwakarma M.K., Kale S.M., Culbreath A.K., Holbrook C.C., Wang X., Varshney R.K., Guo B., (2017), ‘Genetic dissection of novel QTLs for resistance to leaf spots and tomato spotted wilt virus in peanut (Arachis hypogaea L.)’, Frontiers in Plant Science, 8, JANUARY.
    • Pazhamala L.T., Agarwal G., Bajaj P., Kumar V., Kulshreshtha A., Saxena R.K., Varshney R.K., (2016), ‘Deciphering transcriptional programming during pod and seed development using RNA-seq in pigeonpea (Cajanus cajan)’, PLoS ONE, 11, 10.
    • Khera P., Pandey M.K., Wang H., Feng S., Qiao L., Culbreath A.K., Kale S., Wang J., Holbrook C.C., Zhuang W., Varshney R.K., Guo B., (2016), ‘Mapping quantitative trait loci of resistance to tomato spotted wilt virus and leaf spots in a recombinant inbred line population of peanut (Arachis hypogaea L.) from SunOleic 97R and NC94022′, PLoS ONE, 11, 7.
    • Chen X., Li H., Pandey M.K., Yang Q., Wang X., Garg V., Li H., Chi X., Doddamani D., Hong Y., Upadhyaya H., Guo H., Khan A.W., Zhu F., Zhang X., Pan L., Pierce G.J., Zhou G., Krishnamohan K.A.V.S., Chen M., Zhong N., Agarwal G., Li S., Chitikineni A., Zhang G.-Q., Sharma S., Chen N., Liu H., Janila P., Li S., Wang M., Wang T., Sun J., Li X., Li C., Wang M., Yu L., Wen S., Singh S., Yang Z., Zhao J., Zhang C., Yu Y., Bi J., Zhang X., Liu Z.-J., Paterson A.H., Wang S., Liang X., Varshney R.K., Yu S., (2016), ‘Draft genome of the peanut A-genome progenitor (Arachis duranensis) provides insights into geocarpy, oil biosynthesis, and allergens’, Proceedings of the National Academy of Sciences of the United States of America, 113, 24, 6785-6790.
    • Pasupuleti J., Pandey M.K., Manohar S.S., Variath M.T., Nallathambi P., Nadaf H.L., Sudini H., Varshney R.K., (2016), ‘Foliar fungal disease-resistant introgression lines of groundnut (Arachis hypogaea L.) record higher pod and haulm yield in multilocation testing’, Plant Breeding, 135, 3, 355-366.
    • Vishwakarma M.K., Pandey M.K., Shasidhar Y., Manohar S.S., Nagesh P., Janila P., Varshney R.K., (2016), ‘Identification of two major quantitative trait locus for fresh seed dormancy using the diversity arrays technology and diversity arrays technology-seq based genetic map in Spanish-type peanuts’, Plant Breeding, 135, 3, 367-375.
    • Singh V.K., Khan A.W., Jaganathan D., Thudi M., Roorkiwal M., Takagi H., Garg V., Kumar V., Chitikineni A., Gaur P.M., Sutton T., Terauchi R., Varshney R.K., (2016), ‘QTL-seq for rapid identification of candidate genes for 100-seed weight and root/total plant dry weight ratio under rainfed conditions in chickpea’, Plant Biotechnology Journal, 14, 11, 2110-2119.
    • Chen H., Zhang C., Cai T.cheng., Deng Y., Zhou S., Zheng Y., Ma S., Tang R., Varshney R.K., Zhuang W., (2016), ‘Identification of low Ca2+ stress-induced embryo apoptosis response genes in Arachis hypogaea by SSH-associated library lift (SSHaLL)’, Plant Biotechnology Journal, 14, 2, 682-698.
    • Singh V.K., Khan A.W., Saxena R.K., Kumar V., Kale S.M., Sinha P., Chitikineni A., Pazhamala L.T., Garg V., Sharma M., Sameer Kumar C.V., Parupalli S., Vechalapu S., Patil S., Muniswamy S., Ghanta A., Yamini K.N., Dharmaraj P.S., Varshney R.K., (2016), ‘Next-generation sequencing for identification of candidate genes for Fusarium wilt and sterility mosaic disease in pigeonpea (Cajanus cajan)’, Plant Biotechnology Journal, 14, 5, 1183-1194.
    • Chen X., Yang Q., Li H., Li H., Hong Y., Pan L., Chen N., Zhu F., Chi X., Zhu W., Chen M., Liu H., Yang Z., Zhang E., Wang T., Zhong N., Wang M., Liu H., Wen S., Li X., Zhou G., Li S., Wu H., Varshney R., Liang X., Yu S., (2016), ‘Transcriptome-wide sequencing provides insights into geocarpy in peanut (Arachis hypogaea L.)’, Plant Biotechnology Journal, 14, 5, 1215-1224.
    • Agarwal G., Garg V., Kudapa H., Doddamani D., Pazhamala L.T., Khan A.W., Thudi M., Lee S.-H., Varshney R.K., (2016), ‘Genome-wide dissection of AP2/ERF and HSP90 gene families in five legumes and expression profiles in chickpea and pigeonpea’, Plant Biotechnology Journal, 14, 7, 1563-1577.
    • Kumar V., Khan A.W., Saxena R.K., Garg V., Varshney R.K., (2016), ‘First-generation HapMap in Cajanus spp. reveals untapped variations in parental lines of mapping populations’, Plant Biotechnology Journal, 14, 8, 1673-1681.
    • Ghatak A., Chaturvedi P., Nagler M., Roustan V., Lyon D., Bachmann G., Postl W., Schröfl A., Desai N., Varshney R.K., Weckwerth W., (2016), ‘Comprehensive tissue-specific proteome analysis of drought stress responses in Pennisetum glaucum (L.) R. Br. (Pearl millet)’, Journal of Proteomics, 143, , 122-135.
    • Thudi M., Khan A.W., Kumar V., Gaur P.M., Katta K., Garg V., Roorkiwal M., Samineni S., Varshney R.K., (2016), ‘Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)’, BMC Plant Biology, 16, 1.
    • Williams A.H., Sharma M., Thatcher L.F., Azam S., Hane J.K., Sperschneider J., Kidd B.N., Anderson J.P., Ghosh R., Garg G., Lichtenzveig J., Kistler H.C., Shea T., Young S., Buck S.-A.G., Kamphuis L.G., Saxena R., Pande S., Ma L.-J., Varshney R.K., Singh K.B., (2016), ‘Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors’, BMC Genomics, 17, 1.
    • Ramamoorthy P., Lakshmanan K., Upadhyaya H.D., Vadez V., Varshney R.K., (2016), ‘Shoot traits and their relevance in terminal drought tolerance of chickpea (Cicer arietinum L.)’, Field Crops Research, 197, , 10-27.
    • Foyer C.H., Lam H.-M., Nguyen H.T., Siddique K.H.M., Varshney R.K., Colmer T.D., Cowling W., Bramley H., Mori T.A., Hodgson J.M., Cooper J.W., Miller A.J., Kunert K., Vorster J., Cullis C., Ozga J.A., Wahlqvist M.L., Liang Y., Shou H., Shi K., Yu J., Fodor N., Kaiser B.N., Wong F.-L., Valliyodan B., Considine M.J., (2016), ‘Neglecting legumes has compromised human health and sustainable food production’, Nature Plants, 2, 8.
    • Samineni S., Kamatam S., Thudi M., Varshney R.K., Gaur P.M., (2016), ‘Vernalization response in chickpea is controlled by a major QTL’, Euphytica, 207, 2, 453-461.
    • Kolekar R.M., Sujay V., Shirasawa K., Sukruth M., Khedikar Y.P., Gowda M.V.C., Pandey M.K., Varshney R.K., Bhat R.S., (2016), ‘QTL mapping for late leaf spot and rust resistance using an improved genetic map and extensive phenotypic data on a recombinant inbred line population in peanut (Arachis hypogaea L.)’, Euphytica, 209, 1, 147-156.
    • Gaur P.M., Singh M.K., Samineni S., Sajja S.B., Jukanti A.K., Kamatam S., Varshney R.K., (2016), ‘Inheritance of protein content and its relationships with seed size, grain yield and other traits in chickpea’, Euphytica, 209, 1, 253-260.
    • Varma Penmetsa R., Carrasquilla-Garcia N., Bergmann E.M., Vance L., Castro B., Kassa M.T., Sarma B.K., Datta S., Farmer A.D., Baek J.-M., Coyne C.J., Varshney R.K., von Wettberg E.J., Cook D.R., (2016), ‘Multiple post-domestication origins of kabuli chickpea through allelic variation in a diversification-associated transcription factor’, The New phytologist, 211, 4, 1440-1451.
    • Janila P., Pandey M.K., Shasidhar Y., Variath M.T., Sriswathi M., Khera P., Manohar S.S., Nagesh P., Vishwakarma M.K., Mishra G.P., Radhakrishnan T., Manivannan N., Dobariya K.L., Vasanthi R.P., Varshney R.K., (2016), ‘Molecular breeding for introgression of fatty acid desaturase mutant alleles (ahFAD2A and ahFAD2B) enhances oil quality in high and low oil containing peanut genotypes’, Plant Science, 242, , 203-213.
    • Gumma M.K., Charyulu Deevi K., Mohammed I.A., Varshney R.K., Gaur P., Whitbread A.M., (2016), ‘Satellite imagery and household survey for tracking chickpea adoption in Andhra Pradesh, India’, International Journal of Remote Sensing, 37, 8, 1955-1972.
    • Banerjee A., Halder U., Chaudhry V., Varshney R.K., Mantri S., Bandopadhyay R., (2016), ‘Draft genome sequence of the nonpathogenic, thermotolerant, and exopolysaccharide-producing Bacillus anthracis strain PFAB2 from Panifala hot water spring in West Bengal, India’, Genome Announcements, 4, 6.
    • Sreevidya M., Gopalakrishnan S., Kudapa H., Varshney R.K., (2016), ‘Exploring plant growth-promotion actinomycetes from vermicompost and rhizosphere soil for yield enhancement in chickpea’, Brazilian Journal of Microbiology, 47, 1, 85-95.
    • Bertioli D.J., Cannon S.B., Froenicke L., Huang G., Farmer A.D., Cannon E.K.S., Liu X., Gao D., Clevenger J., Dash S., Ren L., Moretzsohn M.C., Shirasawa K., Huang W., Vidigal B., Abernathy B., Chu Y., Niederhuth C.E., Umale P., Arajo A.C.G., Kozik A., Do Kim K., Burow M.D., Varshney R.K., Wang X., Zhang X., Barkley N., Guimares P.M., Isobe S., Guo B., Liao B., Stalker H.T., Schmitz R.J., Scheffler B.E., Leal-Bertioli S.C.M., Xun X., Jackson S.A., Michelmore R., Ozias-Akins P., (2016), ‘The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut’, Nature Genetics, 48, 4, 438-446.
    • Wang H., Khera P., Huang B., Yuan M., Katam R., Zhuang W., Harris-Shultz K., Moore K.M., Culbreath A.K., Zhang X., Varshney R.K., Xie L., Guo B., (2016), ‘Analysis of genetic diversity and population structure of peanut cultivars and breeding lines from China, India and the US using simple sequence repeat markers’, Journal of Integrative Plant Biology, 58, 5, 452-465.
    • Huang L., Ren X., Wu B., Li X., Chen W., Zhou X., Chen Y., Pandey M.K., Jiao Y., Luo H., Lei Y., Varshney R.K., Liao B., Jiang H., (2016), ‘Development and deployment of a high-density linkage map identified quantitative trait loci for plant height in peanut (Arachis hypogaea L.)’, Scientific Reports, 6.
    • Thudi M., Chitikineni A., Liu X., He W., Roorkiwal M., Yang W., Jian J., Doddamani D., Gaur P.M., Rathore A., Samineni S., Saxena R.K., Xu D., Singh N.P., Chaturvedi S.K., Zhang G., Wang J., Datta S.K., Xu X., Varshney R.K., (2016), ‘Recent breeding programs enhanced genetic diversity in both desi and kabuli varieties of chickpea (Cicer arietinum L.)’, Scientific Reports, 6.
    • Fountain J.C., Bajaj P., Pandey M., Nayak S.N., Yang L., Kumar V., Jayale A.S., Chitikineni A., Zhuang W., Scully B.T., Lee R.D., Kemerait R.C., Varshney R.K., Guo B., (2016), ‘Oxidative stress and carbon metabolism influence Aspergillus flavus transcriptome composition and secondary metabolite production’, Scientific Reports, 6.
    • Sharma M., Sengupta A., Ghosh R., Agarwal G., Tarafdar A., Nagavardhini A., Pande S., Varshney R.K., (2016), ‘Genome wide transcriptome profiling of Fusarium oxysporum f sp. ciceris conidial germination reveals new insights into infection-related genes’, Scientific Reports, 6.
    • Garg R., Shankar R., Thakkar B., Kudapa H., Krishnamurthy L., Mantri N., Varshney R.K., Bhatia S., Jain M., (2016), ‘Transcriptome analyses reveal genotype- and developmental stage-specific molecular responses to drought and salinity stresses in chickpea’, Scientific Reports, 6.
    • Sinha P., Pazhamala L.T., Singh V.K., Saxena R.K., Krishnamurthy L., Azam S., Khan A.W., Varshney R.K., (2016), ‘Identification and validation of selected universal stress protein domain containing drought-responsive genes in pigeonpea (Cajanus cajan L.)’, Frontiers in Plant Science, 6, 42370.
    • Janila P., Variath M.T., Pandey M.K., Desmae H., Motagi B.N., Okori P., Manohar S.S., Rathnakumar A.L., Radhakrishnan T., Liao B., Varshney R.K., (2016), ‘Genomic tools in groundnut breeding program: Status and perspectives’, Frontiers in Plant Science, 7, 42430.
    • Chen W., Yao Q., Patil G.B., Agarwal G., Deshmukh R.K., Lin L., Wang B., Wang Y., Prince S.J., Song L., Xu D., An Y.C., Valliyodan B., Varshney R.K., Nguyen H.T., (2016), ‘Identification and comparative analysis of differential gene expression in soybean leaf tissue under drought and flooding stress revealed by RNA-Seq’, Frontiers in Plant Science, 7, 42552.
