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Roorkiwal, M and Nayak, S N and Thudi, M and Upadhyaya, H D and Brunel, D and Mournet, P and This, D and Sharma, P C and 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 (248). pp. 1-11. ISSN 1664-462X

Doddamani, D and Katta, M A V S K and Khan, A W and Agarwal, G and Shah, T M and Varshney, R K (2014) CicArMiSatDB: the chickpea microsatellite database. BMC Bioinformatics, 15 (212). pp. 1-7. ISSN 1471-2105

Zhu, W and Chen, X and Li, H and Zhu, F and Hong, Y and Varshney, R K and Liang, X (2014) Comparative transcriptome analysis of aerial and subterranean pods development provides insights into seed abortion in peanut. Plant Molecular Biology, 85 (4-5). pp. 395-409. ISSN 1573-5028

Kudapa, H and Azam, S and Sharpe, A G and Taran, B and Li, R and Deonovic, B and Cameron, C and Farmer, A D and Cannon, S B and 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). pp. 1-12. ISSN 1932-6203

Sharma, M and Nagavardhini, A and Thudi, M and Ghosh, R and Pande, S and 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 (454). pp. 1-14. ISSN 1471-2164

Kumari, V and Gowda, M V C and Tasiwal, V and Pandey, M K and Bhat, R S and Mallikarjuna, N and Upadhyaya, H D and Varshney, R K (2014) Diversification of primary gene pool through introgression of resistance tofoliar diseases from synthetic amphidiploids to cultivated groundnut (Arachis hypogaea L.). The Crop Journal. pp. 1-15. ISSN 2214-5141 (In Press)

Gopalakrishnan, S and Srinivas, V and Prakash, B and Arumugam, S and Vijayabharathi, R and Rupela, O and Kudapa, H and Krishnamohan, K and Varshney, R K (2014) Evaluation of Streptomyces strains isolated from herbal vermicompost for their plant growth-promotion traits in rice. Microbiological Research, 169. pp. 40-48. ISSN 0944-5013 (In Press)

Roorkiwal, M and von Wettberg, E J and Upadhyaya, H D and Warschefsky, E and Rathore, A and Varshney, R K (2014) Exploring Germplasm Diversity to Understand the Domestication Process in Cicer spp. Using SNP and DArT Markers. PLoS ONE, 9 (7). pp. 1-10. ISSN 1932-6203

Saxena, R K and von Wettberg, E and Upadhyaya, H D and Sanchez, V and Songok, S and Saxena, K B and Kimurto, P.K. and Varshney, R K (2014) Genetic Diversity and Demographic History of Cajanus spp. Illustrated from Genome-Wide SNPs. PLoS ONE, 9 (2). pp. 1-9. ISSN 1932-6203

Varshney, R K and Thudi, M and Nayak, S N and Gaur, P M and Kashiwagi, J and Krishnamurthy, L and Jaganathan, D and Koppolu, J and Bohra, A and Tripathi, S and Rathore, A and Jukanti, A K and Jayalakshmi, V and Vemula, A and Singh, S J and Yasin, Md and Sheshshayee, M S and Viswanatha, K P (2014) Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.). Theoretical and Applied Genetics, 127 (2). pp. 445-462. ISSN 0040-5752

Wang, L and Yu, S and Tong, C and Zhao, Y and Liu, Y and Song, C and Zhang, Y and Zhang, X and Wang, Y and Hua, W and Li, D and Li, F and Yu, J and Xu, C and Han, X and Huang, S and Tai, S and Wang, J and Xu, X and Li, Y and Liu, S and Varshney, R K and Wang, J and Zhang, X (2014) Genome sequencing of the high oil crop sesame provides insight into oil biosynthesis. Genome Biology, 15 (R39). pp. 1-13. ISSN 1465-6906

Thudi, M and Gaur, P M and Krishnamurthy, L and Mir, R R and Kudapa, H and Fikre, A and Kimurto, P and Tripathi, S and Soren, K R and Mulwa, R and Bharadwaj, C and Datta, S and Chaturvedi, S K and Varshney, R K (2014) Genomics-assisted breeding for drought tolerance in chickpea. Functional Plant Biology. pp. 1-13. ISSN 1445-4408

Bohra, A and Pandey, M K and Jha, U C and Singh, B and Singh, I P and Datta, D and Chaturvedi, S K and Nadarajan, N and Varshney, R K (2014) Genomics-assisted breeding in four major pulse crops of developing countries: present status and prospects. Theoretical and Applied Genetics. pp. 1-29. ISSN 1432-2242

Varshney, R K and Terauchi, R and McCouch, S R (2014) Harvesting the Promising Fruits of Genomics: Applying Genome Sequencing Technologies to Crop Breeding. PLoS Biology, 12 (6). pp. 1-8. ISSN 1544-9173

Wan, L and Wu, Y and Huang, J and Dai, X and Lei, Y and Yan, L and Jiang, H and Zhang, J and Varshney, R K and 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). pp. 467-477. ISSN 1438-793X

Azam, S and Rathore, A and Shah, T and Mohan, T and Amindala, BP and Ruperao, P and Katta, M A V S K and Varshney, R K (2014) An Integrated SNP Mining and Utilization (ISMU) Pipeline for Next Generation Sequencing Data. PLoS ONE, 9 (7). pp. 1-11. ISSN 1932-6203

Varshney, R K and Mir, R R and Bhatia, S and Thudi, M and Hu, Yukin and Azam, S and Zang, Y and Jaganathan, D and You, F M and Gao, J and Riera-Lizarazu, O and Luo, M (2014) Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.). Functional & Integrative Genomics, 14 (1). pp. 59-73. ISSN 1438-7948

Varshney, R K and Mir, R R and Bhatia, S and Thudi, M and Hu, Y and Azam, S and Zhang, Y and Jaganathan, D and You, F M and Gao, J and Riera-Lizarazu, O and Luo, M C (2014) Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.). Functional and Integrative Genomics, 14 (1). pp. 59-73. ISSN 1438-793X

Varshney, R K and Mohan, S M and Gaur, P M and Chamarthi, S K and Singh, V K and Srinivasan, S and Swapna, N and Sharma, M and Singh, S and Kaur, L and 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. The Plant Genome, 7. pp. 1-11. ISSN 1940-3372

Varshney, R K and Pandey, M K and Janila, P and Nigam, S N and Sudini, H and Gowda, M V C and Sriswathi, M and Radhakrishnan, T and Manohar, S S and 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. pp. 1-11. ISSN 0040-5752

Kim, D H and Kaashyap, M and Rathore, A and Das, R A and Parupalli, S and Upadhyaya, H D and Gopalakrishnan, S and Gaur, P M and Singh, S and Kaur, J and Yasin, M and Varshney, R K (2014) Phylogenetic diversity of Mesorhizobium in chickpea. Journal of Biosciences, 39 (3). pp. 1-5. ISSN 0250-5991

Gopalakrishnan, S and Sathya, A and Vijayabharathi, R and Varshney, R K and Gowda, C L L and Krishnamurthy, L (2014) Plant growth promoting rhizobia: challenges and opportunities. 3 Biotech. pp. 1-23. ISSN 2190-5738 (In Press)

Vetriventhan, M and Upadhyaya, H D and Anandakumar, C R and Senthilvel, S and Varshney, R K and Parzies, H K (2014) Population structure and linkage disequilibrium of ICRISAT foxtail millet (Setaria italica (L.) P. Beauv.) core collection. Euphytica, 196. pp. 423-435. ISSN 1573-5060

Saxena, R K and Edwards, D and Varshney, R K (2014) Structural variations in plant genomes. Briefings in Functional Genomics. pp. 1-12. ISSN 2041-2649

Ruperao, P and Chan, C-K K and Azam, S and Karafiatova, M and Hayashi, S and Cizkova, J and Saxena, R K and Simkova, H and Song, C and Vrana, J and Chitikineni, A and Visendi, P and Gaur, P M and Millan, T and Singh, K B and Taran, B and Wang, J and Batley, J and Dolezel, J and Varshney, R K and Edwards, D (2014) A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies. Plant Biotechnology Journal. ISSN 1467-7652

Varshney, R K and Murali Mohan, S and Gaur, P M and Ganga Rao, N V P R and Pandey, M K and Bohra, A and Sawargaonkar, S L and Gorantla, A and Kimurto, P.K. and Janila, P and Saxena, K B and Fikre, A and Sharma, M and Rathore, A and Pratap, A and Tripathi, S and Datta, S and Chaturvedi, S K and Mallikarjuna, N and Anuradha, G and Babber, A and Choudhary, A K and Mhase, M B and Bharadwaj, C and Mannur, D M and Harer, P N and Guo, B and Liang, X and Nadarajan, N and 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). pp. 1120-1134. ISSN 0734-9750

Kim, D H and Parupalli, S and Azam, S and Lee, S H and Varshney, R K (2013) Comparative sequence analysis of nitrogen fixation-related genes in six legumes. Frontiers in Plant Science, 4 (300). pp. 1-8.

Tuteja, R and Saxena, R K and Davila, J and Shah, T and Chen, W and Xiao, Y-L and Fan, G and Saxena, K B and Alverson, A J and Spillane, C and Town, C and 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). pp. 485-495. ISSN 1756-1663

Chen, X and Zhu, W and Azam, S and Li, H and Zhu, F and Li, H and Hong, Y and Liu, H and Zhang, E and Wu, H and Yu, S and Zhou, G and Li, S and Zhong, N and Wen, S and Li, X and Knapp, S J and Ozias-Akins, P and Varshney, R K and 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). pp. 115-127.

