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Jayashree, B and Ferguson, M and Ilut, D and Doyle, J and Crouch, J H (2005) Analysis of genomic sequences from peanut (Arachis hypogaea). Electronic Journal of Biotechnology, 8 (3). pp. 226-237. ISSN 0717-3458
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
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.
Krishnamurthy, L and Vadez, V and Devi, M J and Serraj, R and Nigam, S N and Sheshshayee, M S and Chandra, S and Aruna, R (2007) Variation in transpiration efficiency and its related traits in a groundnut (Arachis hypogaea L.) mapping population. Field Crops Research, 103 (3). pp. 189-197.
Dwivedi, S L and Upadhyaya, H D and Stalker, H T and Blair, M W and Bertioli, D J and Nielen, S and Ortiz, R (2008) Enhancing Crop Gene Pools with Beneficial Traits Using Wild Relatives. In: Plant Breeding Reviews. John Wiley & Sons, New York, USA, pp. 179-230. ISBN 9780470171523
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.
Ratnakumar, P and Vadez, V and Nigam, S N and Krishnamurthy, L (2009) Assessment of transpiration efficiency in peanut (Arachis hypogaea l.) under drought using a lysimeter system. Plant Biology, 11 (S1). pp. 124-130.
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.
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.
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 Pande, S and Kannan, S and Thudi, M 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.
Varshney, R K and Thudi, M 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.
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.
Jyostna Devi, M and Sinclair, T R and Vadez, V (2010) Genotypic variability among peanut (Arachis hypogea L.) in sensitivity of nitrogen fixation to soil drying. Plant and Soil, 330 (1-2). pp. 139-148. ISSN 0032-079X
Jyostna Devi, M and Sinclair, T R and Vadez, V (2010) Genotypic variation in peanut for transpiration response to vapor pressure deficit. Crop Science, 50 (1). pp. 191-196.
Raju, N L and Gnanesh, B N and Pazhamala, L T 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).
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. 135-141. ISSN 0179-9541
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.
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
Varshney, R K and Thudi, M and May, G D and Jackson, S A (2010) Legume Genomics and Breeding. Plant Breeding Reviews, 33. pp. 257-304.
Caniato, F F and Guimarães, C T and Hamblin, M and Billot, C and Rami, Jean-François and Hufnagel, B and Kochian, L V and Liu, J and Garcia, A A F and Hash, C T and Ramu, P and Mitchell, S and Kresovich, S and Oliveira, A C and Avellar, Gisela de and Borém, A and Glaszmann, Jean-Christophe and Schaffert, R E and Magalhaes, J V (2011) The relationship between population structure and aluminum tolerance in cultivated sorghum. PLoS ONE, 6 (6). 14pp.
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
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.
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
Hiremath, P J and Farmer, A and Cannon, S B and Woodward, J and Kudapa, H and Tuteja, R and Kumar, A and Bhanuprakash, A and Mulaosmanovic, B and Gujaria, N and Krishnamurthy, L and Gaur, P M and Kavi Kishor, P B and Shah, T 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.
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.
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)
Lu, Y and et al, . (2011) Comparative SNP and Haplotype Analysis Reveals a Higher Genetic Diversity and Rapider LD Decay in Tropical than Temperate Germplasm in Maize. PLoS ONE, 6 (9). pp. 1-8. ISSN 1932-6203
Russell, J and Dawson, I K and Flavell, A J and Steffenson, B and Weltzien, E and Booth, A and Ceccarelli, S and Grando, S and Waugh, R (2011) Analysis of >1000 single nucleotide polymorphisms in geographically matched samples of landrace and wild barley indicates secondary contact and chromosome-level differences in diversity around domestication genes. New Phytologist, 191 (2). pp. 564-578. ISSN 1469-8137
Supriya, A and Senthilvel, S and Nepolean, T and Eshwar, K E and Rajaram, V and Shaw, R and Hash, C T and Kilian, A and Yadav, R C and Narasu, M L (2011) Development of a molecular linkage map of pearl millet integrating DArT and SSR markers. TAG Theoretical and Applied Genetics, 123 (2). pp. 239-250. ISSN 00405752
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.
Vadez, V and Krishnamurthy, L and Hash, C T and Upadhyaya, H D and Borrell, A K (2011) Yield, transpiration efficiency, and water-use variations and their interrelationships in the sorghum reference collection. Crop and Pasture Science, 62 (8). pp. 645-655. ISSN 1836-5795
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.
Varshney, R K and Pazhamala, L T 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
Belko, N and Zaman-Allah, M and Cisse, N and Vadez, V and et al, . (2012) Lower soil moisture threshold for transpiration decline under water deficit correlates with lower canopy conductance and higher transpiration efficiency in drought-tolerant cowpea. Functional Plant Biology. 17 pp.. ISSN 1445-4408
Bohra, A and Saxena, R K and Gnanesh, B N and Saxena, K B and Byregowda, M and Rathore, A and Kavi Kishor, 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
Leal-Bertioli, S C M and Bertioli, D J and Guimaraes, P M and Pereira, T D and Galhardo, I and Silva, J P and Brasileiro, A C M and Oliveira, R S and Silva, P I T and Vadez, V and Araujo, A C G (2012) The effect of tetraploidization of wild Arachis on leaf morphology and other drought-related traits. Environmental and Experimental Botany, 84. pp. 17-24. ISSN 0098-8472
Leiser, W L and Rattunde, H F W and Piepho, H -P and Weltzien, E and Diallo, A and Melchinger, A E and Parzies, H K and Haussmann, B I G (2012) Selection Strategy for Sorghum Targeting Phosphorus-limited Environments in West Africa: Analysis of Multi-environment Experiments. Crop Science, 52 (6). pp. 2517-2527. ISSN 0011-183X
Lu, Y and et al, . (2012) Comparative LD mapping using single SNPs and haplotypes identifies QTL for plant height and biomass as secondary traits of drought tolerance in maize. Molecular Breeding, 30 (1). pp. 407-418. ISSN 1572-9788
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
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
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
Vadez, V and Soltani, A and Sinclair, T R (2013) Crop simulation analysis of phenological adaptation of chickpea to different latitudes of India. Field Crops Research, 146. pp. 1-9. ISSN 0378-4290
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
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
Garin, V and Diallo, C and Tékété, M L and Théra, K and Guitton, B and Dagno, K and Diallo, A G and Kouressy, M and Leiser, W and Rattunde, F and Sissoko, I and Touré, A and Nébié, B and Samaké, M and Kholova, J and Berger, A and Frouin, J and Pot, D and Vaksmann, M and Weltzien, E and Témé, N and Rami, J F (2024) Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping. Genetics, 226 (4). pp. 1-17. ISSN 0016-6731