    • Wan L., Li B., Pandey M.K., Wu Y., Lei Y., Yan L., Dai X., Jiang H., Zhang J., Wei G., Varshney R.K., Liao B., (2016), ‘Transcriptome analysis of a new peanut seed coat mutant for the physiological regulatory mechanism involved in seed coat cracking and pigmentation’, Frontiers in Plant Science, 7, 42644.
    • Roorkiwal M., Rathore A., Das R.R., Singh M.K., Jain A., Srinivasan S., Gaur P.M., Chellapilla B., Tripathi S., Li Y., Hickey J.M., Lorenz A., Sutton T., Crossa J., Jannink J.-L., Varshney R.K., (2016), ‘Genome-enabled prediction models for yield related traits in chickpea’, Frontiers in Plant Science, 7, 42675.
    • Fountain J.C., Bajaj P., Nayak S.N., Yang L., Pandey M.K., Kumar V., Jayale A.S., Chitikineni A., Lee R.D., Kemerait R.C., Varshney R.K., Guo B., (2016), ‘Responses of Aspergillus flavus to oxidative stress are related to fungal development regulator, antioxidant enzyme, and secondary metabolite biosynthetic gene expression’, Frontiers in Microbiology, 7, DEC.
    • Saxena R.K., Thudi M., Varshney R.K., (2016), ‘Genomics, trait mapping and molecular breeding in pigeonpea and chickpea’, Indian Journal of Genetics and Plant Breeding, 76, 4, 504-511.
    • Jacob S., Sajjalaguddam R.R., Kumar K.V.K., Varshney R., Sudini H.K., (2016), ‘Assessing the prospects of Streptomyces sp. RP1A-12 in managing groundnut stem rot disease caused by Sclerotium rolfsii Sacc’, Journal of General Plant Pathology, 82, 2, 96-104.
    • Punnuri S.M., Wallace J.G., Knoll J.E., Hyma K.E., Mitchell S.E., Buckler E.S., Varshney R.K., Singh B.P., (2016), ‘Development of a high-density linkage map and tagging leaf spot resistance in pearl millet using genotyping-by-sequencing markers’, Plant Genome, 9, 2.
    • Katta M.A.V.S.K., Khan A.W., Doddamani D., Thudi M., Varshney R.K., (2015), ‘NGS-QCbox and raspberry for parallel, automated and rapid quality control analysis of large-scale next generation sequencing (Illumina) data’, PLoS ONE, 10, 1.
    • Sinha P., Singh V.K., Suryanarayana V., Krishnamurthy L., Saxena R.K., Varshney R.K., (2015), ‘Evaluation and validation of housekeeping genes as reference for gene expression studies in pigeonpea (cajanus cajan ) under drought stress conditions’, PLoS ONE, 10, 4.
    • Wang M.L., Khera P., Pandey M.K., Wang H., Qiao L., Feng S., Tonnis B., Barkley N.A., Pinnow D., Holbrook C.C., Culbreath A.K., Varshney R.K., Guo B., (2015), ‘Genetic mapping of QTLs controlling fatty acids provided insights into the genetic control of fatty acid synthesis pathway in peanut (Arachis hypogaea L.)’, PLoS ONE, 10, 4.
    • Yang K., Tian Z., Chen C., Luo L., Zhao B., Wang Z., Yu L., Li Y., Sun Y., Li W., Chen Y., Li Y., Zhang Y., Ai D., Zhao J., Shang C., Ma Y., Wu B., Wang M., Gao L., Sun D., Zhang P., Guo F., Wang W., Li Y., Wang J., Varshney R.K., Wang J., Ling H.-Q., Wan P., (2015), ‘Genome sequencing of adzuki bean (Vigna angularis) provides insight into high starch and low fat accumulation and domestication’, Proceedings of the National Academy of Sciences of the United States of America, 112, 43, 13213-13218.
    • Bayer P.E., Ruperao P., Mason A.S., Stiller J., Chan C.-K.K., Hayashi S., Long Y., Meng J., Sutton T., Visendi P., Varshney R.K., Batley J., Edwards D., (2015), ‘High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus’, Theoretical and Applied Genetics, 128, 6, 1039-1047.
    • Pushpavalli R., Krishnamurthy L., Thudi M., Gaur P.M., Rao M.V., Siddique K.H.M., Colmer T.D., Turner N.C., Varshney R.K., Vadez V., (2015), ‘Two key genomic regions harbour QTLs for salinity tolerance in ICCV 2 × JG 11 derived chickpea (Cicer arietinum L.) recombinant inbred lines’, BMC Plant Biology, 15, 1.
    • Deokar A.A., Kondawar V., Kohli D., Aslam M., Jain P.K., Karuppayil S.M., Varshney R.K., Srinivasan R., (2015), ‘The CarERF genes in chickpea (Cicer arietinum L.) and the identification of CarERF116 as abiotic stress responsive transcription factor’, Functional and Integrative Genomics, 15, 1, 27-46.
    • Purushothaman R., Thudi M., Krishnamurthy L., Upadhyaya H.D., Kashiwagi J., Gowda C.L.L., Varshney R.K., (2015), ‘Association of mid-reproductive stage canopy temperature depression with the molecular markers and grain yields of chickpea (Cicer arietinum L.) germplasm under terminal drought’, Field Crops Research, 174, , 1-11.
    • Doddamani D., Khan A.W., Katta M.A.V.S.K., Agarwal G., Thudi M., Ruperao P., Edwards D., Varshney R.K., (2015), ‘CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea’, Database, 2015.
    • Gaur P.M., Samineni S., Tripathi S., Varshney R.K., Gowda C.L.L., (2015), ‘Allelic relationships of flowering time genes in chickpea’, Euphytica, 203, 2, 295-308.
    • Srikanth S., Saxena R.K., Rao M.V., Varshney R.K., Mallikarjuna N., (2015), ‘Development of a new CMS system in pigeonpea utilizing crosses with Cajanus lanceolatus (WV Fitgz) van der Maesen’, Euphytica, 204, 2, 289-302.
    • Sukruth M., Paratwagh S.A., Sujay V., Kumari V., Gowda M.V.C., Nadaf H.L., Motagi B.N., Lingaraju S., Pandey M.K., Varshney R.K., Bhat R.S., (2015), ‘Validation of markers linked to late leaf spot and rust resistance, and selection of superior genotypes among diverse recombinant inbred lines and backcross lines in peanut (Arachis hypogaea L.)’, Euphytica, 204, 2, 343-351.
    • Ali L., Azam S., Rubio J., Kudapa H., Madrid E., Varshney R.K., Castro P., Chen W., Gil J., Millan T., (2015), ‘Detection of a new QTL/gene for growth habit in chickpea CaLG1 using wide and narrow crosses’, Euphytica, 204, 2, 473-485.
    • Agarwal G., Sabbavarapu M.M., Singh V.K., Thudi M., Sheelamary S., Gaur P.M., Varshney R.K., (2015), ‘Identification of a non-redundant set of 202 in silico SSR markers and applicability of a select set in chickpea (Cicer arietinum L.)’, Euphytica, 205, 2, 381-394.
    • Faye I., Pandey M.K., Hamidou F., Rathore A., Ndoye O., Vadez V., Varshney R.K., (2015), ‘Identification of quantitative trait loci for yield and yield related traits in groundnut (Arachis hypogaea L.) under different water regimes in Niger and Senegal’, Euphytica, 206, 3, 631-647.
    • Khera P., Saxena R., Sameerkumar C.V., Saxena K., Varshney R.K., (2015), ‘Mitochondrial SSRs and their utility in distinguishing wild species, CMS lines and maintainer lines in pigeonpea (Cajanus cajan L.)’, Euphytica, 206, 3, 737-746.
    • Srivastava S., Zheng Y., Kudapa H., Jagadeeswaran G., Hivrale V., Varshneyc R.K., Sunkara R., (2015), ‘High throughput sequencing of small RNA component of leaves and inflorescence revealed conserved and novel miRNAs as well as phasiRNA loci in chickpea’, Plant Science, 235, , 46-57.
    • Jaganathan D., Thudi M., Kale S., Azam S., Roorkiwal M., Gaur P.M., Kishor P.B.K., Nguyen H., Sutton T., Varshney R.K., (2015), ‘Genotyping-by-sequencing based intra-specific genetic map refines a ‘‘QTL-hotspot” region for drought tolerance in chickpea’, Molecular Genetics and Genomics, 290, 2, 559-571.
    • Fountain J.C., Khera P., Yang L., Nayak S.N., Scully B.T., Lee R.D., Chen Z.-Y., Kemerait R.C., Varshney R.K., Guo B., (2015), ‘Resistance to Aspergillus flavus in maize and peanut: Molecular biology, breeding, environmental stress, and future perspectives’, Crop Journal, 3, 3, 229-237.
    • Varshney R.K., Kudapa H., Pazhamala L., Chitikineni A., Thudi M., Bohra A., Gaur P.M., Janila P., Fikre A., Kimurto P., Ellis N., (2015), ‘Translational Genomics in Agriculture: Some Examples in Grain Legumes’, Critical Reviews in Plant Sciences, 34, , 169-194.
    • Smýkal P., Coyne C.J., Ambrose M.J., Maxted N., Schaefer H., Blair M.W., Berger J., Greene S.L., Nelson M.N., Besharat N., Vymyslický T., Toker C., Saxena R.K., Roorkiwal M., Pandey M.K., Hu J., Li Y.H., Wang L.X., Guo Y., Qiu L.J., Redden R.J., Varshney R.K., (2015), ‘Legume Crops Phylogeny and Genetic Diversity for Science and Breeding’, Critical Reviews in Plant Sciences, 34, , 43-104.
    • Gopalakrishnan S., Srinivas V., Alekhya G., Prakash B., Kudapa H., Rathore A., Varshney R.K., (2015), ‘The extent of grain yield and plant growth enhancement by plant growth-promoting broad-spectrum Streptomyces sp. in chickpea’, SpringerPlus, 4, 1.
    • Jenko J., Gorjanc G., Cleveland M.A., Varshney R.K., Whitelaw C.B.A., Woolliams J.A., Hickey J.M., (2015), ‘Potential of promotion of alleles by genome editing to improve quantitative traits in livestock breeding programs’, Genetics Selection Evolution, 47, 1.
    • Kale S.M., Jaganathan D., Ruperao P., Chen C., Punna R., Kudapa H., Thudi M., Roorkiwal M., Katta M.A., Doddamani D., Garg V., Kishor P.B.K., Gaur P.M., Nguyen H.T., Batley J., Edwards D., Sutton T., Varshney R.K., (2015), ‘Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.)’, Scientific Reports, 5.
    • Kang Y.J., Satyawan D., Shim S., Lee T., Lee J., Hwang W.J., Kim S.K., Lestari P., Laosatit K., Kim K.H., Ha T.J., Chitikineni A., Kim M.Y., Ko J.-M., Gwag J.-G., Moon J.-K., Lee Y.-H., Park B.-S., Varshney R.K., Lee S.-H., (2015), ‘Draft genome sequence of adzuki bean, Vigna angularis’, Scientific Reports, 5.
    • Gopalakrishnan S., Srinivas V., Alekhya G., Prakash B., Kudapa H., Varshney R.K., (2015), ‘Evaluation of Streptomyces sp. obtained from herbal vermicompost for broad spectrum of plant growth-promoting activities in chickpea’, Organic Agriculture, 5, 2, 123-133.
    • Hickey J.M., Gorjanc G., Varshney R.K., Nettelblad C., (2015), ‘Imputation of single nucleotide polymorphism genotypes in biparental, backcross, and topcross populations with a hidden markov model’, Crop Science, 55, 5, 1934-1946.
    • Ramalingam A., Kudapa H., Pazhamala L.T., Garg V., Varshney R.K., (2015), ‘Gene expression and yeast two-hybrid studies of 1R-MYB transcription factor mediating drought stress response in chickpea (Cicer arietinum L.)’, Frontiers in Plant Science, 6, DEC.
    • Sinha P., Saxena R.K., Singh V.K., Krishnamurthy L., Varshney R.K., (2015), ‘Selection and validation of housekeeping genes as reference for gene expression studies in pigeonpea (Cajanus cajan) under heat and salt stress conditions’, Frontiers in Plant Science, 6, DEC.
    • Hong Y., Pandey M.K., Liu Y., Chen X., Liu H., Varshney R.K., Liang X., Huang S., (2015), ‘Dentification and evaluation of single-nucleotide polymorphisms in allotetraploid peanut (Arachis hypogaea L.) based on amplicon sequencing combined with high resolution melting (HRM) analysis’, Frontiers in Plant Science, 6, DEC.
    • Ojiewo C., Keatinge D.J.D.H., Hughes J., Tenkouano A., Nair R., Varshney R., Siambi M., Monyo E., Ganga-Rao N., Silim S., (2015), ‘The Role of Vegetables and Legumes in Assuring Food, Nutrition, and Income Security for Vulnerable Groups in Sub-Saharan Africa’, World Medical and Health Policy, 7, 3, 187-210.
    • Sinha P., Saxena K.B., Saxena R.K., Singh V.K., Suryanarayana V., Sameer Kumar C.V., Katta M.A.V.S., Khan A.W., Varshney R.K., (2015), ‘Association of nad7a gene with cytoplasmic male sterility in pigeonpea’, Plant Genome, 8, 2.
    • Surender Reddy P., Jogeswar G., Rasineni G.K., Maheswari M., Reddy A.R., Varshney R.K., Kavi Kishor P.B., (2015), ‘Proline over-accumulation alleviates salt stress and protects photosynthetic and antioxidant enzyme activities in transgenic sorghum [Sorghum bicolor (L.) Moench]‘, Plant Physiology and Biochemistry, 94, , 104-113.
    • JADHAV A.A., RAYATE S.J., MHASE L.B., THUDI M., CHITIKINENI A., HARER P.N., JADHAV A.S., VARSHNEY R.K., KULWAL P.L., (2015), ‘Marker-trait association study for protein content in chickpea (Cicer arietinum L.)’, Journal of Genetics, 94, 2, 279-286.
    • Gopalakrishnan S., Srinivas V., Alekhya G., Prakash B., Kudapa H., Varshney R.K., (2015), ‘Evaluation of broad-spectrum Streptomyces sp. For plant growth promotion traits in chickpea (Cicer arietinum L.)’, Philippine Agricultural Scientist, 98, 3, 270-278.