Gupta, P K and Balyan, H S and Varshney, R K and Gill, K S (2013) Development and use of molecular markers for crop improvement. Plant Breeding, 132. pp. 431-432. ISSN 1439-0523

Varshney, R K and Song, C and Saxena, R K and Azam, S and Yu, S and Sharpe, A G and Cannon, S and Baek, J and Rosen, B D and Tar'an, B and Millan, T and Zhang, X and Ramsay, L D and Iwata, A and Wang, Y and Nelson, W and Farmer, A D and Gaur, P M and Soderlund, C and Penmetsa, R V and Xu, C and Bharathi, A K and He, W and Winter, P and Zhao, S and Hane, J K and Carrasquilla-Garcia, N and Condie, J A and Upadhyaya, H D and Luo, M and Thudi, M and Gowda, C L L and Singh, N P and Lichtenzveig, J and Gali, K K and Rubio, J and Nadarajan, N and Dolezel, J and Bansal, K C and Xu, X and Edwards, D. and Zhang, G and Kahl, G and Gil, J and Singh, K B and Datta, S K and Jackson, S A and Wang, J and Cook, D R (2013) Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nature Biotechnology, 31. pp. 240-246. ISSN 1546-1696

Gowda, C L L and Upadhyaya, H D and Sharma, S and Varshney, R K and Dwivedi, S L (2013) Exploiting genomic resources for efficient conservation and utilization of chickpea, groundnut, and pigeonpea collections for crop improvement. The Plant Genome, 6 (3). pp. 1-28. ISSN 1940-3372

Varshney, R K and Gaur, P M and Chamarthi, S K and Krishnamurthy, L and Tripathi, S and Kashiwagi, J and Samineni, S and Singh, V K and Thudi, M and Jaganathan, D (2013) Fast-track introgression of “QTL-hotspot” for root traits and other drought tolerance trait in JG 11, an elite and leading variety of chickpea (Cicer arietinum L.). The Plant Genome. pp. 1-26. ISSN 1940-3372

McCouch, S and Baute, G J and Bradeen, J and Bramel, P and Bretting, P K and Buckler, E and Burke, J M and Charest, D and Cloutier, S and Cole, G and Dempewolf, H and Dingkuhn, M and Feuillet, C and Gepts, P and Grattapaglia, D and Guarino, L and Jackson, S and Knapp, S and Langridge, P and Lawton-Rauh, A and Lijua, Q and Lusty, C and Michael, T and Myles, S and Naito, K and Nelson, R L and Pontarollo, R and Richards, C M and Rieseberg, L and Ross-Ibarra, J and Rounsley, S and Hamilton, R S and Schurr, U and Stein, N and Tomooka, N and van der Knaap, E and van Tassel, D and Toll, J and Valls, J and Varshney, R K and Ward, J and Waugh, R and Wenzl, P and Zamir, D (2013) Feeding the future. Nature, 24 (499). pp. 23-24. ISSN 1476-4687

Kudapa, H and Ramalingam, A and Nayakoti, S and Chen, X and Zhuang, W and Liang, X and Kahl, G and Edwards, D. and Varshney, R K (2013) Functional genomics to study stress responses in crop legumes: progress and prospects. Functional Plant Biology, 14 (12). pp. 1221-1233. ISSN 1445-4408

Wang, H and Pandey, M K and Qiao, L and Qin, H and Culbreath, A K and He, G and Varshney, R K and Guo, B (2013) Genetic Mapping and QTL Analysis for Disease Resistance Using F2 and F5 Generation-based Genetic Maps Derived from Tifrunner × GT-C20 in Peanut (Arachis hypogaea L.). The Plant Genome. pp. 1-28. ISSN 1940-3372

Wang, H and Pandey, M K and Qiao, L and Qin, H and Culbreath, A K and He, G and Varshney, R K and Scully, B T and 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. The Plant Genome, 6 (3). pp. 1-10. ISSN 1940-3372

Janila, P and Nigam, S N and Pandey, M K and Nagesh, P and Varshney, R K (2013) Groundnut improvement: use of genetic and genomic tools. Frontiers in Plant Genetics and Genomic, 4 (23). pp. 1-16.

Saxena, K B and Kumar, R V and Tikle, A N and Saxena, M K and Gautam, V S and Rao, S K and Khare, D K and Chauhan, Y S and Saxena, R K and Reddy, B V S and Sharma, D and Reddy, L J and Green, J M and Faris, D G and Mula, M and Sultana, R and Srivastava, R K and Gowda, C L L and Sawargaonkar, S L and Varshney, R K (2013) ICPH 2671 – the world’s first commercial food legume hybrid. Plant Breeding, 132 (5). pp. 479-485. ISSN 1439-0523 (In Press)

Liu, Z and Feng, S and Pandey, M K and Chen, X and Culbreath, A K and Varshney, R K and Guo, B (2013) Identification of expressed resistance gene analogs from peanut (Arachis hypogaea L.) expressed sequence tags. Journal of Integrative Plant Biology, 55 (5). pp. 453-461. ISSN 1744-7909 (In Press)

Shirasawa, K and Bertioli, D J and Varshney, R K and Moretzsohn, M C and Leal-Bertioli, S C M and Thudi, M and Pandey, M K and Rami, Jean-François and Foncéka, D and Gowda, M V C and Qin, H and Guo, B and Hong, Y and Liang, X and Hirakawa, H and Tabata, S and 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). pp. 173-184. ISSN 1756-1663

Varshney, R K and Roorkiwal, M and Nguyen, T (2013) Legume Genomics: From Genomic Resources to Molecular Breeding. The Plant Genome, 6 (3). pp. 1-7. ISSN 1940-3372

Varshney, R K and Kudapa, H (2013) Legume biology: the basis for crop improvement. Functional Plant Biology, 40 (12). pp. 5-8. ISSN 1445-4408

Ali, L and Madrid, E and Varshney, R K and Azam, S and Millan, T and Rubio, J and Gill, J (2013) Mapping and identification of a Cicer arietinum NSP2 gene involved in nodulation pathway. TAG Theoretical and Applied Genetics. ISSN 1432-2242

Upadhyaya, H D and Dronavalli, N and Dwivedi, S L and Kashiwagi, J and Krishnamurthy, L and Pande, S and Sharma, H C and Vadez, V and Singh, S and Varshney, R K and Gowda, C L L (2013) Mini Core Collection as a Resource to Identify New Sources of Variation. Crop Science, 53 (6). pp. 2506-2517. ISSN 1435-0653

Mudaraddi, B and Saxena, K B and Saxena, R K and Varshney, R K (2013) Molecular diversity among wild relatives of Cajanus cajan (L.) Millsp. African Journal of Biotechnology, 12 (24). pp. 3797-3801. ISSN 1684-5315

Sabbavarapu, M M and Sharma, M and Chamarthi, S K and Swapna, N and Rathore, A and Thudi, M and Gaur, P M and Pande, S and Singh, S and Kaur, L and 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). pp. 121-133. ISSN 1573-5060

Upadhyaya, H D and Dwivedi, S L and Vadez, V and Hamidou, F and Singh, S and Varshney, R K and Liao, B (2013) Multiple Resistant and Nutritionally Dense Germplasm Identified from Mini Core Collection in Peanut. Crop Science. pp. 1-35. ISSN 1435-0653 (In Press)

Krishnamurthy, L and Kashiwagi, J and Upadhyaya, H D and Gowda, C L L and Gaur, P M and Singh, Sube and Purushothaman, R and Varshney, R K (2013) Partitioning coefficient—A trait that contributes to drought tolerance in chickpea. Field Crops Research, 149. pp. 354-365. ISSN 0378-4290

Rajaram, V and Nepolean, T and Senthilvel, S and Varshney, R K and Vadez, V and Srivastava, R K and Shah, T M and Supriya, A and Kumar, S and Kumari, B R and Bhanuprakash, A and Narasu, M L and Riera-Lizarazu, O and 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 (159). pp. 1-15.

Khera, P and Pandey, M K and Varshney, R K (2013) Pest and diseases: Old and new threats - Modern breeding tools to tailor new crop cultivars. Secheresse, 24. pp. 261-273. ISSN 1147-7806

Sharma, S and Upadhyaya, H D and Varshney, R K and Gowda, C L L (2013) Pre-breeding for diversification of primary gene pool and genetic enhancement of grain legumes. Frontiers in Plant Science, 4 (309). pp. 1-14. ISSN 1664-462X

Guo, B and Pandey, M K and He, G and Zhang , X and Liao , B and Culbreath , A and Varshney, R K and Nwosu, V and Wilson, R F and Stalker , H T (2013) Recent Advances in Molecular Genetic Linkage Maps of Cultivated Peanut. Peanut Science, 40 (2). pp. 95-106. ISSN 0095-3679

Roorkiwal, M and Sawargaonkar, S L and Chitikineni, A and Thudi, M and Saxena, R K and Upadhyaya, H D and Vales, M I and Riera-Lizarazu, O and Varshney, R K (2013) Single Nucleotide Polymorphism Genotyping for Breeding and Genetics Applications in Chickpea and Pigeonpea using the BeadXpress Platform. The Plant Genome, 6 (2). pp. 1-10. ISSN 1940-3372

Xiao, Y and Li, R and Ning, Z and Bai, G and Siddique, K H M and Yan, G and Baum, M and Varshney, R K and Guo, P (2013) Single Nucleotide Polymorphisms in HSP17.8 and Their Association with Agronomic Traits in Barley. PLoS ONE, 8 (2). pp. 1-10. ISSN 1932-6203

Khera, P and Upadhyaya, H D and Pandey, M K and Roorkiwal, M and Sriswathi, M and Janila, P and Guo, Y and McKain, M R and Nagy, E D and Knapp, S J and Leebens-Mack, J and Conner, J A and Ozias-Akins, P and 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. The Plant Genome, 6 (3). pp. 1-11. ISSN 1940-3372

Kashiwagi, J and Krishnamurthy, L and Gaur, P M and Upadhyaya, H D and Varshney, R K and Tobita, S (2013) Traits of relevance to improve yield under terminal drought stress in chickpea (C. arietinum L.). Field Crops Research, 145 (1). pp. 88-95. ISSN 0378-4290