    • Varshney R.K., Terauchi R., McCouch S.R., (2014), ‘Harvesting the Promising Fruits of Genomics: Applying Genome Sequencing Technologies to Crop Breeding’, PLoS Biology, 12, 6, 1-8.
    • Ruperao P., Chan C.-K.K., Azam S., Karafiátová M., Hayashi S., Čížková J., Saxena R.K., Šimková H., Song C., Vrána J., Chitikineni A., Visendi P., Gaur P.M., Millán T., Singh K.B., Taran B., Wang J., Batley J., Doležel J., Varshney R.K., Edwards D., (2014), ‘A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies’, Plant Biotechnology Journal, 12, 6, 778-786.
    • Varshney R., Thudi M., Upadhyaya H., Dwivedi S., Udupa S., Furman B., Baum M., Hoisington D., (2014), ‘A SSR kit to study genetic diversity in chickpea (Cicer arietinum L.)’, Plant Genetic Resources: Characterisation and Utilisation, 12, SUPPL. 1, S118-S120.
    • Upadhyaya H.D., Dwivedi S.L., Sharma S., Lalitha N., Singh S., Varshney R.K., Gowda C.L.L., (2014), ‘Enhancement of the use and impact of germplasm in crop improvement’, Plant Genetic Resources: Characterisation and Utilisation, 12, SUPPL. 1, S155-S159.
    • Mir R.R., Kudapa H., Srikanth S., Saxena R.K., Sharma A., Azam S., Saxena K., Varma Penmetsa R., Varshney R.K., (2014), ‘Candidate gene analysis for determinacy in pigeonpea (Cajanus spp.)’, Theoretical and Applied Genetics, 127, 12, 2663-2678.
    • Varshney R.K., Thudi M., Nayak S.N., Gaur P.M., Kashiwagi J., Krishnamurthy L., Jaganathan D., Koppolu J., Bohra A., Tripathi S., Rathore A., Jukanti A.K., Jayalakshmi V., Vemula A., Singh S.J., Yasin M., Sheshshayee M.S., Viswanatha K.P., (2014), ‘Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.)’, Theoretical and Applied Genetics, 127, 2, 445-462.
    • Ali L., Madrid E., Varshney R.K., Azam S., Millan T., Rubio J., Gil J., (2014), ‘Mapping and identification of a Cicer arietinum NSP2 gene involved in nodulation pathway’, Theoretical and Applied Genetics, 127, 2, 481-488.
    • Varshney R.K., Pandey M.K., Janila P., Nigam S.N., Sudini H., Gowda M.V.C., Sriswathi M., Radhakrishnan T., Manohar S.S., Nagesh P., (2014), ‘Marker assisted introgression of a QTL region to improve rust resistance in three elite and popular varieties of peanut (Arachis hypogaea L.)’, Theoretical and Applied Genetics, 127, 8, 1771-1781.
    • Saxena R.K., Edwards D., Varshney R.K., (2014), ‘Structural variations in plant genomes’, Briefings in Functional Genomics and Proteomics, 13, 4.
    • Yeri S.B., Shirasawa K., Pandey M.K., Gowda M.V.C., Sujay V., Shriswathi M., Nadaf H.L., Motagi B.N., Lingaraju S., Bhat A.R.S., Varshney R.K., Krishnaraj P.U., Bhat R.S., (2014), ‘Development of NILs from heterogeneous inbred families for validating the rust resistance QTL in peanut (Arachis hypogaea L.)’, Plant Breeding, 133, 1, 80-85.
    • Varshney R.K., Mir R.R., Bhatia S., Thudi M., Hu Y., Azam S., Zhang Y., Jaganathan D., You F.M., Gao J., Riera-Lizarazu O., Luo M.-C., (2014), ‘Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.)’, Functional and Integrative Genomics, 14, 1, 59-73.
    • Wan L., Wu Y., Huang J., Dai X., Lei Y., Yan L., Jiang H., Zhang J., Varshney R.K., Liao B., (2014), ‘Identification of ERF genes in peanuts and functional analysis of AhERF008 and AhERF019 in abiotic stress response’, Functional and Integrative Genomics, 14, 3, 467-477.
    • Pandey M.K., Wang M.L., Qiao L., Feng S., Khera P., Wang H., Tonnis B., Barkley N.A., Wang J., Holbrook C.C., Culbreath A.K., Varshney R.K., Guo B., (2014), ‘Identification of QTLs associated with oil content and mapping FAD2 genes and their relative contribution to oil quality in peanut (Arachis hypogaea L.)’, BMC Genetics, 15, 1.
    • Doddamani D., Katta M.A.V.S.K., Khan A.W., Agarwal G., Shah T.M., Varshney R.K., (2014), ‘CicArMiSatDB: The chickpea microsatellite database’, BMC Bioinformatics, 15, 1.
    • Sharma M., Nagavardhini A., Thudi M., Ghosh R., Pande S., Varshney R.K., (2014), ‘Development of DArT markers and assessment of diversity in Fusarium oxysporum f. sp. ciceris, wilt pathogen of chickpea (Cicer arietinum L.)’, BMC Genomics, 15, 1.
    • Wang L., Yu S., Tong C., Zhao Y., Liu Y., Song C., Zhang Y., Zhang X., Wang Y., Hua W., Li D., Li D., Li F., Yu J., Xu C., Han X., Huang S., Tai S., Wang J., Xu X., Li Y., Liu S., Varshney R.K., Wang J., Zhang X., (2014), ‘Genome sequencing of the high oil crop sesame provides insight into oil biosynthesis’, Genome Biology, 15, 2.
    • Gopalakrishnan S., Vadlamudi S., Bandikinda P., Sathya A., Vijayabharathi R., Rupela O., Kudapa H., Katta K., Varshney R.K., (2014), ‘Evaluation of Streptomyces strains isolated from herbal vermicompost for their plant growth-promotion traits in rice’, Microbiological Research, 169, 1, 40-48.
    • Vetriventhan M., Upadhyaya H.D., Anandakumar C.R., Senthilvel S., Varshney R.K., Parzies H.K., (2014), ‘Population structure and linkage disequilibrium of ICRISAT foxtail millet (Setaria italica (L.) P. Beauv.) core collection’, Euphytica, 196, 3, 423-435.
    • Kumari V., Gowda M.V.C., Tasiwal V., Pandey M.K., Bhat R.S., Mallikarjuna N., Upadhyaya H.D., Varshney R.K., (2014), ‘Diversification of primary gene pool through introgression of resistance to foliar diseases from synthetic amphidiploids to cultivated groundnut (Arachis hypogaea L.)’, Crop Journal, 2, 44257, 110-119.
    • Kim D.H., Kaashyap M., Rathore A., Das R.R., Parupalli S., Upadhyaya H.D., Gopalakrishnan S., Gaur P.M., Singh S., Kaur J., Yasin M., Varshney R.K., (2014), ‘Phylogenetic diversity of Mesorhizobium in chickpea’, Journal of Biosciences, 39, 3, 513-517.
    • Kang Y.J., Kim S.K., Kim M.Y., Lestari P., Kim K.H., Ha B.-K., Jun T.H., Hwang W.J., Lee T., Lee J., Shim S., Yoon M.Y., Jang Y.E., Han K.S., Taeprayoon P., Yoon N., Somta P., Tanya P., Kim K.S., Gwag J.-G., Moon J.-K., Lee Y.-H., Park B.-S., Bombarely A., Doyle J.J., Jackson S.A., Schafleitner R., Srinives P., Varshney R.K., Lee S.-H., (2014), ‘Genome sequence of mungbean and insights into evolution within Vigna species’, Nature Communications, 5.
    • Afonso-Grunz F., Molina C., Hoffmeier K., Rycak L., Kudapa H., Varshney R.K., Drevon J.-J., Winter P., Kahl G., (2014), ‘Genome-based analysis of the transcriptome from mature chickpea root nodules’, Frontiers in Plant Science, 5, JUL.
    • Roorkiwal M., Nayak S.N., Thudi M., Upadhyaya H.D., Brunel D., Mournet P., This D., Sharma P.C., Varshney R.K., (2014), ‘Allele diversity for abiotic stress responsive candidate genes in chickpea reference set using gene based SNP markers’, Frontiers in Plant Science, 5, JUN.
    • Upadhyaya H.D., Dwivedi S.L., Vadez V., Hamidou F., Singh S., Varshney R.K., Liao B., (2014), ‘Multiple resistant and nutritionally dense germplasm identified from mini core collection in peanut’, Crop Science, 54, 2, 679-693.
    • Varshney R.K., Mohan S.M., Gaur P.M., Chamarthi S.K., Singh V.K., Srinivasan S., Swapna N., Sharma M., Singh S., Kaur L., Pande S., (2014), ‘Marker-assisted backcrossing to introgress resistance to fusarium wilt race 1 and ascochyta blight in C 214, an elite cultivar of chickpea’, Plant Genome, 7, 1.
    • Zhu W., Chen X., Li H., Zhu F., Hong Y., Varshney R.K., Liang X., (2014), ‘Comparative transcriptome analysis of aerial and subterranean pods development provides insights into seed abortion in peanut’, Plant Molecular Biology, 85, 4, 395-409.
    • Kudapa H., Azam S., Sharpe A.G., Taran B., Li R., Deonovic B., Cameron C., Farmer A.D., Cannon S.B., Varshney R.K., (2014), ‘Comprehensive transcriptome assembly of chickpea (Cicer arietinum L.) using sanger and next generation sequencing platforms: Development and applications’, PLoS ONE, 9, 1.
    • Saxena R.K., Von Wettberg E., Upadhyaya H.D., Sanchez V., Songok S., Saxena K., Kimurto P., Varshney R.K., (2014), ‘Genetic diversity and demographic history of Cajanus spp. illustrated from genome-wide SNPs’, PLoS ONE, 9, 2.
    • Thudi M., Upadhyaya H.D., Rathore A., Gaur P.M., Krishnamurthy L., Roorkiwal M., Nayak S.N., Chaturvedi S.K., Basu P.S., Gangarao N.V.P.R., Fikre A., Kimurto P., Sharma P.C., Sheshashayee M.S., Tobita S., Kashiwagi J., Ito O., Killian A., Varshney R.K., (2014), ‘Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches’, PLoS ONE, 9, 5.
    • Roorkiwal M., Von Wettberg E.J., Upadhyaya H.D., Warschefsky E., Rathore A., Varshney R.K., (2014), ‘Exploring germplasm diversity to understand the domestication process in Cicer spp. using SNP and DArT markers’, PLoS ONE, 9, 7.
    • Azam S., Rathore A., Shah T.M., Telluri M., Amindala B., Ruperao P., Katta M.A.V.S.K., Varshney R.K., (2014), ‘An Integrated SNP Mining and Utilization (ISMU) pipeline for next generation sequencing data’, PLoS ONE, 9, 7.
    • Pandey M.K., Upadhyaya H.D., Rathore A., Vadez V., Sheshshayee M.S., Sriswathi M., Govil M., Kumar A., Gowda M.V.C., Sharma S., Hamidou F., Kumar V.A., Khera P., Bhat R.S., Khan A.W., Singh S., Li H., Monyo E., Nadaf H.L., Mukri G., Jackson S.A., Guo B., Liang X., Varshney R.K., (2014), ‘Genomewide association studies for 50 agronomic traits in peanut using the ‘reference set’ comprising 300 genotypes from 48 countries of the semi-arid tropics of the world’, PLoS ONE, 9, 8.
    • Chen X., Zhu W., Azam S., Li H., Zhu F., Li H., Hong Y., Liu H., Zhang E., Wu H., Yu S., Zhou G., Li S., Zhong N., Wen S., Li X., Knapp S.J., Ozias-Akins P., Varshney R.K., Liang X., (2013), ‘Deep sequencing analysis of the transcriptomes of peanut aerial and subterranean young pods identifies candidate genes related to early embryo abortion’, Plant Biotechnology Journal, 11, 1, 115-127.
    • Mir R.R., Saxena R.K., Saxena K.B., Upadhyaya H.D., Kilian A., Cook D.R., Varshney R.K., (2013), ‘Whole-genome scanning for mapping determinacy in Pigeonpea (Cajanus spp.)’, Plant Breeding, 132, 5, 472-478.
    • Saxena K.B., Kumar R.V., Tikle A.N., Saxena M.K., Gautam V.S., Rao S.K., Khare D.K., Chauhan Y.S., Saxena R.K., Reddy B.V.S., Sharma D., Reddy L.J., Green J.M., Faris D.G., Nene Y.L., Mula M., Sultana R., Srivastava R.K., Gowda C.L.L., Sawargaonkar S.L., Varshney R.K., (2013), ‘ICPH 2671 – the world’s first commercial food legume hybrid’, Plant Breeding, 132, 5, 479-485.
    • Rajaram V., Nepolean T., Senthilvel S., Varshney R.K., Vadez V., Srivastava R.K., Shah T.M., Supriya A., Kumar S., Ramana Kumari B., Bhanuprakash A., Lakshmi Narasu M., Riera-Lizarazu O., Hash C.T., (2013), ‘Pearl millet [Pennisetum glaucum (L.) R. Br.] consensus linkage map constructed using four RIL mapping populations and newly developed EST-SSRs’, BMC Genomics, 14, 1.
    • Kashiwagi J., Krishnamurthy L., Gaur P.M., Upadhyaya H.D., Varshney R.K., Tobita S., (2013), ‘Traits of relevance to improve yield under terminal drought stress in chickpea (C. arietinum L.)’, Field Crops Research, 145, , 88-95.
    • Krishnamurthy L., Kashiwagi J., Upadhyaya H.D., Gowda C.L.L., Gaur P.M., Singh S., Purushothaman R., Varshney R.K., (2013), ‘Partitioning coefficient-A trait that contributes to drought tolerance in chickpea’, Field Crops Research, 149, , 354-365.
    • Sabbavarapu M.M., Sharma M., Chamarthi S.K., Swapna N., Rathore A., Thudi M., Gaur P.M., Pande S., Singh S., Kaur L., Varshney R.K., (2013), ‘Molecular mapping of QTLs for resistance to Fusarium wilt (race 1) and Ascochyta blight in chickpea (Cicer arietinum L.)’, Euphytica, 193, 1, 121-133.
    • Shirasawa K., Bertioli D.J., Varshney R.K., Moretzsohn M.C., Leal-Bertioli S.C.M., Thudi M., Pandey M.K., Rami J.-F., Ka D.F., Gowda M.V.C., Qin H., Guo B., Hong Y., Liang X., Hirakawa H., Tabata S., Isobe S., (2013), ‘Integrated consensus map of cultivated peanut and wild relatives reveals structures of the a and b genomes of arachis and divergence of the legume genomes’, DNA Research, 20, 2, 173-184.
    • Tuteja R., Saxena R.K., Davila J., Shah T., Chen W., Xiao Y.-L., Fan G., Saxena K.B., Alverson A.J., Spillane C., Town C., Varshney R.K., (2013), ‘Cytoplasmic male sterility-associated chimeric open reading frames identified by mitochondrial genome sequencing of four cajanus genotypes’, DNA Research, 20, 5, 485-495.
    • Khera P., Pandey M.K., Varshney R.K., (2013), ‘Pest and diseases: Old and new threats – modern breeding tools to tailor new crop cultivars’, Science et Changements Planetaires – Secheresse, 24, 4, 261-273.
    • Varshney R.K., Song C., Saxena R.K., Azam S., Yu S., Sharpe A.G., Cannon S., Baek J., Rosen B.D., Tar’an B., Millan T., Zhang X., Ramsay L.D., Iwata A., Wang Y., Nelson W., Farmer A.D., Gaur P.M., Soderlund C., Penmetsa R.V., Xu C., Bharti A.K., He W., Winter P., Zhao S., Hane J.K., Carrasquilla-Garcia N., Condie J.A., Padhyaya H.D., Luo M.-C., Thudi M., Gowda C.L.L., Singh N.P., Lichtenzveig J., Gali K.K., Rubio J., Nadarajan N., Dolezel J., Bansal K.C., Xu X., Edwards D., Zhang G., Kahl G., Gil J., Singh K.B., Datta S.K., Jackson S.A., Wang J., Cook D.R., (2013), ‘Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement’, Nature Biotechnology, 31, 3, 240-246.
    • Kim D.H., Parupalli S., Azam S., Lee S.-H., Varshney R.K., (2013), ‘Comparative sequence analysis of nitrogen fixation-related genes in six legumes’, Frontiers in Plant Science, 4, AUG.
    • Sharma S., Upadhyaya H.D., Varshney R.K., Gowda C.L.L., (2013), ‘Pre-breeding for diversification of primary gene pool and genetic enhancement of grain legumes’, Frontiers in Plant Science, 4, AUG.
    • Krishnamurthy L., Kashiwagi J., Tobita S., Ito O., Upadhyaya H.D., Gowda C.L.L., Gaur P.M., Sheshshayee M.S., Singh S., Vadez V., Varshney R.K., (2013), ‘Variation in carbon isotope discrimination and its relationship with harvest index in the reference collection of chickpea germplasm’, Functional Plant Biology, 40, 12, 1350-1361.
    • Upadhyaya H.D., Dronavalli N., Dwivedi S.L., Kashiwagi J., Krishnamurthy L., Pande S., Sharma H.C., Vadez V., Singh S., Varshney R.K., Gowda C.L.L., (2013), ‘Mini core collection as a resource to identify new sources of variation’, Crop Science, 53, 6, 2506-2517.
    • Liu Z., Feng S., Pandey M.K., Chen X., Culbreath A.K., Varshney R.K., Guo B., (2013), ‘Identification of Expressed Resistance Gene Analogs from Peanut (Arachis hypogaea L.) Expressed Sequence Tags’, Journal of Integrative Plant Biology, 55, 5, 453-461.
    • Roorkiwal M., Sawargaonkar S.L., Chitikineni A., Thudi M., Saxena R.K., Upadhyaya H.D., Vales M.I., Riera-Lizarazu O., Varshney R.K., (2013), ‘Single nucleotide polymorphism genotyping for breeding and genetics applications in chickpea and pigeonpea using the beadxpress platform’, Plant Genome, 6, 2.
    • Varshney R.K., Roorkiwal M., Nguyen H.T., (2013), ‘Legume genomics: From genomic resources to molecular breeding’, Plant Genome, 6, 3, 1.
    • Khera P., Upadhyaya H.D., Pandey M.K., Roorkiwal M., Sriswathi M., Janila P., Guo Y., McKain M.R., Nagy E.D., Knapp S.J., Leebens-Mack J., Conner J.A., Ozias-Akins P., Varshney R.K., (2013), ‘Single nucleotide polymorphism-based genetic diversity in the reference set of peanut (Arachis spp.) by developing and applying cost-effective kompetitive allele specific polymerase chain reaction genotyping assays’, Plant Genome, 6, 3, 10.
    • Wang H., Pandey M.K., Qiao L., Qin H., Culbreath A.K., He G., Varshney R.K., Scully B.T., Guo B., (2013), ‘Genetic mapping and quantitative trait loci analysis for disease resistance using F2 and F5 generation-based genetic maps derived from ‘Tifrunner’ × ‘GT-C20′ in peanut’, Plant Genome, 6, 3, 13.
    • Varshney R.K., Gaur P.M., Chamarthi S.K., Krishnamurthy L., Tripathi S., Kashiwagi J., Samineni S., Singh V.K., Thudi M., Jaganathan D., (2013), ‘Fast-track introgression of “QTL-hotspot” for root traits and other drought tolerance traits in JG 11, an elite and leading variety of chickpea’, Plant Genome, 6, 3, 14.
    • Laxmipathi Gowda C.L., Upadhyaya H.D., Sharma S., Varshney R.K., Dwivedi S.L., (2013), ‘Exploiting genomic resources for efficient conservation and use of chickpea, groundnut, and pigeonpea collections for crop improvement’, Plant Genome, 6, 3, 5.
    • Xia Y., Li R., Ning Z., Bai G., Siddique K.H.M., Yan G., Baum M., Varshney R.K., Guo P., (2013), ‘Single Nucleotide Polymorphisms in HSP17.8 and Their Association with Agronomic Traits in Barley’, PLoS ONE, 8, 2.
    • Vetriventhan M., Upadhyaya H.D., Anandakumar C.R., Senthilvel S., Parzies H.K., Bharathi A., Varshney R.K., Gowda C.L.L., (2012), ‘Assessing genetic diversity, allelic richness and genetic relationship among races in ICRISAT foxtail millet core collection’, Plant Genetic Resources: Characterisation and Utilisation, 10, 3, 214-223.
    • Hiremath P.J., Kumar A., Penmetsa R.V., Farmer A., Schlueter J.A., Chamarthi S.K., Whaley A.M., Carrasquilla-Garcia N., Gaur P.M., Upadhyaya H.D., Kavi Kishor P.B., Shah T.M., Cook D.R., Varshney R.K., (2012), ‘Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes’, Plant Biotechnology Journal, 10, 6, 716-732.
    • Thudi M., Li Y., Jackson S.A., May G.D., Varshney R.K., (2012), ‘Current state-of-art of sequencing technologies for plant genomics research’, Briefings in Functional Genomics, 11, 1, 3-11.
    • Wang H., Penmetsa R.V., Yuan M., Gong L., Zhao Y., Guo B., Farmer A.D., Rosen B.D., Gao J., Isobe S., Bertioli D.J., Varshney R.K., Cook D.R., He G., (2012), ‘Development and characterization of BAC-end sequence derived SSRs, and their incorporation into a new higher density genetic map for cultivated peanut (Arachis hypogaea L.)’, BMC Plant Biology, 12.
    • Bohra A., Saxena R.K., Gnanesh B.N., Saxena K., Byregowda M., Rathore A., KaviKishor P.B., Cook D.R., Varshney R.K., (2012), ‘An intra-specific consensus genetic map of pigeonpea [Cajanus cajan (L.) Millspaugh] derived from six mapping populations’, Theoretical and Applied Genetics, 125, 6, 1325-1338.
    • Varshney R.K., Paulo M.J., Grando S., van Eeuwijk F.A., Keizer L.C.P., Guo P., Ceccarelli S., Kilian A., Baum M., Graner A., (2012), ‘Genome wide association analyses for drought tolerance related traits in barley (Hordeum vulgare L.)’, Field Crops Research, 126, , 171-180.
    • Pandey M.K., Gautami B., Jayakumar T., Sriswathi M., Upadhyaya H.D., Gowda M.V.C., Radhakrishnan T., Bertioli D.J., Knapp S.J., Cook D.R., Varshney R.K., (2012), ‘Highly informative genic and genomic SSR markers to facilitate molecular breeding in cultivated groundnut (Arachis hypogaea)’, Plant Breeding, 131, 1, 139-147.
    • Saxena K.B., Saxena R.K., Kumar R.V., Varshney R.K., (2012), ‘Evidence of a unique inter-allelic epistatic interaction for seed coat color in pigeonpea [Cajanus cajan (L.) Millspaugh]‘, Euphytica, 186, 3, 813-816.
    • Saxena K.B., Kumar R.V., Saxena R.K., Sharma M., Srivastava R.K., Sultana R., Varshney R.K., Vales M.I., Pande S., (2012), ‘Identification of dominant and recessive genes for resistance to Fusarium wilt in pigeonpea and their implication in breeding hybrids’, Euphytica, 188, 2, 221-227.
    • Saxena R.K., Varma Penmetsa R., Upadhyaya H.D., Kumar A., Carrasquilla-Garcia N., Schlueter J.A., Farmer A., Whaley A.M., Sarma B.K., May G.D., Cook D.R., Varshney R.K., (2012), ‘Large-scale development of cost-effective single-nucleotide polymorphism marker assays for genetic mapping in pigeonpea and comparative mapping in legumes’, DNA Research, 19, 6, 449-461.
    • Varshney R.K., Chen W., Li Y., Bharti A.K., Saxena R.K., Schlueter J.A., Donoghue M.T.A., Azam S., Fan G., Whaley A.M., Farmer A.D., Sheridan J., Iwata A., Tuteja R., Penmetsa R.V., Wu W., Upadhyaya H.D., Yang S.-P., Shah T., Saxena K.B., Michael T., McCombie W.R., Yang B., Zhang G., Yang H., Wang J., Spillane C., Cook D.R., May G.D., Xu X., Jackson S.A., (2012), ‘Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers’, Nature Biotechnology, 30, 1, 83-89.
    • Vadez V., Krishnamurthy L., Thudi M., Anuradha C., Colmer T.D., Turner N.C., Siddique K.H.M., Gaur P.M., Varshney R.K., (2012), ‘Assessment of ICCV 2 × JG 62 chickpea progenies shows sensitivity of reproduction to salt stress and reveals QTL for seed yield and yield components’, Molecular Breeding, 30, 1, 9-21.
    • Gautami B., Pandey M.K., Vadez V., Nigam S.N., Ratnakumar P., Krishnamurthy L., Radhakrishnan T., Gowda M.V.C., Narasu M.L., Hoisington D.A., Knapp S.J., Varshney R.K., (2012), ‘Quantitative trait locus analysis and construction of consensus genetic map for drought tolerance traits based on three recombinant inbred line populations in cultivated groundnut (Arachis hypogaea L.)’, Molecular Breeding, 30, 2, 757-772.
    • Sujay V., Gowda M.V.C., Pandey M.K., Bhat R.S., Khedikar Y.P., Nadaf H.L., Gautami B., Sarvamangala C., Lingaraju S., Radhakrishan T., Knapp S.J., Varshney R.K., (2012), ‘Quantitative trait locus analysis and construction of consensus genetic map for foliar disease resistance based on two recombinant inbred line populations in cultivated groundnut (Arachis hypogaea L.)’, Molecular Breeding, 30, 2, 773-788.
    • Varshney R.K., Kudapa H., Roorkiwal M., Thudi M., Pandey M.K., Saxena R.K., Chamarthi S.K., Murali Mohan S., Mallikarjuna N., Upadhyaya H., Gaur P.M., Krishnamurthy L., Saxena K.B., Nigam S.N., Pande S., (2012), ‘Advances in genetics and molecular breeding of three legume crops of semi-arid tropics using next-generation sequencing and high-throughput genotyping technologies’, Journal of Biosciences, 37, 5, 811-820.
    • Upadhyaya H.D., Kashiwagi J., Varshney R.K., Gaur P.M., Saxena K.B., Krishnamurthy L., Gowda C.L.L., Pundir R.P.S., Chaturvedi S.K., Basu P.S., Singh I.P., (2012), ‘Phenotyping chickpeas and pigeonpeas for adaptation to drought’, Frontiers in Physiology, 44350.
    • Kudapa H., Bharti A.K., Cannon S.B., Farmer A.D., Mulaosmanovic B., Kramer R., Bohra A., Weeks N.T., Crow J.A., Tuteja R., Shah T., Dutta S., Gupta D.K., Singh A., Gaikwad K., Sharma T.R., May G.D., Singh N.K., Varshney R.K., (2012), ‘A comprehensive transcriptome assembly of pigeonpea (Cajanus cajan L.) Using sanger and second-generation sequencing platforms’, Molecular Plant, 5, 5, 1020-1028.
    • Mallikarjuna N., Saxena K., Lakshmi J., Varshney R., Srikanth S., Jadhav D., (2012), ‘Differences between Cajanus cajan (L.) Millspaugh and C. cajanifolius (Haines) van der Maesen, the progenitor species of pigeonpea’, Genetic Resources and Crop Evolution, 59, 3, 411-417.
    • Kassa M.T., Penmetsa R.V., Carrasquilla-Garcia N., Sarma B.K., Datta S., Upadhyaya H.D., Varshney R.K., von Wettberg E.J.B., Cook D.R., (2012), ‘Genetic patterns of domestication in pigeonpea (Cajanus cajan (l.) Millsp.) and wild Cajanus relatives’, PLoS ONE, 7, 6.
    • Gautami B., Foncéka D., Pandey M.K., Moretzsohn M.C., Sujay V., Qin H., Hong Y., Faye I., Chen X., BhanuPrakash A., Shah T.M., Gowda M.V.C., Nigam S.N., Liang X., Hoisington D.A., Guo B., Bertioli D.J., Rami J.-F., Varshney R.K., (2012), ‘An international reference consensus genetic map with 897 marker loci based on 11 mapping populations for tetraploid groundnut (arachis hypogaea l.)’, PLoS ONE, 7, 7.