Krishnamurthy, L and Kashiwagi, J and Tobita, S and Ito, O and Upadhyaya, H D and Gowda, C L L and Gaur, P M and Sheshshayee, M S and Singh, Sube and Vadez, V and 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, 14 (12). pp. 1350-1361. ISSN 1445-4408

Mir, R R and Saxena, R K and Saxena, K B and Upadhyaya, H D and Kilian, A and Cook, D R and Varshney, R K (2013) Whole-genome scanning for mapping determinacy in Pigeonpea (Cajanus spp.). Plant Breeding, 132 (5). pp. 472-478. ISSN 1439-0523

Pandey, M K and Monyo, E and Ozias-Akins, P and Liang, X and Guimaraes, P and Nigam, S N and Upadhyaya, H D and Janila, P and Zhang, X and Guo, B and Cook, D R and Bertioli, D J and Michelmore, R and Varshney, R K (2012) Advances in Arachis genomics for peanut improvement. Biotechnology Advances, 30 (3). pp. 639-651. ISSN 0734-9750 (In Press)

Varshney, R K and Kudapa, H and Roorkiwal, M and Thudi, M and Pandey, M K and Saxena, R K and Chamarthi, S K and Murali Mohan, S and Mallikarjuna, N and Upadhyaya, H D and Gaur, P M and Krishnamurthy, L and Saxena, K B and Nigam, S N and 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). pp. 811-820. ISSN 0973-7138

Vetriventhan, M and Upadhyaya, H D and Anandakumar, C R and Senthilvel, S and Parzies, H K and Bharathi, A and Varshney, R K and Gowda, C L L (2012) Assessing genetic diversity, allelic richness and genetic relationship among races in ICRISAT foxtail millet core collection. Plant Genetic Resources (First View Article), 10 (3). pp. 214-223. ISSN 1479-2621

Vadez, V and Krishnamurthy, L and Thudi, M and Anuradha, C and Colmer, T D and Turner, N C and Siddique, K H M and Gaur, P M and Varshney, R K (2012) Assessment of ICCV 2 × JG 62 chickpea progenies shows sensitivity of reproduction to salt stress and reveals QTLs for seed yield and yield components. Molecular Breeding, 30 (1). pp. 9-21. ISSN 1572-9788

Varshney, R K and Ribaut, J M and Buckler, E S and et al, . (2012) Can genomics boost productivity of orphan crops? Nature Biotechnology, 30. pp. 1172-1176. ISSN 1087-0156

Kudapa, H and Bharti, A K and Cannon, S B and Farmer, A D and Mulaosmanovic, B and Kramer, R and Bohra, A and Weeks, N T and Crow, J A and Tuteja, R and Shah, T and Dutta, S and Gupta, D K and Singh, Archana and Gaikwad, K and Sharma, T R and May, G D and Singh, N K and Varshney, R K (2012) A Comprehensive Transcriptome Assembly of Pigeonpea (Cajanus cajan L.) using Sanger and Second-Generation Sequencing Platforms. Molecular Plant, 5 (5). pp. 1020-1028. ISSN 1752-9867

Azam, S and Thakur, V and Ruperao, P. and Shah, T and Balaji, J and Amindala, B. and Farmer, A D and Studholme, D.J. and May, G D and Edwards, D. and Jones, J.D.G. and 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 1. American Journal of Botany, 99 (2). pp. 186-192. ISSN 1537-2197

Thudi, M and Li, Y and Jackson, S A and May, G D and Varshney, R K (2012) Current state-of-art of sequencing technologies for plant genomics research. Briefings in Functional Genomics, 11 (1). pp. 3-11. ISSN 2041-2647

Wang, H and et al, . (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 (10). pp. 1-25. ISSN 1471-2229

Wang, H and Penmetsa, R V and Yuan, M and Varshney, R K and et al, . (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 (10). pp. 1-3. ISSN 1471-2229

Mallikarjuna, N and Saxena, K B and Lakshmi, J and Varshney, R K and Srikanth, S and Jadhav, D R (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). pp. 411-417. ISSN 1573-5109

Varshney, R K and Chen, W and Li, Y and Bharti, A K and Saxena, R K and Schlueter, J A and Donoghue, M T A and Azam, S and Fan, G and Whaley, A M and Farmer, A D and Sheridan, J and Iwata, A and Tuteja, R and Penmetsa, R V and Wu, W and Upadhyaya, H D and Yang, S P and Shah, T and Saxena, K B and Michael, T and McCombie, W R and Yang, B and Zhang, G and Yang, H and Wang, J and Spillane, C and Cook, D R and May, G D and Xu, X and Jackson, S A (2012) Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology, 30 (1). pp. 83-89. ISSN 1546-1696

Saxena, K B and Saxena, R K and Kumar, R V and 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). pp. 813-816. ISSN 1573-5060

Kassa, M T and Penmetsa, R V and Carrasquilla-Garcia, N and et al, . (2012) Genetic Patterns of Domestication in Pigeonpea (Cajanus cajan (L.) Millsp.) and Wild Cajanus Relatives. PLoS ONE, 7 (6). pp. 1-13. ISSN 1932-6203

Varshney, R K and Paulo, M J and Grando, S and Eeuwijk, F A van and Keizer, L C P and Ceccarelli, S and Kilian, A and Baum, M and Graner, A (2012) Genome wide association analyses for drought tolerance related traits in barley (Hordeum vulgare L.). Field Crops Research, 126 (1). 171-180 . ISSN 0378-4290

Pandey, M K and Gautami, B and Jayakumar, T and Sriswathi, M and Upadhyaya, H D and Gowda, M V C and Radhakrishnan, T and Bertioli, D J and Knapp, S J and Cook, D R and Varshney, R K (2012) Highly informative genic and genomic SSR markers to facilitate molecular breeding in cultivated groundnut (Arachis hypogaea). Plant Breeding, 131 (1). pp. 139-147. ISSN 1439-0523

Saxena, K B and Kumar, R V and Saxena, R K and Sharma, M and Srivastava, R K and Sultana, R and Varshney, R K and Vales, M I and 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). pp. 221-227. ISSN 1573-5060

Gaur, P M and Jukanti, A.K. and Varshney, R K (2012) Impact of Genomic Technologies on Chickpea Breeding Strategies. Agronomy, 2. pp. 199-221. ISSN 2073-4395

Mir, R R and Zaman-Allah, M and Sreenivasulu, N and Trethowan, R and Varshney, R K (2012) Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops. TAG Theoretical and Applied Genetics, 125 (4). pp. 625-645. ISSN 1432-2242

Gautami, B and Fonce´ka, D and Pandey, M K and Sujay, V and Bhanuprakash, A and Shah, T and Nigam, S N and Hoisington, D A and Varshney, R K and et al, . (2012) An International Reference Consensus Genetic Map with 897 Marker Loci Based on 11 Mapping Populations for Tetraploid Groundnut (Arachis hypogaea L.). Plos ONE-Biotechnology, 7 (7). pp. 1-11.

Saxena, R K and Penmetsa, R V and Upadhyaya, H D and Kumar, Ashish and Varshney, R K and et al, . (2012) Large-Scale Development of Cost-Effective Single-Nucleotide Polymorphism Marker Assays for Genetic Mapping in Pigeonpea and Comparative Mapping in Legumes. DNA Research. pp. 1-13. ISSN 1756-1663

Hiremath, P J and Kumar, A and Penmetsa, R V and et al, . (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). pp. 716-732. ISSN 1467-7652

Varshney, R K and May, G D (2012) Next-generation sequencing technologies: opportunities and obligations in plant genomics. Briefings in Functional Genomics, 11 (1). pp. 1-2. ISSN 2041-2647

Upadhyaya, H D and Kashiwagi, J and Varshney, R K and Gaur, P M and Saxena, K B and Krishnamurthy, L and Gowda, C L L and Pundir, R P S and et al, . (2012) Phenotyping chickpeas and pigeonpeas for adaptation to drought. Frontiers in Plant Physiology, 3 (179). pp. 1-10.

Gautami, B and Pandey, M K and Vadez, V and Nigam, S N and Ratnakumar, P and Krishnamurthy, L and Radhakrishnan, T and Gowda, M V C and Narasu, M L and Hoisington, D A and Knapp, S J and 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). pp. 757-772. ISSN 1572-9788

Sujay, V and Gowda, M V C and Pandey, M K and Bhat, R S and Khedikar, Y P and Nadaf, H L and Gautami, B and Sarvamangala, C and Lingaraju, S and Radhakrishan, T and Knapp, S J and 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). pp. 773-788. ISSN 1572-9788

Gangola, M and Khedikar, Y and Gaur, P M and Baga, M and Varshney, R K and Chibbar, R (2012) Variation in important seed constituents among various chickpea genotypes. Quality Assurance and Safety of Crops & Foods, 4 (3). pp. 136-158. ISSN 1757-837X

Bohra, A and Saxena, R K and Gnanesh, B N and Saxena, K B and Byregowda, M and Rathore, A and Kavikishor, P B and Cook, D R and Varshney, R K (2012) An intra-specific consensus genetic map of pigeonpea [Cajanus cajan (L.) Millspaugh] derived from six mapping populations. TAG Theoretical and Applied Genetics, 125 (6). pp. 1325-1338. ISSN 1432-2242

Varshney, R K and Bansal, K C and Aggarwal, P K and Datta, S K and Craufurd, P Q (2011) Agricultural biotechnology for crop improvement in a variable climate: hope or hype? Trends in Plant Science, 16 (7). pp. 363-371.