    • Azam S., Thakur V., Ruperao P., Shah T., Balaji J., Amindala B.P., Farmer A.D., Studholme D.J., May G.D., Edwards D., Jones J.D.G., Varshney R.K., (2012), ‘Coverage-based consensus calling (CBCC) of short sequence reads and comparison of CBCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome’, American Journal of Botany, 99, 2, 186-192.
    • Deokar A.A., Kondawar V., Jain P.K., Karuppayil S.M., Raju N.L., Vadez V., Varshney R.K., Srinivasan R., (2011), ‘Comparative analysis of expressed sequence tags (ESTs) between drought-tolerant and -susceptible genotypes of chickpea under terminal drought stress’, BMC Plant Biology, 11.
    • Bohra A., Dubey A., Saxena R.K., Penmetsa R.V., Poornima K.N., Kumar N., Farmer A.D., Srivani G., Upadhyaya H.D., Gothalwal R., Ramesh S., Singh D., Saxena K., Kishor P.K., Singh N.K., Town C.D., May G.D., Cook D.R., Varshney R.K., (2011), ‘Analysis of BAC-end sequences (BESs) and development of BES-SSR markers for genetic mapping and hybrid purity assessment in pigeonpea (Cajanus spp.)’, BMC Plant Biology, 11.
    • Dutta S., Kumawat G., Singh B.P., Gupta D.K., Singh S., Dogra V., Gaikwad K., Sharma T.R., Raje R.S., Bandhopadhya T.K., Datta S., Singh M.N., Bashasab F., Kulwal P., Wanjari K.B., K Varshney R., Cook D.R., Singh N.K., (2011), ‘Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]‘, BMC Plant Biology, 11.
    • Saxena R.K., Cui X., Thakur V., Walter B., Close T.J., Varshney R.K., (2011), ‘Single feature polymorphisms (SFPs) for drought tolerance in pigeonpea (Cajanus spp.)’, Functional and Integrative Genomics, 11, 4, 651-657.
    • Sarvamangala C., Gowda M.V.C., Varshney R.K., (2011), ‘Identification of quantitative trait loci for protein content, oil content and oil quality for groundnut (Arachis hypogaea L.)’, Field Crops Research, 122, 1, 49-59.
    • Ravi K., Vadez V., Isobe S., Mir R.R., Guo Y., Nigam S.N., Gowda M.V.C., Radhakrishnan T., Bertioli D.J., Knapp S.J., Varshney R.K., (2011), ‘Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut (Arachis hypogaea L.)’, Theoretical and Applied Genetics, 122, 6, 1119-1132.
    • Gujaria N., Kumar A., Dauthal P., Dubey A., Hiremath P., Prakash A.B., Farmer A., Bhide M., Shah T., Gaur P.M., Upadhyaya H.D., Bhatia S., Cook D.R., May G.D., Varshney R.K., (2011), ‘Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.)’, Theoretical and Applied Genetics, 122, 8, 1577-1589.
    • Gnanesh B.N., Bohra A., Sharma M., Byregowda M., Pande S., Wesley V., Saxena R.K., Saxena K.B., Kavi Kishor P.B., Varshney R.K., (2011), ‘Genetic mapping and quantitative trait locus analysis of resistance to sterility mosaic disease in pigeonpea [Cajanus cajan (L.) Millsp.]‘, Field Crops Research, 123, 2, 53-61.
    • Sharma R., Thakur R.P., Senthilvel S., Nayak S., Reddy S.V., Rao V.P., Varshney R.K., (2011), ‘Identification and Characterization of Toxigenic Fusaria Associated with Sorghum Grain Mold Complex in India’, Mycopathologia, 171, 3, 223-230.
    • Dubey A., Farmer A., Schlueter J., Cannon S.B., Abernathy B., Tuteja R., Woodward J., Shah T., Mulasmanovic B., Kudapa H., Raju N.L., Gothalwal R., Pande S., Xiao Y., Town C.D., Singh N.K., May G.D., Jackson S., Varshney R.K., (2011), ‘Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in Pigeonpea (Cajanus cajan L.)’, DNA Research, 18, 3, 153-164.
    • Anuradha C., Gaur P.M., Pande S., Gali K.K., Ganesh M., Kumar J., Varshney R.K., (2011), ‘Mapping QTL for resistance to botrytis grey mould in chickpea’, Euphytica, 182, 1, 1-9.
    • Krishnamurthy L., Turner N.C., Gaur P.M., Upadhyaya H.D., Varshney R.K., Siddique K.H.M., Vadez V., (2011), ‘Consistent Variation Across Soil Types in Salinity Resistance of a Diverse Range of Chickpea (Cicer arietinum L.) Genotypes’, Journal of Agronomy and Crop Science, 197, 3, 214-227.
    • Neumann K., Kobiljski B., Denčić S., Varshney R.K., Börner A., (2011), ‘Genome-wide association mapping: A case study in bread wheat (Triticum aestivum L.)’, Molecular Breeding, 27, 1, 37-58.
    • Gowda M.V.C., Bhat R.S., Sujay V., Kusuma P., Varshakumari, Bhat S., Varshney R.K., (2011), ‘Characterization of AhMITE1 transposition and its association with the mutational and evolutionary origin of botanical types in peanut (Arachis spp.)’, Plant Systematics and Evolution, 291, 3, 153-158.
    • Saxena K.B., Sultana R., Saxena R.K., Kumar R.V., Sandhu J.S., Rathore A., Kavi Kishor P.K., Varshney R.K., (2011), ‘Genetics of fertility restoration in A4-based, diverse maturing hybrids of pigeonpea [Cajanus cajan (L.) Millsp.]‘, Crop Science, 51, 2, 574-578.
    • Thudi M., Bohra A., Nayak S.N., Varghese N., Shah T.M., Penmetsa R.V., Thirunavukkarasu N., Gudipati S., Gaur P.M., Kulwal P.L., Upadhyaya H.D., KaviKishor P.B., Winter P., Kahl G., Town C.D., Kilian A., Cook D.R., Varshney R.K., (2011), ‘Novel SSR Markers from BAC-End Sequences, DArT Arrays and a Comprehensive Genetic Map with 1,291 Marker Loci for Chickpea (Cicer arietinum L.)’, PLoS ONE, 6, 11.
    • Sefera T., Abebie B., Gaur P.M., Assefa K., Varshney R.K., (2011), ‘Characterisation and genetic diversity analysis of selected chickpea cultivars of nine countries using simple sequence repeat (SSR) markers’, Crop and Pasture Science, 62, 2, 177-187.
    • Upadhyaya H.D., Thudi M., Dronavalli N., Gujaria N., Singh S., Sharma S., Varshney R.K., (2011), ‘Genomic tools and germplasm diversity for chickpea improvement’, Plant Genetic Resources: Characterisation and Utilisation, 9, 1, 45-58.
    • Krishnamurthy L., Gaur P.M., Basu P.S., Chaturvedi S.K., Tripathi S., Vadez V., Rathore A., Varshney R.K., Gowda C.L.L., (2011), ‘Large genetic variation for heat tolerance in the reference collection of chickpea (Cicer arietinum L.) germplasm’, Plant Genetic Resources: Characterisation and Utilisation, 9, 1, 59-69.
    • Upadhyaya H.D., Reddy K.N., Sharma S., Varshney R.K., Bhattacharjee R., Singh S., Gowda C.L.L., (2011), ‘Pigeonpea composite collection and identification of germplasm for use in crop improvement programmes’, Plant Genetic Resources: Characterisation and Utilisation, 9, 1, 97-108.
    • Hiremath P.J., Farmer A., Cannon S.B., Woodward J., Kudapa H., Tuteja R., Kumar A., Bhanuprakash A., Mulaosmanovic B., Gujaria N., Krishnamurthy L., Gaur P.M., Kavikishor P.B., Shah T., Srinivasan R., Lohse M., Xiao Y., Town C.D., Cook D.R., May G.D., Varshney R.K., (2011), ‘Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa’, Plant Biotechnology Journal, 9, 8, 922-931.
    • Yang S.Y., Saxena R.K., Kulwal P.L., Ash G.J., Dubey A., Harper J.D.I., Upadhyaya H.D., Gothalwal R., Kilian A., Varshney R.K., (2011), ‘The first genetic map of pigeon pea based on diversity arrays technology (DArT) markers’, Journal of Genetics, 90, 1, 103-109.
    • Raju N.L., Gnanesh B.N., Lekha P., Jayashree B., Pande S., Hiremath P.J., Byregowda M., Singh N.K., Varshney R.K., (2010), ‘The first set of EST resource for gene discovery and marker development in pigeonpea (Cajanus cajan L.)’, BMC Plant Biology, 10.
    • Koppolu R., Upadhyaya H.D., Dwivedi S.L., Hoisington D.A., Varshney R.K., (2010), ‘Genetic relationships among seven sections of genus Arachis studied by using SSR markers’, BMC Plant Biology, 10.
    • Zeid M., Yu J.K., Goldowitz I., Denton M.E., Costich D.E., Jayasuriya C.T., Saha M., Elshire R., Benscher D., Breseghello F., Munkvold J., Varshney R.K., Belay G., Sorrells M.E., (2010), ‘Cross-amplification of EST-derived markers among 16 grass species’, Field Crops Research, 118, 1, 28-35.
    • Nayak S.N., Zhu H., Varghese N., Datta S., Choi H.-K., Horres R., Jüngling R., Singh J., Kishor P.B.K., Sivaramakrishnan S., Hoisington D.A., Kahl G., Winter P., Cook D.R., Varshney R.K., (2010), ‘Integration of novel SSR and gene-based SNP marker loci in the chickpea genetic map and establishment of new anchor points with Medicago truncatula genome’, Theoretical and Applied Genetics, 120, 7, 1415-1441.
    • Khedikar Y.P., Gowda M.V.C., Sarvamangala C., Patgar K.V., Upadhyaya H.D., Varshney R.K., (2010), ‘A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resistance in groundnut (Arachis hypogaea L.)’, Theoretical and Applied Genetics, 121, 5, 971-984.
    • Saxena R.K., Saxena K.B., Kumar R.V., Hoisington D.A., Varshney R.K., (2010), ‘Simple sequence repeat-based diversity in elite pigeonpea genotypes for developing mapping populations to map resistance to Fusarium wilt and sterility mosaic disease’, Plant Breeding, 129, 2, 135-141.
    • Saxena R.K., Prathima C., Saxena K.B., Hoisington D.A., Singh N.K., Varshney R.K., (2010), ‘Novel SSR Markers for Polymorphism Detection in Pigeonpea (Cajanus spp.)’, Plant Breeding, 129, 2, 142-148.
    • Bhardwaj R., Sandhu J.S., Kaur L., Gupta S.K., Gaur P.M., Varshney R., (2010), ‘Genetics of ascochyta blight resistance in chickpea’, Euphytica, 171, 3, 337-343.
    • Thudi M., Senthilvel S., Bottley A., Hash C.T., Reddy A.R., Feltus A.F., Paterson A.H., Hoisington D.A., Varshney R.K., (2010), ‘A comparative assessment of the utility of PCR-based marker systems in pearl millet’, Euphytica, 174, 2, 253-260.
    • Varshney R.K., Baum M., Guo P., Grando S., Ceccarelli S., Graner A., (2010), ‘Features of SNP and SSR diversity in a set of ICARDA barley germplasm collection’, Molecular Breeding, 26, 2, 229-242.
    • Saxena R.K., Saxena K., Varshney R.K., (2010), ‘Application of SSR markers for molecular characterization of hybrid parents and purity assessment of ICPH 2438 hybrid of pigeonpea [Cajanus cajan (L.) Millspaugh]‘, Molecular Breeding, 26, 2, 371-380.
    • Varshney R.K., Penmetsa R.V., Dutta S., Kulwal P.L., Saxena R.K., Datta S., Sharma T.R., Rosen B., Carrasquilla-Garcia N., Farmer A.D., Dubey A., Saxena K.B., Gao J., Fakrudin B., Singh M.N., Singh B.P., Wanjari K.B., Yuan M., Srivastava R.K., Kilian A., Upadhyaya H.D., Mallikarjuna N., Town C.D., Bruening G.E., He G., May G.D., McCombie R., Jackson S.A., Singh N.K., Cook D.R., (2010), ‘Pigeonpea genomics initiative (PGI): An international effort to improve crop productivity of pigeonpea (Cajanus cajan L.)’, Molecular Breeding, 26, 3, 393-408.
    • Witzel K., Weidner A., Surabhi G.-K., Varshney R.K., Kunze G., Buck-Sorlin G.H., BÖrner A., Mock H.-P., (2010), ‘Comparative analysis of the grain proteome fraction in barley genotypes with contrasting salinity tolerance during germination’, Plant, Cell and Environment, 33, 2, 211-222.
    • Flowers T.J., Gaur P.M., Gowda C.L.L., Krishnamurthy L., Samineni S., Siddique K.H.M., Turner N.C., Vadez V., Varshney R.K., Colmer T.D., (2010), ‘Salt sensitivity in chickpea’, Plant, Cell and Environment, 33, 4, 490-509.
    • Sharma R., Rao V.P., Varshney R.K., Prasanth V.P., Kannan S., Thakur R.P., (2010), ‘Characterisation of pathogenic and molecular diversity in Sclerospora graminicola, the causal agent of pearl millet downy mildew’, Archives of Phytopathology and Plant Protection, 43, 6, 538-551.
    • Salem K.F.M., Varshney R.K., Röder M.S., Börner A., (2010), ‘EST-SSR based estimates on functional genetic variation in a barley (Hordeum vulgare L.) collection from Egypt’, Genetic Resources and Crop Evolution, 57, 4, 515-521.
    • Navakode S., Weidner A., Varshney R.K., Lohwasser U., Scholz U., Röder M.S., Börner A., (2010), ‘A genetic analysis of aluminium tolerance in cereals’, Agriculturae Conspectus Scientificus, 75, 4, 191-196.
    • Close T.J., Bhat P.R., Lonardi S., Wu Y., Rostoks N., Ramsay L., Druka A., Stein N., Svensson J.T., Wanamaker S., Bozdag S., Roose M.L., Moscou M.J., Chao S., Varshney R.K., Szucs P., Sato K., Hayes P.M., Matthews D.E., Kleinhofs A., Muehlbauer G.J., DeYoung J., Marshall D.F., Madishetty K., Fenton R.D., Condamine P., Graner A., Waugh R., (2009), ‘Development and implementation of high-throughput SNP genotyping in barley’, BMC Genomics, 10.
    • Varshney R.K., Hiremath P.J., Lekha P., Kashiwagi J., Balaji J., Deokar A.A., Vadez V., Xiao Y., Srinivasan R., Gaur P.M., Siddique K.H.M., Town C.D., Hoisington D.A., (2009), ‘A comprehensive resource of drought- and salinity- responsive ESTs for gene discovery and marker development in chickpea (Cicer arietinum L.)’, BMC Genomics, 10.
    • Gulati P., Varshney R.K., Virdi J.S., (2009), ‘Multilocus variable number tandem repeat analysis as a tool to discern genetic relationships among strains of yersinia enterocolitica biovar 1A’, Journal of Applied Microbiology, 107, 3, 875-884.
    • Varshney R.K., Bertioli D.J., Moretzsohn M.C., Vadez V., Krishnamurthy L., Aruna R., Nigam S.N., Moss B.J., Seetha K., Ravi K., He G., Knapp S.J., Hoisington D.A., (2009), ‘The first SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.)’, Theoretical and Applied Genetics, 118, 4, 729-739.
    • Varshney R.K., Mahendar T., Aruna R., Nigam S.N., Neelima K., Vadez V., Hoisington D.A., (2009), ‘High level of natural variation in a groundnut (Arachis hypogaea L.) germplasm collection assayed by selected informative SSR markers’, Plant Breeding, 128, 5, 486-494.
    • Tatikonda L., Wani S.P., Kannan S., Beerelli N., Sreedevi T.K., Hoisington D.A., Devi P., Varshney R.K., (2009), ‘AFLP-based molecular characterization of an elite germplasm collection of Jatropha curcas L., a biofuel plant’, Plant Science, 176, 4, 505-513.
    • Nayak S.N., Balaji J., Upadhyaya H.D., Hash C.T., Kishor P.B.K., Chattopadhyay D., Rodriquez L.M., Blair M.W., Baum M., McNally K., This D., Hoisington D.A., Varshney R.K., (2009), ‘Isolation and sequence analysis of DREB2A homologues in three cereal and two legume species’, Plant Science, 177, 5, 460-467.
    • Jayashree B., Bhanuprakash A., Jami A., Reddy P.S., Nayak S., Varshney R.K., (2009), ‘Perl module and PISE wrappers for the integrated analysis of sequence data and SNP features’, BMC Research Notes, 2.
    • Navakode S., Weidner A., Varshney R.K., Lohwasser U., Scholz U., Börner A., (2009), ‘A QTL analysis of aluminium tolerance in barley, using gene-based markers’, Cereal Research Communications, 37, 4, 531-540.
    • Varshney R.K., Hoisington D.A., Nayak S.N., Graner A., (2009), ‘Molecular plant breeding: Methodology and achievements’, Methods in Molecular Biology, 513, , 283-304.
    • Guo P., Baum M., Grando S., Ceccarelli S., Bai G., Li R., Von Korff M., Varshney R.K., Graner A., Valkoun J., (2009), ‘Differentially expressed genes between drought-tolerant and drought-sensitive barley genotypes in response to drought stress during the reproductive stage’, Journal of Experimental Botany, 60, 12, 3531-3544.
    • Gautami B., Ravi K., Narasu M.L., Hoisington D.A., Varshney R.K., (2009), ‘Novel set of groundnut SSR markers for germplasm analysis and interspecific transferability’, International Journal of Integrative Biology, 7, 2, 100-106.
    • Varshney R., Pande S., Kannan S., Mahendar T., Sharma M., Gaur P., Hoisington D., (2009), ‘Assessment and comparison of AFLP and SSR based molecular genetic diversity in Indian isolates of Ascochyta rabiei, a causal agent of Ascochyta blight in chickpea (Cicer arietinum L.)’, Mycological Progress, 8, 2, 87-97.
    • Sharma M., Varshney R.K., Rao J.N., Kannan S., Hoisington D., Pande S., (2009), ‘Genetic diversity in Indian isolates of Fusarium oxysporum f. sp. ciceris, chickpea wilt pathogen’, African Journal of Biotechnology, 8, 6, 1016-1023.
    • Leal-Bertioli S.C., José A.C.V., Alves-Freitas D.M., Moretzsohn M.C., Guimarães P.M., Nielen S., Vidigal B.S., Pereira R.W., Pike J., Fávero A.P., Parniske M., Varshney R.K., Bertioli D.J., (2009), ‘Identification of candidate genome regions controlling disease resistance in Arachis’, BMC Plant Biology, 9.
    • Guo P., Baum M., Varshney R.K., Graner A., Grando S., Ceccarelli S., (2008), ‘QTLs for chlorophyll and chlorophyll fluorescence parameters in barley under post-flowering drought’, Euphytica, 163, 2, 203-214.
    • Mace E.S., Varshney R.K., Mahalakshmi V., Seetha K., Gafoor A., Leeladevi Y., Crouch J.H., (2008), ‘In silico development of simple sequence repeat markers within the aeschynomenoid/dalbergoid and genistoid clades of the Leguminosae family and their transferability to Arachis hypogaea, groundnut’, Plant Science, 174, 1, 51-60.
    • Varshney R.K., Thiel T., Sretenovic-Rajicic T., Baum M., Valkoun J., Guo P., Grando S., Ceccarelli S., Graner A., (2008), ‘Identification and validation of a core set of informative genic SSR and SNP markers for assaying functional diversity in barley’, Molecular Breeding, 22, 1, 1-13.
    • Singh R., Sharma P., Varshney R.K., Sharma S.K., Singh N.K., (2008), ‘Chickpea improvement: Role of wild species and genetic markers’, Biotechnology and Genetic Engineering Reviews, 25, 1, 267-314.
    • Chabane K., Varshney R.K., Graner A., Valkoun J., (2008), ‘Generation and exploitation of EST-derived SSR markers for assaying molecular diversity in durum wheat populations’, Genetic Resources and Crop Evolution, 55, 6, 869-881.
    • Varshney R.K., Salem K.F.M., Baum M., Roder M.S., Graner A., Börner A., (2008), ‘SSR and SNP diversity in a barley germplasm collection’, Plant Genetic Resources: Characterisation and Utilisation, 6, 2, 167-174.
    • Upadhyaya H.D., Dwivedi S.L., Baum M., Varshney R.K., Udupa S.M., Gowda C.L., Hoisington D., Singh S., (2008), ‘Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinum L.)’, BMC Plant Biology, 8.
    • Castillo A., Budak H., Varshney R.K., Dorado G., Graner A., Hernandez P., (2008), ‘Transferability and polymorphism of barley EST-SSR markers used for phylogenetic analysis in Hordeum chilense’, BMC Plant Biology, 8.
    • Cuc L.M., Mace E.S., Crouch J.H., Quang V.D., Long T.D., Varshney R.K., (2008), ‘Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated groundnut (Arachis hypogaea)’, BMC Plant Biology, 8.
    • Kota R., Varshney R.K., Prasad M., Zhang H., Stein N., Graner A., (2008), ‘EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome’, Functional and Integrative Genomics, 8, 3, 223-233.
    • Vadez V., Krishnamurthy L., Serraj R., Gaur P.M., Upadhyaya H.D., Hoisington D.A., Varshney R.K., Turner N.C., Siddique K.H.M., (2007), ‘Large variation in salinity tolerance in chickpea is explained by differences in sensitivity at the reproductive stage’, Field Crops Research, 104, 44256, 123-129.
    • Aggarwal R.K., Hendre P.S., Varshney R.K., Bhat P.R., Krishnakumar V., Singh L., (2007), ‘Identification, characterization and utilization of EST-derived genic microsatellite markers for genome analyses of coffee and related species’, Theoretical and Applied Genetics, 114, 2, 359-372.
    • Marcel T.C., Varshney R.K., Barbieri M., Jafary H., De Kock M.J.D., Graner A., Niks R.E., (2007), ‘A high-density consensus map of barley to compare the distribution of QTLs for partial resistance to Puccinia hordei and of defence gene homologues’, Theoretical and Applied Genetics, 114, 3, 487-500.
    • Stein N., Prasad M., Scholz U., Thiel T., Zhang H., Wolf M., Kota R., Varshney R.K., Perovic D., Grosse I., Graner A., (2007), ‘A 1,000-loci transcript map of the barley genome: New anchoring points for integrative grass genomics’, Theoretical and Applied Genetics, 114, 5, 823-839.
    • Varshney R.K., Marcel T.C., Ramsay L., Russell J., Röder M.S., Stein N., Waugh R., Langridge P., Niks R.E., Graner A., (2007), ‘A high density barley microsatellite consensus map with 775 SSR loci’, Theoretical and Applied Genetics, 114, 6, 1091-1103.
    • Varshney R.K., Beier U., Khlestkina E.K., Kota R., Korzun V., Graner A., Börner A., (2007), ‘Single nucleotide polymorphisms in rye (Secale cereale L.): Discovery, frequency, and applications for genome mapping and diversity studies’, Theoretical and Applied Genetics, 114, 6, 1105-1116.
    • Amrutha R.N., Sekhar P.N., Varshney R.K., Kishor P.B.K., (2007), ‘Genome-wide analysis and identification of genes related to potassium transporter families in rice (Oryza sativa L.)’, Plant Science, 172, 4, 708-721.
    • Varshney R.K., Chabane K., Hendre P.S., Aggarwal R.K., Graner A., (2007), ‘Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys’, Plant Science, 173, 6, 638-649.
    • Marcel T.C., Aghnoum R., Durand J., Varshney R.K., Niks R.E., (2007), ‘Dissection of the barley 2L1.0 region carrying the ‘Laevigatum’ quantitative resistance gene to leaf rust using near-isogenic lines (NIL) and subNIL’, Molecular Plant-Microbe Interactions, 20, 12, 1604-1615.
    • Jayashree B., Hanspal M.S., Srinivasan R., Vigneshwaran R., Varshney R.K., Spurthi N., Eshwar K., Ramesh N., Chandra S., Hoisington D.A., (2007), ‘An integrated pipeline of open source software adapted for multi-CPU architectures: Use in the large-scale identification of single nucleotide polymorphisms’, Comparative and Functional Genomics, 2007.
    • Rostoks N., Ramsay L., MacKenzie K., Cardle L., Bhat P.R., Roose M.L., Svensson J.T., Stein N., Varshney R.K., Marshall D.F., Graner A., Close T.J., Waugh R., (2006), ‘Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varietes’, Proceedings of the National Academy of Sciences of the United States of America, 103, 49, 18656-18661.
    • Varshney R.K., Grosse I., Hähnel U., Siefken R., Prasad M., Stein N., Langridge P., Altschmied L., Graner A., (2006), ‘Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome’, Theoretical and Applied Genetics, 113, 2, 239-250.
    • Khlestkina E.K., Varshney R.K., Röder M.S., Graner A., Börner A., (2006), ‘A comparative assessment of genetic diversity in cultivated barley collected in different decades of the last century in Austria, Albania and India by using genomic and genic simple sequence repeat (SSR) markers’, Plant Genetic Resources: Characterisation and Utilisation, 4, 2, 125-133.
    • Willsmore K.L., Eckermann P., Varshney R.K., Graner A., Langridge P., Pallotta M., Cheong J., Williams K.J., (2006), ‘New eSSR and gSSR markers added to Australian barley maps’, Australian Journal of Agricultural Research, 57, 9, 953-959.
    • Jayashree B., Punna R., Prasad P., Bantte K., Hash C.T., Chandra S., Hoisington D.A., Varshney R.K., (2006), ‘A database of simple sequence repeats from cereal and legume expressed sequence tags mined in silico: Survey and evaluation’, In Silico Biology, 6, 6, 607-620.
    • Jayashree B., Reddy P.T., Leeladevi Y., Crouch J.H., Mahalakshmi V., Buhariwalla H.K., Eshwar K.E., Mace E., Folksterma R., Senthilvel S., Varshney R.K., Seetha K., Rajalakshmi R., Prasanth V.P., Chandra S., Swarupa L., SriKalyani P., Hoisington D.A., (2006), ‘Laboratory information management software for genotyping workflows: Applications in high throughput crop genotyping’, BMC Bioinformatics, 7.
    • Varshney R.K., Sigmund R., Börner A., Korzun V., Stein N., Sorrells M.E., Langridge P., Graner A., (2005), ‘Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice’, Plant Science, 168, 1, 195-202.
    • Bhat P.R., Krishnakumar V., Hendre P.S., Rajendrakumar P., Varshney R.K., Aggarwal R.K., (2005), ‘Identification and characterization of expressed sequence tags-derived simple sequence repeats markers from robusta coffee variety ‘CxR’ (an interspecific hybrid of Coffea canephora x Coffea congensis)’, Molecular Ecology Notes, 5, 1, 80-83.
    • Varshney R.K., Zhang H., Potokina E., Stein N., Langridge P., Graner A., (2004), ‘A simple hybridization-based strategy for the generation of non-redundant EST collections – A case study in barley (Hordeum vulgare L.)’, Plant Science, 167, 3, 629-634.
    • Zhang H., Sreenivasulu N., Weschke W., Stein N., Rudd S., Radchuk V., Potokina E., Scholz U., Schweizer P., Zierold U., Langridge P., Varshney R.K., Wobus U., Graner A., (2004), ‘Large-scale analysis of the barley transcriptome based on expressed sequence tags’, Plant Journal, 40, 2, 276-290.
    • Thiel T., Michalek W., Varshney R.K., Graner A., (2003), ‘Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.)’, Theoretical and Applied Genetics, 106, 3, 411-422.
    • Varshney R.K., Prasad M., Roy J.K., Röder M.S., Balyan H.S., Gupta P.K., (2001), ‘Integrated physical maps of 2DL, 6BS and 7DL carrying loci for grain protein content and pre-harvest sprouting tolerance in bread wheat’, Cereal Research Communications, 29, 44228, 33-40.
    • Prasad M., Varshney R.K., Roy J.K., Balyan H.S., Gupta P.K., (2000), ‘The use of microsatellites for detecting DNA polymorphism, genotype identification and genetic diversity in wheat’, Theoretical and Applied Genetics, 100, 44289, 584-592.