Bohra, A and Dubey, A and Saxena, R K and Penmetsa, R V and Poornima, K N and Kumar, N and Farmer, A D and Srivani, G and Upadhyaya, H D and Gothalwal, R and Ramesh, S and Singh, Dhiraj and Saxena, K B and Kavi Kishor, P B and Singh, N K and Town, C D and May, G D and Cook, D R and 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 (1). pp. 56-70. ISSN 14712229

Bohra, A and Dubey, A and Saxena, R K and Penmetsa, R V and Poornima, K N and Kumar, N and Farmer, A D and Srivani, G and Upadhyaya, H D and Gothalwal, R and Ramesh, S and Singh, Dhiraj and Saxena, K and Kishor, P B K and Singh, N K and Town, C D and May, G D and Cook, D R and 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 (56). pp. 1-15. ISSN 1471-2229

Sefera, T and Abebie, B and Gaur, P M and Assefa, K and 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). pp. 177-187. ISSN 1836-5795

Gowda, M V C and Bhat, R S and Sujay, V and Kusuma, P and Kumari, Varsha and Varshney, R K and Bhat, S (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 (3-4). pp. 153-158.

Deokar, A A and Kondawar, V and Jain, P K and Karuppayil, S M and Raju, N L and Vadez, V and Varshney, R K and 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 (70).

Krishnamurthy, L and Turner, N C and Gaur, P M and Upadhyaya, H D and Varshney, R K and Siddique, K H M and 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). pp. 214-227.

Dubey, A and Farmer, A and Schlueter, J and Cannon, S B and Abernathy, B and Tuteja, R and Woodward, J and Shah, T and Mulasmanovic, B and Kudapa, H and Raju, N L and Gothalwal, R and Pande, S and Xiao, Y and Town, C D and Singh, N K and May, G D and Jackson, S and 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). pp. 153-164. ISSN 1340-2838, 1756-1663

Gujaria, N and Kumar, Ashish and Dauthal, P and Dubey, A and Hiremath, P and Bhanu Prakash, A and Farmer, A and Bhide, M and Shah, T and Gaur, P M and Upadhyaya, H D and Bhatia, S and Cook, D R and May, G D and Varshney, R K (2011) Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.). TAG Theoretical and Applied Genetics, 122. pp. 1577-1589. ISSN 1432-2242

Dutta, S and Kumawat, G and Singh, B P and Gupta, D K and Singh, Sangeeta and Dogra, V and Gaikwad, K and Sharma, T R and Raje, R S and Bandhopadhya, T K and Datta, S and Singh, M N and Bashasab, F and Kulwal, P and Wanjari, K B and Varshney, R K and Cook, D R and Singh, N K (2011) Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]. BMC Plant Biology, 11 (1). pp. 17-29. ISSN 14712229

Gnanesh, B N and Bohra, A and Sharma, M and Byregowda, M and Pandey, S and Wesley, V and Saxena, R K and Saxena, K B and Kavi Kishor, P B and 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. pp. 53-61.

Saxena, K B and Sultana, R and Saxena, R K and Kumar, R V and Sandhu, J S and Rathore, A and Kavi Kishor, P B and Varshney, R K (2011) Genetics of Fertility Restoration in A4-Based, Diverse Maturing Hybrids of Pigeonpea [Cajanus cajan (L.) Millsp.]. Crop Science, 51. pp. 574-578. ISSN 0011-183X

Neumann, K and Kobiljski, B and Dencic, S and Varshney, R K and Borner, A (2011) Genome-wide association mapping: a case study in bread wheat (Triticum aestivum L.). Molecular Breeding, 27. pp. 37-58. ISSN 1572-9788

Upadhyaya, H D and Thudi, M and Dronavalli, N and Gujaria, N and Singh, Sube and Sharma, S and Varshney, R K (2011) Genomic tools and germplasm diversity for chickpea improvement. Plant Genetic Resources : Characterization and Utilization, 9 (1). pp. 45-58.

Tuberosa, R and Graner, A and Varshney, R K (2011) Genomics of plant genetic resources: an introduction. Plant Genetic Resources, 9 (2). pp. 151-154. ISSN 1479-2621

Sharma, R and Thakur, R P and Senthilvel, S and Nayak, S and Veera Reddy, S and Rao, V P and Varshney, R K (2011) Identification and Characterization of Toxigenic Fusaria Associated with Sorghum Grain Mold Complex in India. Mycopathologia, 171. pp. 223-230.

Sarvamangala, C and Gowda, M V C and 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). pp. 49-59.

Ravi, K and Vadez, V and Isobe, S and Mir, R R and Guo, Y and Nigam, S N and Gowda, M V C and Radhakrishnan, T and Bertioli, D J and Knapp, S J and 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.). TAG Theoretical and Applied Genetics, 122 (6). pp. 1119-1132. ISSN 1432-2242

Krishnamurthy, L and Gaur, P M and Basu, P S and Chaturvedi, S K and Tripathi, S and Vadez, V and Rathore, A and Varshney, R K and Gowda, C L L (2011) Large genetic variation for heat tolerance in the reference collection of chickpea (Cicer arietinum L.) germplasm. Plant Genetic Resources : Characterization and Utilization, 9 (1). pp. 59-69.

Hiremath, P J and Farmer, A and Cannon, S B and Woodward, J and Kudapa, H and Tuteja, R and Kumar, Ashish and Bhanuprakash, A and Mulaosmanovic, B and Gujaria, N and Krishnamurthy, L and Gaur, P M and Kavikishor, P B and Shah, Tushar and Srinivasan, R and Lohse, M and Xiao, Y and Town, C D and Cook, D R and May, G D and 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. pp. 922-931.

Anuradha, C and Gaur, P M and Pande, S and Gali, K K and Ganesh, M and Kumar, J and Varshney, R K (2011) Mapping QTL for resistance to botrytis grey mould in chickpea. Euphytica, 182 (1). pp. 1-9. ISSN 0014-2336

Thudi, M and Bohra, A and Nayak, S N and Varghese, N and Shah, T M and Penmetsa, R V and Thirunavukkarasu, N and Gudipati, S and Gaur, P M and Kulwal, P L and Upadhyaya, H D and Kavikishor, P B and Winter, P and Kahl, G and Town, C D and Kilian, A and Cook, D R and 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). pp. 1-12. ISSN 1932-6203

Upadhyaya, H D and Reddy, K N and Sharma, S and Varshney, R K and Bhattacharjee, R and Singh, Sube and Gowda, C L L (2011) Pigeonpea composite collection and identification of germplasm for use in crop improvement programmes. Plant Genetic Resources, 9 (1). pp. 97-108. ISSN 1479-2621

Mallikarjuna, N and Senapathy, S and Jadhav, D R and Saxena, K B and Sharma, H C and Upadhyaya, H D and Rathore, A and Varshney, R K (2011) Progress in the utilization of Cajanus platycarpus Benth.) Maesen in pigeonpea improvement. Plant Breeding, 130 (5). pp. 507-514.

Khedikar, Y P and Gowda, M V C and Sarvamangala, C and Patgar, K V and Upadhyaya, H D and Varshney, R K (2011) A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resistance in groundnut Arachis hypogaea L.). TAG Theoretical and Applied Genetics, 121 (5). pp. 971-984.

Saxena, R K and Cui, X and Thakur, V and Walter, B and Close, T J and Varshney, R K (2011) Single feature polymorphisms (SFPs) for drought tolerance in pigeonpea (Cajanus spp.). Functional & Integrative Genomics, 11 (4). pp. 651-657.

Bhardwaj, R and Sandhu, J S and Varshney, R K and Gaur, P M and Kaur, L and Vikal, Y (2011) Synteny relationships among the linkage groups of chickpea (Cicer arietinum L.). Journal of Food Legumes, 24 (2). pp. 91-95.

Yang, S Y and Saxena, R K and Kulwal, P and Ash, G J and Dubey, A and Harper, J D I and Upadhyaya, H D and Gothalwal, R and Kilian, A and Varshney, R K (2011) The first genetic map of pigeon pea based on diversity arrays technology (DArT) markers. Journal of Genetics, 90 (1). pp. 103-109.

Glaszmann, J C and Kilian, B and Upadhyaya, H D and Varshney, R K (2010) Accessing genetic diversity for crop improvement. Current Opinion in Plant Biology, 13 (2). pp. 167-173. ISSN 1369-5266

Thudi, M and Manthena, R and Wani, S P and Tatikonda, L and Hoisington, D A and Varshney, R K (2010) Analysis of Genetic Diversity in Pongamia [Pongamia pinnata (L)Pierrre] using AFLP Markers. Journal of Plant Biochemistry and Biotechnlogy, 19 (2). pp. 209-216.

Saxena, R K and Saxena, K B and 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. pp. 371-380. ISSN 1572-9788

Thakur, V and Varshney, R K (2010) Challenges and Strategies for Next Generation Sequencing (NGS) Data Analysis. Journal of Computer Science & Systems Biology, 3. pp. 40-42.

Sharma, R and Rao, V P and Varshney, R K and Prasanth, V P and Kannan, S and 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). pp. 538-551. ISSN 0323-5408

Sharma, R and Rao, V P and Varshney, R K and Prasanth, V P and Kannan, S and 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). pp. 538-551. ISSN 0323-5408

Witzel, K and Weidner, A and Surabhi, G K and Varshney, R K and Kunze, G and Buck-Sorlin, G H and Borner, A and 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). pp. 211-222.

Zeid, M and Yu, J K and Goldowitz, I and Denton, M E and Costich, D E and Jayasuriya, C T and Saha, M and Elshire, R and Benscher, D and Breseghello, F and Munkvold, J and Varshney, R K and Belay, G and Sorrells, M E (2010) Cross-amplification of EST-derived markers among 16 grass species. Field Crops Research, 118. pp. 28-35.

Salem, K F M and Varshney, R K and Roder, M S and Borner, 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. pp. 515-525.

Varshney, R K and Baum, M and Guo, P and Grando, S and Ceccarelli, S and Graner, A (2010) Features of SNP and SSR diversity in a set of ICARDA barley germplasm collection. Molecular Breeding, 26. pp. 229-242.

Cook, D R and Varshney, R K (2010) From genome studies to agricultural biotechnology: closing the gap between basic plant science and applied agriculture. Current Opinion in Plant Biology, 13 (2). pp. 115-118.