    • Varshney R.K., Prasad M., Roy J.K., Kumar N., Harjit-Singh, Dhaliwal H.S., Balyan H.S., Gupta P.K., (2000), ‘Identification of eight chromosomes and a microsatellite marker on 1AS associated with QTL for grain weight in bread wheat’, Theoretical and Applied Genetics, 100, 8, 1290-1294.
    • Gupta P.K., Varshney R.K., (2000), ‘The development and use of microsatellite markers for genetic analysis and plant breeding with emphasis on bread wheat’, Euphytica, 113, 3, 163-185.
    • Gupta P.K., Varshney R.K., (1999), ‘Molecular markers for genetic fidelity during micropropagation and germplasm conservation?’, Current Science, 76, 10, 1308-1310.
    • Roy J.K., Prasad M., Varshney R.K., Balyan H.S., Blake T.K., Dhaliwal H.S., H-Singh, Edwards K.J., Gupta P.K., (1999), ‘Identification of a microsatellite on chromosomes 6B and a STS on 7D of bread wheat showing an association with preharvest sprouting tolerance’, Theoretical and Applied Genetics, 99, 44228, 336-340.
    • Prasad M., Varshney R.K., Kumar A., Balyan H.S., Sharma P.C., Edwards K.J., H-Singh, Dhaliwal H.S., Roy J.K., Gupta P.K., (1999), ‘A microsatellite marker associated with a QTL for grain protein content on chromosome arm 2DL of bread wheat’, Theoretical and Applied Genetics, 99, 44228, 341-345.
    • Varshney R.K., Sharma P.C., Gupta P.K., Balyan H.S., Ramesh B., Roy J.K., Kumar A., Sen A., (1998), ‘Low level of polymorphism detected by SSR probes in bread wheat’, Plant Breeding, 117, 2, 182-184.

    Reviews

    • Sharma V., Gupta P., Priscilla K., SharanKumar, Hangargi B., Veershetty A., Ramrao D.P., Suresh S., Narasanna R., Naik G.R., Kumar A., Guo B., Zhuang W., Varshney R.K., Pandey M.K., Kumar R., (2021), ‘Metabolomics Intervention Towards Better Understanding of Plant Traits’, Cells, 10, 2.
    • Thudi M., Palakurthi R., Schnable J.C., Chitikineni A., Dreisigacker S., Mace E., Srivastava R.K., Satyavathi C.T., Odeny D., Tiwari V.K., Lam H.-M., Hong Y.B., Singh V.K., Li G., Xu Y., Chen X., Kaila S., Nguyen H., Sivasankar S., Jackson S.A., Close T.J., Shubo W., Varshney R.K., (2021), ‘Genomic resources in plant breeding for sustainable agriculture’, Journal of Plant Physiology, 257.
    • Srivastava A., Varshney R.K., Shukla P., (2021), ‘Sigma Factor Modulation for Cyanobacterial Metabolic Engineering’, Trends in Microbiology, 29, 3, 266-277.
    • Jin X., Zarco-Tejada P.J., Schmidhalter U., Reynolds M.P., Hawkesford M.J., Varshney R.K., Yang T., Nie C., Li Z., Ming B., Xiao Y., Xie Y., Li S., (2021), ‘High-Throughput Estimation of Crop Traits: A Review of Ground and Aerial Phenotyping Platforms’, IEEE Geoscience and Remote Sensing Magazine, 9, 1, 200-231.
    • Soni P., Gangurde S.S., Ortega-Beltran A., Kumar R., Parmar S., Sudini H.K., Lei Y., Ni X., Huai D., Fountain J.C., Njoroge S., Mahuku G., Radhakrishnan T., Zhuang W., Guo B., Liao B., Singam P., Pandey M.K., Bandyopadhyay R., Varshney R.K., (2020), ‘Functional Biology and Molecular Mechanisms of Host-Pathogen Interactions for Aflatoxin Contamination in Groundnut (Arachis hypogaea L.) and Maize (Zea mays L.)’, Frontiers in Microbiology, 11.
    • Ojiewo C.O., Janila P., Bhatnagar-Mathur P., Pandey M.K., Desmae H., Okori P., Mwololo J., Ajeigbe H., Njuguna-Mungai E., Muricho G., Akpo E., Gichohi-Wainaina W.N., Variath M.T., Radhakrishnan T., Dobariya K.L., Bera S.K., Rathnakumar A.L., Manivannan N., Vasanthi R.P., Kumar M.V.N., Varshney R.K., (2020), ‘Advances in Crop Improvement and Delivery Research for Nutritional Quality and Health Benefits of Groundnut (Arachis hypogaea L.)’, Frontiers in Plant Science, 11.
    • Scott M.F., Ladejobi O., Amer S., Bentley A.R., Biernaskie J., Boden S.A., Clark M., Dell’Acqua M., Dixon L.E., Filippi C.V., Fradgley N., Gardner K.A., Mackay I.J., O’Sullivan D., Percival-Alwyn L., Roorkiwal M., Singh R.K., Thudi M., Varshney R.K., Venturini L., Whan A., Cockram J., Mott R., (2020), ‘Multi-parent populations in crops: a toolbox integrating genomics and genetic mapping with breeding’, Heredity, 125, 6, 396-416.
    • Pandey M.K., Pandey A.K., Kumar R., Nwosu C.V., Guo B., Wright G.C., Bhat R.S., Chen X., Bera S.K., Yuan M., Jiang H., Faye I., Radhakrishnan T., Wang X., Liang X., Liao B., Zhang X., Varshney R.K., Zhuang W., (2020), ‘Translational genomics for achieving higher genetic gains in groundnut’, Theoretical and Applied Genetics, 133, 5, 1679-1702.
    • Roorkiwal M., Bharadwaj C., Barmukh R., Dixit G.P., Thudi M., Gaur P.M., Chaturvedi S.K., Fikre A., Hamwieh A., Kumar S., Sachdeva S., Ojiewo C.O., Tar’an B., Wordofa N.G., Singh N.P., Siddique K.H.M., Varshney R.K., (2020), ‘Integrating genomics for chickpea improvement: achievements and opportunities’, Theoretical and Applied Genetics, 133, 5, 1703-1720.
    • Bohra A., Saxena K.B., Varshney R.K., Saxena R.K., (2020), ‘Genomics-assisted breeding for pigeonpea improvement’, Theoretical and Applied Genetics, 133, 5, 1721-1737.
    • Jaganathan D., Bohra A., Thudi M., Varshney R.K., (2020), ‘Fine mapping and gene cloning in the post-NGS era: advances and prospects’, Theoretical and Applied Genetics, 133, 5, 1791-1810.
    • Molla K.A., Karmakar S., Molla J., Bajaj P., Varshney R.K., Datta S.K., Datta K., (2020), ‘Understanding sheath blight resistance in rice: the road behind and the road ahead’, Plant Biotechnology Journal, 18, 4, 895-915.
    • Weckwerth W., Ghatak A., Bellaire A., Chaturvedi P., Varshney R.K., (2020), ‘PANOMICS meets germplasm’, Plant Biotechnology Journal, 18, 7, 1507-1525.
    • Agarwal G., Kudapa H., Ramalingam A., Choudhary D., Sinha P., Garg V., Singh V.K., Patil G.B., Pandey M.K., Nguyen H.T., Guo B., Sunkar R., Niederhuth C.E., Varshney R.K., (2020), ‘Epigenetics and epigenomics: underlying mechanisms, relevance, and implications in crop improvement’, Functional and Integrative Genomics, 20, 6, 739-761.
    • Khan A.W., Garg V., Roorkiwal M., Golicz A.A., Edwards D., Varshney R.K., (2020), ‘Super-Pangenome by Integrating the Wild Side of a Species for Accelerated Crop Improvement’, Trends in Plant Science, 25, 2, 148-158.
    • Varshney R.K., Sinha P., Singh V.K., Kumar A., Zhang Q., Bennetzen J.L., (2020), ’5Gs for crop genetic improvement’, Current Opinion in Plant Biology, 56, , 190-196.
    • Palit P., Ghosh R., Tolani P., Tarafdar A., Chitikineni A., Bajaj P., Sharma M., Kudapa H., Varshney R.K., (2020), ‘Molecular and physiological alterations in chickpea under elevated CO2 concentrations’, Plant and Cell Physiology, 61, 8, 1449-1463.
    • Sharma V., Bhattacharyya S., Kumar R., Kumar A., Ibañez F., Wang J., Guo B., Sudini H.K., Gopalakrishnan S., Dasgupta M., Varshney R.K., Pandey M.K., (2020), ‘Molecular basis of root nodule symbiosis between bradyrhizobium and ‘crack-entry’ legume groundnut (Arachis hypogaea l.)’, Plants, 9, 2.
    • Priya M., Dhanker O.P., Siddique K.H.M., HanumanthaRao B., Nair R.M., Pandey S., Singh S., Varshney R.K., Prasad P.V.V., Nayyar H., (2019), ‘Drought and heat stress-related proteins: an update about their functional relevance in imparting stress tolerance in agricultural crops’, Theoretical and Applied Genetics.
    • Kumar R., Pandey M.K., Roychoudhry S., Nayyar H., Kepinski S., Varshney R.K., (2019), ‘Peg Biology: Deciphering the Molecular Regulations Involved During Peanut Peg Development’, Frontiers in Plant Science, 10.
    • Zwart R.S., Thudi M., Channale S., Manchikatla P.K., Varshney R.K., Thompson J.P., (2019), ‘Resistance to Plant-Parasitic Nematodes in Chickpea: Current Status and Future Perspectives’, Frontiers in Plant Science, 10.
    • Pandey M.K., Kumar R., Pandey A.K., Soni P., Gangurde S.S., Sudini H.K., Fountain J.C., Liao B., Desmae H., Okori P., Chen X., Jiang H., Mendu V., Falalou H., Njoroge S., Mwololo J., Guo B., Zhuang W., Wang X., Liang X., Varshney R.K., (2019), ‘Mitigating aflatoxin contamination in groundnut through a combination of genetic resistance and post-harvest management practices’, Toxins, 11, 6.
    • Varshney R.K., Pandey M.K., Bohra A., Singh V.K., Thudi M., Saxena R.K., (2019), ‘Toward the sequence-based breeding in legumes in the post-genome sequencing era’, Theoretical and Applied Genetics, 132, 3, 797-816.
    • Saxena K., Choudhary A.K., Srivastava R.K., Bohra A., Saxena R.K., Varshney R.K., (2019), ‘Origin of early maturing pigeonpea germplasm and its impact on adaptation and cropping systems’, Plant Breeding, 138, 3, 243-251.
    • Gaur P.M., Samineni S., Thudi M., Tripathi S., Sajja S.B., Jayalakshmi V., Mannur D.M., Vijayakumar A.G., Ganga Rao N.V.P.R., Ojiewo C., Fikre A., Kimurto P., Kileo R.O., Girma N., Chaturvedi S.K., Varshney R., Dixit G.P., (2019), ‘Integrated breeding approaches for improving drought and heat adaptation in chickpea (Cicer arietinum L.)’, Plant Breeding, 138, 4, 389-400.
    • Desmae H., Janila P., Okori P., Pandey M.K., Motagi B.N., Monyo E., Mponda O., Okello D., Sako D., Echeckwu C., Oteng-Frimpong R., Miningou A., Ojiewo C., Varshney R.K., (2019), ‘Genetics, genomics and breeding of groundnut (Arachis hypogaea L.)’, Plant Breeding, 138, 4, 425-444.
    • Chanda Venkata S.K., Nadigatla Veera Prabha Rama G.R., Saxena R., Saxena K., Upadhyaya H.D., Siambi M., Silim S.N., Reddy K.N., Hingane A.J., Sharma M., Sharma S., Lyimo S.D., Ubwe R., Makenge M., Gad K., Kimurto P.K., Amane M., Kanenga K., Obong Y., Monyo E., Ojiewo C., Mallela Venkata N.K., Polineni Rao J., Lakkireddy P., Chourat S., Singh I., Sajja S., Hirikara Beliappa S., Varshney R.K., (2019), ‘Pigeonpea improvement: An amalgam of breeding and genomic research’, Plant Breeding, 138, 4, 445-454.
    • Ojiewo C., Monyo E., Desmae H., Boukar O., Mukankusi-Mugisha C., Thudi M., Pandey M.K., Saxena R.K., Gaur P.M., Chaturvedi S.K., Fikre A., Ganga Rao N.P.V.R., SameerKumar C.V., Okori P., Janila P., Rubyogo J.C., Godfree C., Akpo E., Omoigui L., Nkalubo S., Fenta B., Binagwa P., Kilango M., Williams M., Mponda O., Okello D., Chichaybelu M., Miningou A., Bationo J., Sako D., Diallo S., Echekwu C., Umar M.L., Oteng-Frimpong R., Mohammed H., Varshney R.K., (2019), ‘Genomics, genetics and breeding of tropical legumes for better livelihoods of smallholder farmers’, Plant Breeding, 138, 4, 487-499.
    • Choudhary M., Wani S.H., Kumar P., Bagaria P.K., Rakshit S., Roorkiwal M., Varshney R.K., (2019), ‘QTLian breeding for climate resilience in cereals: progress and prospects’, Functional and Integrative Genomics, 19, 5, 685-701.
    • Saxena K.B., Saxena R.K., Hickey L.T., Varshney R.K., (2019), ‘Can a speed breeding approach accelerate genetic gain in pigeonpea?’, Euphytica, 215, 12.
    • Mousavi-Derazmahalleh M., Bayer P.E., Hane J.K., Valliyodan B., Nguyen H.T., Nelson M.N., Erskine W., Varshney R.K., Papa R., Edwards D., (2019), ‘Adapting legume crops to climate change using genomic approaches’, Plant Cell and Environment, 42, 1, 6-19.
    • Choudhary D., Agarwal G., Wang H., Pandey M.K., Culbreath A.K., Varshney R.K., Guo B., (2019), ‘Molecular markers and genomic resources for disease resistance in peanut-A review’, Legume Research, 42, 2, 137-144.