Ravi, K and Upadhyaya, H D and Dwivedi, S L and Hoisington, D A and Varshney, R K (2010) Genetic relationships among seven sections of genus Arachis studied by using SSR markers. BMC Plant Biology, 10 (15). pp. 1-12.

Bhardwaj, R and Sandhu, J S and Kaur, L and Gupta, S K and Gaur, P M and Varshney, R K (2010) Genetics of ascochyta blight resistance in chickpea. Euphytica, 171 (3). pp. 337-343. ISSN 1573-5060

Bohra, A and Mallikarjuna, N and Saxena, K B and Upadhyaya, H D and Vales, I and Varshney, R K (2010) Harnessing the Potential of Crop Wild Relatives through Genomics Tools for Pigeonpea Improvement. Journal of Plant Biology, 37 (1). pp. 83-98.

Nayak, S N and Zhu, H and Varghese, N and Datta, S and Choi, H K and Horres, R and Jüngling, R and Singh, J and Kavi Kishor, P B and Sivaramakrishnan, S and Hoisington, D A and Khal, G and Winter, P and Cook, D R and 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. TAG Theoretical and Applied Genetics, 120 (7). pp. 1415-1441.

Nayak, S N and Zhu, H and Varghese, N and Datta, S and Choi, H K and Horres, R and Jüngling, R and Singh, J and Kavi Kishor, P B and Sivaramakrishnan, S and Hoisington, D A and Kahl, G and Winter, P and Cook, D R and 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). pp. 1415-1441. ISSN 0040-5752

Varshney, R K and Thundi, M and May, G D and Jackson, S A (2010) Legume Genomics and Breeding. Plant Breeding Reviews, 33. pp. 257-304.

Saxena, K B and Sultana, R and Mallikarjuna, N and Saxena, R K and Kumar, R V and Sawargaonkar, S L and Varshney, R K (2010) Male-sterility systems in pigeonpea and their role in enhancing yield. Plant Breeding, 129 (2). pp. 125-134.

Varshney, R K and Glaszmann, Jean-Christophe and Leung, H and Ribaut, J M (2010) More genomic resources for less-studied crops. Trends in Biotechnology, 28 (9). pp. 452-460. ISSN 0167-7799

Saxena, R K and Prathima, C and Saxena, K B and Hoisington, D A and Singh, N K and Varshney, R K (2010) Novel SSR Markers for Polymorphism Detection in Pigeonpea (Cajanus spp.). Plant Breeding, 129 (2). pp. 142-148.

Varshney, R K and Penmetsa, R V and Dutta, S and Kulwal, P L and Saxena, R K and Datta, S and Sharma, T R and Rosen, B and Carrasquilla-Garcia, N and Farmer, A D and Dubey, A and Saxena, K B and Gao, J and Fakrudin, B and Singh, M N and Singh, B P and Wanjari, K B and Yuan, M and Srivastava, R K and Kilian, A and Upadhyaya, H D and Mallikarjuna, N and Town, C D and Bruening, G E and He, G and May, G D and McCombie, R and Jackson, S A and Singh, N K and Cook, D R (2010) Pigeonpea genomics initiative (PGI): an international effort to improve crop productivity of pigeonpea (Cajanus cajan L.). Molecular Breeding, 26 (3). pp. 393-408. ISSN 1380-3743

Gupta, P K and Balyan, H S and Varshney, R K (2010) Quantitative genetics and plant genomics: an overview. Molecular Breeding, 26 (2). pp. 133-134.

Flowers, T J and Gaur, P M and Gowda, C L L and Krishnamurthy, L and Samineni, S and Siddique, K H M and Turner, N C and Vadez, V and Varshney, R K and Colmer, T D (2010) Salt sensitivity in chickpea. Plant, Cell and Environment , 33 (4). pp. 490-509. ISSN 0140-7791

Saxena, R K and Saxena, K B and Kumar, R V and Hoisington, D A and 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. pp. 135-241.

Thudi, M and Senthilvel, S and Bottley, A and Hash, C T and Reddy, A R and Feltus, A F and Paterson, A H and Hoisington, D A and Varshney, R K (2010) A comparative assessment of the utility of PCR-based marker systems in pearl millet. Euphytica, 174 (2). pp. 253-260. ISSN 0014-2336

Raju, N L and Gnanesh, B N and Lekha, P and Jayashree, B and Pande, S and Hiremath, P and Byregowda, M and Singh, N K and 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 (45).

Raju, N K and Gnanesh, B N and Lekha, P and Jayashree, B and Pande, S and Hiremath, P J and Byregowda, M and Singh, N K and Varshney, R K (2010) The first set of EST resource for gene discoveryand marker development in pigeonpea(Cajanus cajan L.). BMC Plant Biology, 10. pp. 45-66. ISSN 14712229

Tatikonda, L and Wani, S P and Kannan, S and Beerelli, N and Sreedevi, T K and Hoisington, D A and Devi, P and Varshney, R K (2009) AFLP-based molecular characterization of an elite germplasm collection of Jatropha curcas L., a biofuel plant. Plant Science, 176 (4). pp. 505-513.

Varshney, R K and Pande, S and Kannan, S and Mahendar, T and Sharma, M and Gaur, P M and Hoisington, D A (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. pp. 1-11.

Close, T J and Bhat, P R and Stefano, L and Wu, Y and Nils, R and Luke, R and Arnis, D and Nils, S and Svensson, J T and Steve, W and Serdar, B and Roose, M L and Moscou, M J and Shiaoman, C and Varshney, R K and et al, . (2009) Development and implementation of high-throughput SNPgenotyping in barley. BMC Genomics, 10 (582). 13p. ISSN 1471-2164

Guo, P and Baum, M and Grando, S and Ceccarelli, S and Bai, G and Li, R and Korff, M V and Varshney, R K and Graner, A and 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). pp. 3531-3544.

Sharma, M and Varshney, R K and Rao, J N and Kannan, S and Hoisington, D A and Pande, S (2009) Genetic diversity in Indian isolates of Fusarium oxysporum f. sp. ciceris, chickpea wilt pathogen. African Journal of Biotechnology, 8 (6). pp. 1016-1023.

Varshney, R K and Mahendar, T and Aruna, R and Nigam, S N and Neelima, K and Vadez, V and 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). pp. 486-494.

Leal-Bertioli, S C M and Jose, A C V F and Alves-Freitas, D M T and Moretzsohn, M C and Guimaraes, P M and Nielen, S and Vidigal, B S and Pereira, R W and Pike, J and Favero, A P and Parniske, M and Varshney, R K and Bertioli, D J (2009) Identification of candidate genome regions controlling disease resistance in Arachis. BMC Plant Biology, 9 (112). pp. 1-12.

Nayak, S N and Balaji, J and Upadhyaya, H D and Hash, C T and Kishor, P B K and Chattopadhyay, D and Rodriquez, L M and Blair, M W and Baum, M and McNally, K and This, D and Hoisington, D A and Varshney, R K (2009) Isolation and sequence analysis of DREB2A homologues in three cereal and two legume species. Plant Science, 177 (5). pp. 460-467.

Gulati, P and Varshney, R K and 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). pp. 875-884.

Varshney, R K and Nayak, S N and May, G D and Jackson, S A (2009) Next-generation sequencing technologies and their implications for crop genetics and breeding. Trends in Biotechnology, 27 (9). pp. 522-530.

Varshney, R K and Dubey, A (2009) Novel genomic tools and modern genetic and breeding approaches for crop improvement. Journal of Plant Biochemistry and Biotechnology, 18 (2). pp. 127-138.

Gautami, B and Ravi, K and Narasu, M L and Hoisington, D A and Varshney, R K (2009) Novel set of groundnut SSR markers for germplasm analysis and interspecific transferability. International Journal of Integrative Biology, 7 (2). pp. 100-106.

Varshney, R K and Close, T J and Singh, N K and Hoisington, D A and Cook, D R (2009) Orphan legume crops enter the genomics era. Current Opinion in Plant Biology, 12 (2). pp. 202-210.

Varshney, R K and Close, T J and Singh, N K and Hoisington, D A and Cook, D R (2009) Orphan legume crops enter the genomics era! Current Opinion in Plant Biology, 12 (2). pp. 202-210. ISSN 1369-5266

Jayashree, B and Prakash, A B and Jami, A and Reddy, P S and Nayak, S and Varshney, R K (2009) Perl module and PISE wrappers for the integrated analysis of sequence data and SNP features. BMC Research Notes, 2. pp. 1-5.

Varshney, R K and Hiremath, P J and Lekha, P and Kashiwagi, J and Jayashree, B and Deokar, A A and Vadez, V and Xiao, Y and Srinivasan, R and Gaur, P M and Siddique, K H M and Town, C D and 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 (523). 18p. ISSN 1471-2164

Varshney, R K and Bertioli, D J and Moretzsohn, M C and Vadez, V and Krishnamurthy, L and Aruna, R and Nigam, S N and Moss, B J and Kannan, S and Ravi, K and He, G and Knapp, S J and Hoisington, D A (2009) The first SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.). TAG Theoretical and Applied Genetics, 118 (4). pp. 729-739.

Singh, R and Sharma, P and Varshney, R K and Sharma, S K and Singh, N K (2008) Chickpea Improvement: Role of Wild Species and Genetic Markers. Biotechnology & Genetic Engineering Reviews, 25. pp. 267-314.

Kota, R and Varshney, R K and Prasad, M and Zhang, H and Stein, N and Graner, A (2008) EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome. Functional & Integrative Genomics, 8 (3). pp. 223-233. ISSN 1438-7948

Chabane, K and Varshney, R K and Graner, A and 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). pp. 869-881. ISSN 1573-5109

Upadhyaya, H D and Dwivedi, S L and Baum, M and Varshney, R K and Udupa, S M and Gowda, C L L and Hoisington, D A and Singh, Sube (2008) Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinum L.). BMC Plant Biology, 8 (106). pp. 1-12.