    • Saxena K.B., Saxena R.K., Sharma S., Sameer Kumar C.V., Sultana R., von Wettberg E.B., Varshney R.K., (2018), ‘The drivers and methodologies for exploiting wild Cajanus genome in pigeonpea breeding’, Euphytica, 214, 12.
    • Varshney R.K., Singh V.K., Kumar A., Powell W., Sorrells M.E., (2018), ‘Can genomics deliver climate-change ready crops?’, Current Opinion in Plant Biology, 45, , 205-211.
    • Saxena K.B., Choudhary A.K., Saxena R.K., Varshney R.K., (2018), ‘Breeding pigeonpea cultivars for intercropping: Synthesis and strategies’, Breeding Science, 68, 2, 159-167.
    • Varshney R.K., Tuberosa R., Tardieu F., (2018), ‘Progress in understanding drought tolerance: From alleles to cropping systems’, Journal of Experimental Botany, 69, 13, 3175-3179.
    • Ye H., Roorkiwal M., Valliyodan B., Zhou L., Chen P., Varshney R.K., Nguyen H.T., (2018), ‘Genetic diversity of root system architecture in response to drought stress in grain legumes’, Journal of Experimental Botany, 69, 13, 3267-3277.
    • Varshney R.K., Thudi M., Pandey M.K., Tardieu F., Ojiewo C., Vadez V., Whitbread A.M., Siddique K.H.M., Nguyen H.T., Carberry P.S., Bergvinson D., (2018), ‘Accelerating genetic gains in legumes for the development of prosperous smallholder agriculture: Integrating genomics, phenotyping, systems modelling and agronomy’, Journal of Experimental Botany, 69, 13, 3293-3312.
    • Sehgal A., Sita K., Siddique K.H.M., Kumar R., Bhogireddy S., Varshney R.K., HanumanthaRao B., Nair R.M., Prasad P.V.V., Nayyar H., (2018), ‘Drought or/and heat-stress effects on seed filling in food crops: Impacts on functional biochemistry, seed yields, and nutritional quality’, Frontiers in Plant Science, 871.
    • Rasheed A., Hao Y., Xia X., Khan A., Xu Y., Varshney R.K., He Z., (2017), ‘Crop Breeding Chips and Genotyping Platforms: Progress, Challenges, and Perspectives’, Molecular Plant, 10, 8, 1047-1064.
    • Crossa J., Pérez-Rodríguez P., Cuevas J., Montesinos-López O., Jarquín D., de los Campos G., Burgueño J., González-Camacho J.M., Pérez-Elizalde S., Beyene Y., Dreisigacker S., Singh R., Zhang X., Gowda M., Roorkiwal M., Rutkoski J., Varshney R.K., (2017), ‘Genomic Selection in Plant Breeding: Methods, Models, and Perspectives’, Trends in Plant Science, 22, 11, 961-975.
    • Tardieu F., Varshney R.K., Tuberosa R., (2017), ‘Improving crop performance under drought – Cross-fertilization of disciplines’, Journal of Experimental Botany, 68, 7, 1393-1398.
    • Sita K., Sehgal A., Hanumantharao B., Nair R.M., Vara Prasad P.V., Kumar S., Gaur P.M., Farooq M., Siddique K.H.M., Varshney R.K., Nayyar H., (2017), ‘Food legumes and rising temperatures: Effects, adaptive functional mechanisms specific to reproductive growth stage and strategies to improve heat tolerance’, Frontiers in Plant Science, 8.
    • Smýkal P., K. Varshney R., K. Singh V., Coyne C.J., Domoney C., Kejnovský E., Warkentin T., (2016), ‘From Mendel’s discovery on pea to today’s plant genetics and breeding: Commemorating the 150th anniversary of the reading of Mendel’s discovery’, Theoretical and Applied Genetics, 129, 12, 2267-2280.
    • Kaoneka S.R., Saxena R.K., Silim S.N., Odeny D.A., Ganga Rao N.V.P.R., Shimelis H.A., Siambi M., Varshney R.K., (2016), ‘Pigeonpea breeding in eastern and southern Africa:’, Plant Breeding, 135, 2, 148-154.
    • Abberton M., Batley J., Bentley A., Bryant J., Cai H., Cockram J., Costa de Oliveira A., Cseke L.J., Dempewolf H., De Pace C., Edwards D., Gepts P., Greenland A., Hall A.E., Henry R., Hori K., Howe G.T., Hughes S., Humphreys M., Lightfoot D., Marshall A., Mayes S., Nguyen H.T., Ogbonnaya F.C., Ortiz R., Paterson A.H., Tuberosa R., Valliyodan B., Varshney R.K., Yano M., (2016), ‘Global agricultural intensification during climate change: A role for genomics’, Plant Biotechnology Journal, 14, 4, 1095-1098.
    • Varshney R.K., Singh V.K., Hickey J.M., Xun X., Marshall D.F., Wang J., Edwards D., Ribaut J.-M., (2016), ‘Analytical and Decision Support Tools for Genomics-Assisted Breeding’, Trends in Plant Science, 21, 4, 354-363.
    • Varshney R.K., (2016), ‘Exciting journey of 10 years from genomes to fields and markets: Some success stories of genomics-assisted breeding in chickpea, pigeonpea and groundnut’, Plant Science, 242, , 98-107.
    • Pandey M.K., Roorkiwal M., Singh V.K., Ramalingam A., Kudapa H., Thudi M., Chitikineni A., Rathore A., Varshney R.K., (2016), ‘Emerging genomic tools for legume breeding: Current status and future prospects’, Frontiers in Plant Science, 7, 42491.
    • Huang B.E., Verbyla K.L., Verbyla A.P., Raghavan C., Singh V.K., Gaur P., Leung H., Varshney R.K., Cavanagh C.R., (2015), ‘MAGIC populations in crops: current status and future prospects’, Theoretical and Applied Genetics, 128, 6, 999-1017.
    • Kashiwagi J., Krishnamurthy L., Purushothaman R., Upadhyaya H.D., Gaur P.M., Gowda C.L.L., Ito O., Varshney R.K., (2015), ‘Scope for improvement of yield under drought through the root traits in chickpea (Cicer arietinum L.)’, Field Crops Research, 170, , 47-54.
    • Gopalakrishnan S., Sathya A., Vijayabharathi R., Varshney R.K., Gowda C.L.L., Krishnamurthy L., (2015), ‘Plant growth promoting rhizobia: challenges and opportunities’, 3 Biotech, 5, 4, 355-377.
    • Kole C., Muthamilarasan M., Henry R., Edwards D., Sharma R., Abberton M., Batley J., Bentley A., Blakeney M., Bryant J., Cai H., Cakir M., Cseke L.J., Cockram J., de Oliveira A.C., De Pace C., Dempewolf H., Ellison S., Gepts P., Greenland A., Hall A., Hori K., Hughes S., Humphreys M.W., Iorizzo M., Ismail A.M., Marshall A., Mayes S., Nguyen H.T., Ogbonnaya F.C., Ortiz R., Paterson A.H., Simon P.W., Tohme J., Tuberosa R., Valliyodan B., Varshney R.K., Wullschleger S.D., Yano M., Prasad M., (2015), ‘Application of genomics-assisted breeding for generation of climate resilient crops: Progress and prospects’, Frontiers in Plant Science, 6, AUG.
    • Ramalingam A., Kudapa H., Pazhamala L.T., Weckwerth W., Varshney R.K., (2015), ‘Proteomics and metabolomics: Two emerging areas for legume improvement’, Frontiers in Plant Science, 6, DEC.
    • Pazhamala L., Saxena R.K., Singh V.K., Sameerkumar C.V., Kumar V., Sinha P., Patel K., Obala J., Kaoneka S.R., Tongoona P., Shimelis H.A., Gangarao N.V.P.R., Odeny D., Rathore A., Dharmaraj P.S., Yamini K.N., Varshney R.K., (2015), ‘Genomics-assisted breeding for boosting crop improvement in pigeonpea (Cajanus cajan)’, Frontiers in Plant Science, 6, FEB.
    • Saxena R.K., Saxena K.B., Pazhamala L.T., Patel K., Parupalli S., Sameerkumar C.V., Varshney R.K., (2015), ‘Genomics for greater efficiency in pigeonpea hybrid breeding’, Frontiers in Plant Science, 6, OCTOBER.
    • Lee S.-H., Tuberosa R., Jackson S.A., Varshney R.K., (2014), ‘Genomics of plant genetic resources: A gateway to a new era of global food security’, Plant Genetic Resources: Characterisation and Utilisation, 12, SUPPL. 1, S2-S5.
    • Bohra A., Pandey M.K., Jha U.C., Singh B., Singh I.P., Datta D., Chaturvedi S.K., Nadarajan N., Varshney R.K., (2014), ‘Genomics-assisted breeding in four major pulse crops of developing countries: Present status and prospects’, Theoretical and Applied Genetics, 127, 6, 1263-1291.
    • Varshney R.K., Mohan S.M., Gaur P.M., Gangarao N.V.P.R., Pandey M.K., Bohra A., Sawargaonkar S.L., Chitikineni A., Kimurto P.K., Janila P., Saxena K.B., Fikre A., Sharma M., Rathore A., Pratap A., Tripathi S., Datta S., Chaturvedi S.K., Mallikarjuna N., Anuradha G., Babbar A., Choudhary A.K., Mhase M.B., Bharadwaj C., Mannur D.M., Harer P.N., Guo B., Liang X., Nadarajan N., Gowda C.L.L., (2013), ‘Achievements and prospects of genomics-assisted breeding in three legume crops of the semi-arid tropics’, Biotechnology Advances, 31, 8, 1120-1134.
    • Janila P., Nigam S.N., Pandey M.K., Nagesh P., Varshney R.K., (2013), ‘Groundnut improvement: Use of genetic and genomic tools’, Frontiers in Plant Science, 4, FEB.
    • Kudapa H., Ramalingam A., Nayakoti S., Chen X., Zhuang W.-J., Liang X., Kahl G., Edwards D., Varshney R.K., (2013), ‘Functional genomics to study stress responses in crop legumes: Progress and prospects’, Functional Plant Biology, 40, 12, 1221-1233.
    • Varshney R.K., Kudapa H., (2013), ‘Legume biology: The basis for crop improvement’, Functional Plant Biology, 40, 12, v-viii.
    • Mir R.R., Zaman-Allah M., Sreenivasulu N., Trethowan R., Varshney R.K., (2012), ‘Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops’, Theoretical and Applied Genetics, 125, 4, 625-645.
    • Pandey M.K., Monyo E., Ozias-Akins P., Liang X., Guimarães P., Nigam S.N., Upadhyaya H.D., Janila P., Zhang X., Guo B., Cook D.R., Bertioli D.J., Michelmore R., Varshney R.K., (2012), ‘Advances in Arachis genomics for peanut improvement’, Biotechnology Advances, 30, 3, 639-651.
    • Mallikarjuna N., Senapathy S., Jadhav D.R., Saxena K., Sharma H.C., Upadhyaya H.D., Rathore A., Varshney R., (2011), ‘Progress in the utilization of Cajanus platycarpus (Benth.) Maesen in pigeonpea improvement’, Plant Breeding, 130, 5, 507-514.
    • Varshney R.K., Bansal K.C., Aggarwal P.K., Datta S.K., Craufurd P.Q., (2011), ‘Agricultural biotechnology for crop improvement in a variable climate: Hope or hype?’, Trends in Plant Science, 16, 7, 363-371.
    • Tuberosa R., Graner A., Varshney R.K., (2011), ‘Genomics of plant genetic resources: An introduction’, Plant Genetic Resources: Characterisation and Utilisation, 9, 2, 151-154.
    • Saxena K.B., Sultana R., Mallikarjuna N., Saxena R.K., Kumar R.V., Sawargaonkar S.L., Varshney R.K., (2010), ‘Male-sterility systems in pigeonpea and their role in enhancing yield’, Plant Breeding, 129, 2, 125-134.
    • Glaszmann J.C., Kilian B., Upadhyaya H.D., Varshney R.K., (2010), ‘Accessing genetic diversity for crop improvement’, Current Opinion in Plant Biology, 13, 2, 167-173.
    • Varshney R.K., Glaszmann J.-C., Leung H., Ribaut J.-M., (2010), ‘More genomic resources for less-studied crops’, Trends in Biotechnology, 28, 9, 452-460.
    • Varshney R.K., Close T.J., Singh N.K., Hoisington D.A., Cook D.R., (2009), ‘Orphan legume crops enter the genomics era!’, Current Opinion in Plant Biology, 12, 2, 202-210.
    • Varshney R.K., Dubey A., (2009), ‘Novel genomic tools and modern genetic and breeding approaches for crop improvement’, Journal of Plant Biochemistry and Biotechnology, 18, 2, 127-138.
    • Varshney R.K., Nayak S.N., May G.D., Jackson S.A., (2009), ‘Next-generation sequencing technologies and their implications for crop genetics and breeding’, Trends in Biotechnology, 27, 9, 522-530.
    • Varshney R.K., Langridge P., Graner A., (2007), ‘Application of Genomics to Molecular Breeding of Wheat and Barley’, Advances in Genetics, 58, , 121-155.
    • Varshney R.K., Hoisington D.A., Tyagi A.K., (2006), ‘Advances in cereal genomics and applications in crop breeding’, Trends in Biotechnology, 24, 11, 490-499.
    • Varshney R.K., Graner A., Sorrells M.E., (2005), ‘Genomics-assisted breeding for crop improvement’, Trends in Plant Science, 10, 12, 621-630.
    • Varshney R.K., Graner A., Sorrells M.E., (2005), ‘Genic microsatellite markers in plants: Features and applications’, Trends in Biotechnology, 23, 1, 48-55.
    • Sreenivasulu N., Kavi Kishor P.B., Varshney R.K., Altschmied L., (2002), ‘Mining functional information from cereal genomes – The utility of expressed sequence tags’, Current Science, 83, 8, 965-973.
    • Varshney R.K., Kumar A., Balyan H.S., Roy J.K., Prasad M., Gupta P.K., (2000), ‘Characterization of Microsatellites and Development of Chromosome Specific STMS Markers in Bread Wheat’, Plant Molecular Biology Reporter, 18, 1, 5-16.
    • Gupta P.K., Varshney R.K., Sharma P.C., Ramesh B., (1999), ‘Molecular markers and their applications in wheat breeding’, Plant Breeding, 118, 5, 369-390.