Varshney, R K and Thiel, T and Sretenovic-Rajicic, T and Baum, M and Valkoun, J and Guo, P and Grando, S and Ceccarelli, S and 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). pp. 1-13. ISSN 1380-3743

Mace, E S and Varshney, R K and Mahalakshmi, V and Seetha, K and Gafoor, A and Leeladevi, Y and 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). pp. 51-60. ISSN 0168-9452

Cuc, L M and Mace, E S and Crouch, J H and Quang, V D and Long, T D and 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 (55). pp. 1-11.

Varshney, R K and Coyne, C J and Swamy, P and Hoisington, D A (2008) Molecular identification of genetically distinct accessions in the USDA chickpea core collection. Pisum Genetics, 39. pp. 32-33. ISSN 1320-2510

Sharma, H C and Varshney, R K and Gaur, P M and Gowda, C L L (2008) Potential for using morphological, biochemical, and molecular markers for resistance to insect pests in grain legumes. Journal of Food Legumes, 21 (4). pp. 211-217. ISSN 0970-6380

Varshney, R K and Salem, K F M and Baum, M and Roder, M S and Graner, A and Borner, A (2008) SSR and SNP diversity in a barley germplasm collection. Plant Genetic Resources, 6 (2). pp. 167-174. ISSN 1479-2621

Castillo, A and Budak, H and Varshney, R K and Dorado, G and Graner, A and Hernandez, P (2008) Transferability and polymorphism of barley EST-SSR markers used for phylogenetic analysis in Hordeum chilense. BMC Plant Biology, 8 (97). pp. 1-10.

Stein, N and Prasad, M and Scholz, U and Thiel, T and Zhang, H and Wolf, M and Kota, R and Varshney, R K and Perovic, D and Grosse, I and Graner, A (2007) A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics. TAG Theoretical and Applied Genetics, 114 (5). pp. 823-839. ISSN 1432-2242

Varshney, R K (2007) Chickpea Genomics Consortium on Drought Tolerance. Journal of SAT Agricultural Research, 3 (1). p. 1.

Varshney, R K and Chabane, K and Hendre, P S and Aggarwal, R K and 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). pp. 638-649. ISSN 0168-9452

Varshney, R K and Nayak, S and Jayashree, B and Eshwar, K and Upadhyaya, H D and Hoisington, D A (2007) Development of cost-effective SNP assays for chickpea genome analysis and breeding. Journal of SAT Agricultural Research, 3 (1). pp. 1-3. ISSN 0973-3094

Marcel, T C and Aghnoum, R and Durand, J and Varshney, R K and 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). pp. 1604-1615. ISSN 0894-0282

Hoisington, D A and Varshney, R K (2007) Diversity Arrays Technology (DArT) Low Cost, Generic Molecular Markers for Breeding and Research. Biotech News, 2 (1). pp. 6-8.

Varshney, R K and Horres, R and Molina, C and Nayak, S and Jungmann, R and Swamy, P and Winter, P and Jayashree, B and Kahl, G and Hoisington, D A (2007) Extending the repertoire of microsatellite markers for genetic linkage mapping and germplasm screening in chickpea. Journal of SAT Agricultural Research, 5 (1). pp. 1-3. ISSN 0973-3094

Amrutha, R N and Sekhar, P N and Varshney, R K and 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). pp. 708-721. ISSN 0168-9452

Aggarwal, R K and Hendre, P S and Varshney, R K and Bhat, P R and Krishnakumar, V and Singh, L (2007) Identification, characterization and utilization of EST-derived genic microsatellite markers for genome analyses of coffee and related species. TAG Theoretical and Applied Genetics, 114 (2). pp. 359-372. ISSN 1432-2242

Jayashree, B and Hanspal, M S and Srinivasan, R and Vigneshwaran, R and Varshney, R K and Spurthi, N and Eshwar, K and Ramesh, N and Chandra, S and 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 (35604). pp. 1-7. ISSN 1531-6912

Vadez, V and Krishnamurthy, L and Serraj, R and Gaur, P M and Upadhyaya, H D and Hoisington, D A and Varshney, R K and Turner, N C and 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 (1-3). pp. 123-129. ISSN 0378-4290

Varshney, R K (2007) Pigeonpea genomics initiative established under Indo-US agricultural knowledge initiative. Journal of SAT Agricultural Research, 3 (1). p. 1.

Varshney, R K and Beier, U and Khlestkina, K E and Kota, R and Korzun, V and Graner, A and Borner, A (2007) Single nucleotide polymorphisms in rye (Secale cereale L.): discovery, frequency, and applications for genome mapping and diversity studies. TAG Theoretical and Applied Genetics, 114. pp. 1105-1116.

Varshney, R K and Marcel, T C and Ramsay, L and Russell, J and Roder, M S and Stein, N and Waugh, R and Langridge, P and Niks, R E and Graner, A (2007) A high density barley microsatellite consensus map with 775 SSR loci. TAG Theoretical and Applied Genetics, 114 (6). pp. 1091-1103. ISSN 1432-2242

Marcel, T C and Varshney, R K and Barbieri, M and Jafary, H and Kock, M J D de and Graner, A and 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. TAG Theoretical and Applied Genetics, 114 (3). pp. 487-500. ISSN 1432-2242

Varshney, R K and Hoisington, D A and Tyagi, A K (2006) Advances in cereal genomics and applications in crop breeding. Trends in Biotechnology, 24 (11). pp. 490-499.

Jayashree, B and Ramu, P and Prasad, P and Bantte, K and Hash, C T and Chandra, S and Hoisington, D A and 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). pp. 607-620. ISSN 1434-3207

Varshney, R K and Grosse, I and Hahnel, U and Siefken, R and Prasad, M and Stein, N and Langridge, P and Altschmied, L and Graner, A (2006) Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome. TAG Theoretical and Applied Genetics, 113 (2). pp. 239-250. ISSN 1432-2242

Jayashree, B and Reddy, P T and Leeladevi, Y and Crouch, J H and Mahalakshmi, V and Buhariwalla, H K and Eshwar, K E and Mace, E and Folksterma, R and Senthilvel, S and Varshney, R K and Seetha, K and Rajalakshmi, R and Prasanth, V P and Chandra, S and Swarupa, L and SriKalyani, P and Hoisington, D A (2006) Laboratory Information Management Software for genotyping workflows: applications in high throughput crop genotyping. BMC Bioinformatics, 7 (383). ISSN 1471-2105

Szira, F and Balint, A and Galiba, G and Varshney, R K and Borner, A (2006) Mapping of QTLs for drought tolerance in barley at different development stages. Vorträge Pflanzenzüchtung, 70. pp. 113-115.

Rostoks, N and Ramsay, L and MacKenzie, K and Cardle, L and Bhat, P R and Roose, M L and Svensson, J T and Stein, N and Varshney, R K and Marshall, D F and Graner, A and Close, T J and Waugh, R (2006) Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties. Proceedings of the National Academy of Sciences, 103 (49). pp. 18656-18661. ISSN 1091-6490

Varshney, R K and Graner, A and Sorrells, M E (2005) Genomics-assisted breeding for crop improvement. Trends in Plant Science, 10 (12). pp. 621-630. ISSN 1360-1385

Borner, A and Roder, M S and Chebotar, S and Varshney, R K and Weinder, A (2005) Molecular Tools for Genebank Management and Evaluation. Czech Journal of Genetics and Plant Breeding(Special Issue), 41. pp. 122-127. ISSN 1212-1975

Afonso-Grunz, F and Molina, C and Hoffmeier, K and Rycak, L and Kudapa, H and Varshney, R K and Drevon, J-J and Winter, P and Kahl, G Genome-based analysis of the transcriptome from mature chickpea root nodules. Frontiers in Plant Science. ISSN 1664-462X

Book Section

Gaur, P M and Thudi, M and Samineni, S and Varshney, R K (2014) Advances in Chickpea Genomics. In: Legumes in the Omic Era. Springer, New York, pp. 73-94. ISBN 978-1-4614-8370-0

Bohra, A and Saxena, R K and Saxena, K B and Sameerkumar, C V and Varshney, R K (2014) Advances in Pigeonpea Genomics. In: Legumes in the Omic Era. Springer, New York, pp. 95-110. ISBN 978-1-4614-8370-0

Mallikarjuna, N and Varshney, R K (2014) Genetics, Genomics and Breeding of Peanut: An Introduction. In: Genetics, Genomics and Breeding of Peanuts. Genetics, Genomics and Breeding of Crop Plants . CRC Press, pp. 1-12. ISBN 978-1-4822-3835-8 ; 978-1-4822-3837-2

Pandey, M K and Guo, B and Holbrook, C C and Janila, P and Zhang, X and Bertioli, D J and Isobe, S and Liang, S and Varshney, R K (2014) Molecular Markers, Genetic Maps, and QTLs for Molecular Breeding in Peanut. In: Genetics, Genomics and Breeding of Peanuts. Genetics, Genomics and Breeding of Crop Plants . CRC Press, pp. 79-113. ISBN 978-1-4822-3835-8 ; 978-1-4822-3837-2

Gupta, P K and Varshney, R K (2013) Cereal Genomics: Excitements, challenges and opportunities. In: Cereal Genomics II. Springer, Netherlands, pp. 1-9. ISBN 978-94-007-6400-2

Sharma, S and Upadhyaya, H D and Roorkiwal, M and Varshney, R K and Gowda, C L L (2013) Chickpea. In: Genetic and Genomic Resources of Grain Legume Improvement. Elsevier, London, UK, pp. 81-111. ISBN 978-0-12-397935-3

Kulwal, P L and Thudi, M and Varshney, R K (2013) Crop breeding for sustainable agriculture, genomics interventions in. In: Sustainable Food Production. Springer, New York, pp. 501-513. ISBN 978-1-4614-5796-1

Mir, R R and Hiremath, P J and Riera-Lizarazu, O and Varshney, R K (2013) Evolving Molecular Marker Technologies in Plants: From RFLPs to GBS. In: Diagnostics in Plant Breeding. Springer Science+Business, New York, pp. 229-247. ISBN 978-94-007-5686-1 ;978-94-007-5687-8 (eBook)

Burow, M D and Leal-Bertioli, S C M and Simpson, C E and Ozias-Akins, P and Chu, Y and Denwar, N N and Chagoya, J and Starr, J L and Moretzsohn, M C and Pandey, M K and Varshney, R K and Holbrook, C C and Bertioli, D J (2013) Marker-Assisted Selection for Biotic Stress Resistance in Peanut. In: Translational Genomics for Crop Breeding: Biotic Stress. Wiley Blackwell, pp. 125-150. ISBN 978-0-470-96290-9

Upadhyaya, H D and Sharma, S and Reddy, K N and Saxena, R K and Varshney, R K and Gowda, C L L (2013) Pigeonpea. In: Genetic and Genomic Resources of Grain Legume Improvement. Elsevier, London, Uk, pp. 181-202. ISBN 978-0-12-397935-3

Varshney, R K and Tuberosa, R (2013) Translational Genomics in Crop Breeding for Biotic Stress Resistance: An Introduction. In: Translational Genomics for Crop Breeding: Biotic Stress. Wiley Blackwell, pp. 1-9. ISBN 978-0-470-96290-9

Mir, R R and Varshney, R K (2012) Future Prospects of Molecular Markers in Plants. In: Molecular Markers in Plants. Blackwell Publishing Ltd, Oxford, UK. , pp. 169-190. ISBN 9781118473023

Fakrudin, B. and Tuberosa, R. and Varshney, R K (2012) Omics techniques in crop research: an overview. In: Improving Crop Resistance to Abiotic Stress. Wiley-VCH Verlag GmbH & Co. KGaA, pp. 289-300. ISBN 978-3-527-32840-6 (In Press)

Mir, R R and Thudi, M and Chamarthi, S K and Krishnamurthy, L and Gaur, P M and Varshney, R K (2012) Translational Root Genomics for Crop Improvement. In: Root Genomics and Soil Interactions. John Wiley & Sons, Inc., USA, pp. 249-264. ISBN 9781118447093

Kulwal, P and Thudi, M and Varshney, R K (2011) Genomics Interventions in Crop Breeding for Sustainable Agriculture. In: Encyclopedia of Sustainability Science and Technology. Springer. ISBN 978-0-387-89469-0 (In Press)

Varshney, R K and Pazhamala, L and Kashiwagi, J and Gaur, P M and Krishnamurthy, L and Hoisington, D A (2011) Genomics and Physiological Approaches for Root Trait Breeding to Improve Drought Tolerance in Chickpea (Cicer arietinum L.). In: Root Genomics. Springer, Germany, pp. 233-250. ISBN 9783540855453

Varshney, R K and Pazhamala, L and Kashiwagi, J and Gaur, P M and Krishnamurthy, L and Hoisington, D (2011) Genomics and physiological approaches for root trait breeding to improve drought tolerance in chickpea (Cicer arietinum L.). In: Root Genomics. Springer Berlin, Heidelberg, pp. 233-250. ISBN 978-3-540-85545-3

Burstin, J and Gallardo, K and Mir, R R and Varshney, R K and Duc, G (2011) Improving protein content and nutrition quality. In: Biology and Breeding of Food Legumes. CAB International, Wallingford, UK, pp. 314-328. ISBN 9781845937669

Costa de Oliveira, A and Varshney, R K (2011) Introduction to root genomics. In: Root Genomics. Springer Berlin Heidelberg, New York, pp. 1-10. ISBN 978-3-540-85545-3

Chamarthi, S K and Kumar, A and Vuong, T D and Blair, M W and Gaur, P M and Nguyen, H T and Varshney, R K (2011) Trait mapping and molecular breeding. In: Biology and breeding of food legumes. CAB International, Wallingford, UK, pp. 296-313. ISBN 978-1-84593-766-9

Upadhyaya, H D and Kashiwagi, J and Varshney, R K and Gaur, P M and Saxena, K B and Krishnamurthy, L and Gowda, C L L and Pundir, R P S and Chaturvedi, S K and Basu, P S and Singh, I P (2010) Phenotyping chickpeas and pigeonpeas for adaptation to drought. In: Drought phenotyping in crops: from theory to practice. Generation Challenge Programme, pp. 347-355.

Varshney, R K (2009) Gene-based marker systems in plants: High throughput approaches for marker discovery and genotyping. In: Molecular Techniques in Crop Improvement. Springer, Netherlands, pp. 119-142. ISBN 978-90-481-2966-9

Varshney, R K and Hoisington, D A and Nayak, S N and Graner, A (2009) Molecular Plant Breeding: Methodology and Achievements. In: Plant Genomics: Methods and Protocols. Methods in Molecular Biology (V 513). Humana Press, a part of Springer Science + Business Media, LLC, New York, pp. 283-304. ISBN 978-1-58829-997-0 (Print) ; 978-1-59745-427-8 (Online)

Varshney, R K and Langridge, P and Graner, A (2007) Application of Genomics to Molecular Breeding of Wheat and Barley. In: Advances in Genetics. Elsevier, Amsterdam, UK, pp. 121-155. ISBN 978-0-12-374621-4

Gaur, P M and Srivastava, R K and Gowda, C L L and Pande, S and Sharma, H C and Sharma, K K and Vadez, V and Kashiwagi, J and Krishnamurthy, L and Varshney, R K and Hoisington, D A (2007) Breeding Chickpea for Improved Adaptation to the Semi-Arid Tropical Environments. In: Sustainable Agriculture for Food, Bio-Energy and Livelihood Security. Agrobios International.

Varshney, R K and Mahendar, T and Aggarwal, R K and Borner, A (2007) Genic molecular markers in plants: Development and applications. In: Genomics-Assisted Crop Improvement. Springer Netherlands, Dordrecht, The Netherlands, pp. 13-29. ISBN 978-1-4020-6294-0

Varshney, R K and Tuberosa, R (2007) Genomics-assisted crop improvement: An overview. In: Genomics-Assisted Crop Improvement. Springer Verlag, Dordrecht, The Netherlands, pp. 1-12. ISBN 978-1-4020-6294-0

Varshney, R K and Hoisington, D A and Upadhyaya, H D and Gaur, P M and Nigam, S N and Saxena, K B and Vadez, V and Sethy, N K and Bhatia, S and Aruna, R and Gowda, M V C and Singh, N K (2007) Molecular Genetics and Breeding of Grain Legume Crops for the Semi-Arid Tropics. In: Genomics-Assisted Crop Improvement Vol 2: Genomics Applications in Crops. Springer Netherlands, Springer Netherlands, Netherlands, pp. 207-241. ISBN 978-1-4020-6296-4

Koebner, R M D and Varshney, R K (2006) Development and Application of Genomic Models for Large-Crop Plant Genomes. In: Model Plants and Crop Improvement. CRC Press(Taylor & Francis), UK, pp. 1-10. ISBN 978-0-8493-3063-6

Azhaguvel, P and Saraswathi, D V and Sharma, A and Varshney, R K (2006) Methodological Advancement in Molecular Markers to Delimit the Gene(s) for Crop Improvement. In: Floriculture, ornamental and plant biotechnology. Global Science Books, Isleworth, UK, pp. 460-469. ISBN 4-903313-00-X

Varshney, R K and Balyan, H S and Langridge, P (2006) Wheat. In: Cereals and Millets. Genome Mapping and Molecular Breeding in Plants, 1 . Springer-Verlag , Berlin, Heidelberg, Germany, pp. 79-134. ISBN 978-3-540-34031-7

Gupta, P K and Varshney, R K (2005) Cereal Genomics: An Overview. In: Cereal Genomics. Springer Netherlands, Netherlands, pp. 1-18. ISBN 978-1-4020-2359-0

Sreenivasulu, N. and Varshney, R K and Kishore, P K and Weschke, W (2005) Functional Genomics for Tolerance to Abiotic Stress in Cereals. In: Cereal Genomics. Springer Netherlands, pp. 483-514. ISBN 978-1-4020-2359-0

Varshney, R K and Korzun, V and Borner, A (2005) Molecular Maps in Cereals: Methodology and Progress. In: Cereal Genomics. Springer Netherlands, pp. 35-82. ISBN 978-1-4020-2359-0

Schulman, A H and Gupta, P K and Varshney, R K (2005) Organization of Retrotransposons and Microsatellites in Cereal Genomes. In: Cereal Genomics. Springer Netherlands, pp. 83-118. ISBN 978-1-4020-2359-0

Monograph

Vales, M I and Saxena, K B and Saxena, R K and Patil, S B and Sawargaonkar, S L and Sultana, R and Sharma, M and Pande, S and Varshney, R K (2012) PRIL_A, PRIL_B and PRIL_C: Pigeonpea Recombinant Inbred Line Mapping Populations Segregating for Resistance to Fusarium Wilt and Sterility Mosaic Disease. Documentation. International Crops Research Institute for the Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Upadhyaya, H D and Lalitha, N and Varshney, R K and Sharma, H C and Kashiwagi, J and Gowda, C L L and Dwivedi, S L (2008) Phenotyping reference set of chickpea (Cicer arietinum L.) for agronomic traits including resistance to legume pod borer (Helicoverpa armigera). Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Upadhyaya, H D and Bharathi, A and Gowda, C L L and Varshney, R K and Dwivedi, S L (2008) Phenotyping reference set of foxtail millet (Setaria italica) for Agronomic Traits. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Hash, C T and Hoisington, D A and Varshney, R K and et al, . (2007) Applications of molecular markers in breeding. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India. (Unpublished)

Jayashree, B and Chandra, S and Hoisington, D A and Upadhyaya, H D and Hash, C T and Vadez, V and Varshney, R K and Senthilvel, S (2007) Bioinformatics platform for ICRISAT's global research needs. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh India. (Unpublished)

Vadez, V and Krishnamurthy, L and Hash, C T and et al, . (2007) Breeding for salt tolerance in cereal and legumes: Status and prospects. Documentation. International Crops Research Institute for Semi-Arid Tropics , Patancheru, Andhra Pradesh India. (Unpublished)

Upadhyaya, H D and Gowda, C L L and Kashiwagi, J and et al, . (2007) Core and Mini Core Approaches for Enhancing Use of Germplasm in Crop Improvement. Documentation. International Crops Research Institute for Semi-Arid Tropic, Patancheru, Andha Pradesh, India.

Vadez, V and Hash, C T and Bidinger, F R and et al, . (2007) Molecular breeding for drought tolerance: Progresses, issues, orientations. Documentation. International Crops Research Institute for Semi-Arid Tropics , Patancheru, Andhra Pradesh, India. (Unpublished)

Upadhyaya, H D and Varshney, R K and Hash, C T and Hoisington, D A and Gowda, C L L and Reddy, V G and Chandra, S and Lalitha, N and Bharathi, A (2006) Development of composite collection and genotyping of foxtail millet [Setaria italic (L.) Beauv.] composite collection. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Upadhyaya, H D and Hash, C T and et al, . (2006) Development of composite collection and genotyping of pearl millet [Pennisetum glaucum (L.) R. Br.]. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Upadhyaya, H D and Valls, J F M and Bertolli, D and et al, . (2006) Molecular characterization of groundnut (Arachis hypogaea L.) composite collection. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh, India.

Upadhyaya, H D and Bhattacharjee, R and Hoisington, D A and Chandra, S and Varshney, R K and Reddy, K N and Saxena, K B (2006) Molecular characterization of pigeonpea [Cajanus cajan (L.) Millspaugh] composite collection. Documentation. International Crops Research Institute for Semi-Arid Tropics, Patancheru, Andhra Pradesh India.

Conference or Workshop Item

Guo, B and Liu, X and Ozias-Akins, P and Zhang , X and Liao, B and Varshney, R K and Nwosu, V and Wilson, R F and Stalker, H T (2013) The Peanut Genome Consortium and Peanut Genome Sequence: Creating a better future through global food security. In: 2013 APS-MSA Joint Meeting, 10-14 August 2013, Austin, Texas USA.

Kudapa, H and Sharma, H C and Krishnamurthy, L and Adivi, S and Vijaya, P and Farmer, A D and Shah, T and Gaur, P M and Varshney, R K (2012) Deciphering the role of stress responsive genes in chickpea (Cicer arietinum L.). In: Proceedings of VI International Conference on Legumes Genetics and Genomics, 2-7 October 2012, Hyderabad, India.

Varshney, R K (2011) Application of Next Generation Sequencing and Genotyping Technologies to Develop Large‐Scale Genomic Resources in SAT Legume Crops. In: National Symposium on Genomics and Crop Improvement: Relevance and Reservations , February 25 - 27, 2010, Acharya N G Ranga Agricultural University, Rajendranagar, Hyd.

Oyier, M.O and Mulwa, R.M.S and Kimurto, P.K. and Towett, B.K. and Cheruiyot, E.K. and Rao, N.V.P.R.G and Silim, S.N. and Varshney, R K and Gaur, P M (2011) Marker assisted backcross breeding to enhance drought tolerance in Kenyan chickpea (Cicer arietinum L.) germplasm. In: 6th Egerton University International Conference: Research and Expo-Transformative Research for Sustainable Development, 21-23 September, 2011, Kenya.

Varshney, R K and et al, . (2011) Towards Integrating Genomics in Breeding in Groundnut (Arachis hypogaea L.). In: Plant & Animal Genome XIX Conference, 15-19 Jan 2011 , San Diego, USA.

Upadhyaya, H D and Dwivedi, S L and Varshney, R K and Gowda, C L L and Bhattacharjee, R and Hoisington, D A and Vadez, V (2009) Enhancing the value of legume genetic resources using core/mini core and applied genomic tools. In: International conference on Current trends in Biotechnology, 19-21 Feb. 2009, Meerut, India.

Upadhyaya, H D and Dwivedi, S L and Baum, M and Varshney, R K and Udupa, S M and Gowda, C L L and Prasanth, V P and Furman, B J and Hoisington, D A and Chndra, S and Singh, Sube (2008) Allelic Richness and Diversity in Global Composite Collection and Reference Sets in Chickpea (Cicer Arietinum L.). In: 5th International Crop Science Congress & Exhibition, Jeju, Korea, 13-18 April 2008.

Khedikar, Y P and Patgar, K V and Gowda, M C V and Upadhyaya, H D and Varshney, R K (2008) Construction of a genetic linkage map and QTL analysis for late leaf spot and rust in groundnut (Arachis hypogaea L.). In: 3rd International Conference for Peanut Genomics and Biotechnology on Advances in Arachis through Genomics and Biotechnology, 4-8 November 2008, ICRISAT Patancheru, Andhra Padesh, India.

Varshney, R K and Mahendar, T and Aruna, R and Nigam, S N and Neelima, K and Vadez, V and Hoisington, D A (2008) Extraordinary high allelic diversity in a groundnut (Arachis hypogaea L.) germplasm collection assayed by robust and informative SSR markers. In: Third International Conference of the Peanut Research Community On Advances in Arachis through Genomics and Biotechnology (AAGB – 2008), 4-8 November 2008, ICRISAT, Hyderabad, Andhra Pradesh, India.

Gowda, M V C and Khedikar, Y P and Kusuma, V P and Sujay, V and Bhat, S and Upadhyaya, H D and Varshney, R K (2008) Genetic enhancement of resistance to foliar diseases. In: Third International Conference of the Peanut Research Community On Advances in Arachis through Genomics and Biotechnology (AAGB – 2008), 4-8 November 2008, ICRISAT Patancheru, Andhra Padesh, India.

Vadez, V and Krishnamurthy, L and Ratnakumar, P and Rao, S and Devi, J M and Srivastava, N and Sharma, K K and Bhatnagar-Mathur, P and Varshney, R K and Upadhyaya, H D and Aruna, R and Nigam, S N (2008) Phenotypic assessment of groundnut response to key abiotic stress. In: 3rd International Conference for Peanut Genomics and Biotechnology on Advances in Arachis through Genomics and Biotechnology, 4-8 November 2008, ICRISAT Patancheru, Andhra Padesh, India.

Varshney, R K and et al, . (2008) SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.) for QTL analysis and comparative mapping. In: Third International Conference of the Peanut Research Community On Advances in Arachis through Genomics and Biotechnology (AAGB – 2008), 4-8 November 2008, ICRISAT, Hyderabad, Andhra Pradesh, India.

This, D and Courtois, B and Philippe, R and et al, . (2008) Some Data On Allele Diversity At Orthologous Candidate Genes In GCP Crops. In: Plant & Animal Genomes XVIII Conference, 9-13 January 2010, San Diego, CA.

Upadhyaya, H D and Dwivedi, S L and Varshney, R K and Hoisington, D A and Gowda, C L L (2008) Using genetic and genomic resources to broaden the genetic base of cultivated groundnut. In: 3rd International Conference for Peanut Genomics and Biotechnology on Advances in Arachis through Genomics and Biotechnology, 4-8 November 2008, ICRISAT Patancheru, Andhra Padesh, India.

Upadhyaya, H D and etal, . (2007) Mining allelic diversity associated with drought and salinity tolerance in the reference subset of chickpea germplasm collections. In: Generation Challenge Programme Annual Research Meeting, 12–16 September 2007, Benoni, South Africa.

Vadez, V and Krishnamurthy, L and Gaur, P M and Upadhyaya, H D and Hoisington, D A and Varshney, R K (2006) Genetic variability for salinity tolerance in chickpea. In: 3rd International Conference on Legume Genomics and Genetics, 9 - 13, April, 2006.

Upadhyaya, H D and Varshney, R K and Hoisington, D A and et al, . (2006) Genotyping composite collection of finger millet [Eleusine coracana (L.) Gaertn]. In: Generation Challenge Program Annual Research Meeting, 12-16 September 2006, Sao Paulo, Brazil.

Book

Gupta, P K and Varshney, R K (2013) Cereal Genomics II. Springer Netherlands. ISBN 978-94-007-6401-9

Thesis

Gujaria, Neha (2012) Development Of Functional Markers And Transcript Map Of Chickpea (Cicer arietinum L). PhD thesis, Dr. Hari Singh Gour University Sagar(Madhya Pradesh).

Dubey, A (2011) Development of genomic resources in pigeonpea (Cajanus cajan L.Millspaugh). PhD thesis, Barkatullah University.

Jalaja, N (2011) Development of transgenics for fungal resistance and discovery of chemically induced mutations in Pearl Millet (Pennisetum glaucum L.) population by TILLING. PhD thesis, Osmania University.

Gnanesh, B N (2010) Generation of Expressed Sequence Tags and Marker Development for Sterility Mosaic Disease Resistance in Pigeonpea. PhD thesis, University of Agricultural Sciences, Bangalore.

Nayak, S N (2010) Identification of QTLS and Genes for Drought Tolerance Using Linkage Mapping and Association Mapping Approaches in Chickpea (Cicer arietinum). PhD thesis, Osmania University, Hyderabad, India.

Saxena, R K (2010) Study of inheritance and identification of molecular markers for fertility restorers in pigeonpea [Cajanus cajan (L.) Millspaugh]. PhD thesis, International Crops Research Institute for the Semi-Arid Tropics .

Sarvamangala, C (2009) Construction of Genetic Linkagemap and QTL Analysis for Foliar Disease Resistance, Nutritional Quality and Productivity Traits in Groundnut (Arachis hypogaea L). PhD thesis, University of Agricultural Sciences, Dharwad.

Khedikar, Y P (2008) Molecular tagging and mapping of resistance to late leaf spot and rust in groundnut (Arachis hypogaea L.). PhD thesis, University of Agricultural Sciences.

This list was generated on Sat Dec 20 18:30:37 2014 UTC.