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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 Thudi, M and May, G D and Jackson, S A (2010) Legume Genomics and Breeding. Plant Breeding Reviews, 33. pp. 257-304.
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
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
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
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
Lee, S H and Tuberosa, R and Jackson, S A and Varshney, R K (2014) Genomics of plant genetic resources: a gateway to a new era of global food security. Plant Genetic Resources, 12 (S1). S2-S5. ISSN 1479-2621
Pandey, M K and Upadhyaya, H D and Rathore, A and Vadez, V and Sheshshayee, M S and Sriswathi, M and Govil, M and Kumar, A and Gowda, M V and Sharma, S and Hamidou, F and Kumar, V A and Khera, P and Bhat, R S and Khan, A W and Singh, S and Li, H and Monyo, E and Nadaf, H L and Mukri, G and Jackson, S A and Guo, B and Liang, X and Varshney, R K (2014) Genomewide Association Studies for 50 Agronomic Traits in Peanut Using the ‘Reference Set’ Comprising 300 Genotypes from 48 Countries of the Semi-Arid Tropics of the World. PLoS One, 9 (8). pp. 1-14. ISSN 1932-6203
Kang, Y J and Kim, S K and Kim, M Y and Lestari, P and Kim, K H and Ha, B K and Jun, T H and Hwang, W J and Lee, T and Lee, J and Shim, S and Yoon, M Y and Jang, Y E and Han, K S and Taeprayoon, P and Yoon, N and Somta, P and Tanya, P and Kim, K S and Gwag, J G and Moon, J K and Lee, Y H and Park, B S and Bombarely, A and Doyle, J J and Jackson, S A and Schafleitner, R and Srinives, P and Varshney, R K and Lee, S H (2014) Genome sequence of mungbean and insights into evolution within Vigna species. Nature Communications, 5 (5443). 01-09. ISSN 2041-1723
Bertioli, D J and Cannon, S B and Froenicke, L and Huang, G and Farmer, A D and Cannon, E K S and Liu, X and Gao, D and Clevenger, J and Dash, S and Ren, L and Moretzsohn, M C and Shirasawa, K and Huang, W and Vidigal, B and Abernathy, B and Chu, Y and Niederhuth, C E and Umale, P and Araújo, A C G and Kozik, A and Kim, K D and Burow, M D and Varshney, R K and Wang, X and Zhang, X and Barkley, N and Guimarães, P M and Isobe, S and Guo, B and Liao, B and Stalker, H T and Schmitz, R J and Scheffler, B E and Leal-Bertioli, S C M and Xun, X and Jackson, S A and Michelmore, R and Ozias-Akins, P (2016) The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut. Nature Genetics, 48 (-). pp. 438-446. ISSN 1546-1718
Varshney, R K and Saxena, R K and Jackson, S A (2017) Future Prospects. In: The Pigeonpea Genome. Part of the Compendium of Plant Genomes book series (CPG) . Springer, pp. 99-104. ISBN 978-3-319-63795-2
Varshney, R K and Saxena, R K and Jackson, S A (2017) The Pigeonpea Genome. Compendium of Plant Genomes . Springer International Publishing, pp. 1-4. ISBN 978-3-319-63795-2
Varshney, R K and Saxena, R K and Jackson, S A (2017) The Pigeonpea Genome: An Overview. In: The Pigeonpea Genome. Compendium of Plant Genomes book series (CPG) . Springer, pp. 1-4. ISBN 978-3-319-63795-2
Nayak, S N and Pandey, M K and Jackson, S A and Liang, X and Varshney, R K (2017) Sequencing Ancestor Diploid Genomes for Enhanced Genome Understanding and Peanut Improvement. In: The Peanut Genome. Compendium of Plant Genomes book series (CPG) . Springer, pp. 135-147. ISBN 978-3-319-63933-8
Pandey, M K and Agarwal, G and Kale, S M and Clevenger, J and Nayak, S N and Sriswathi, M and Chitikineni, A and Chavarro, C and Chen, X and Upadhyaya, H D and Vishwakarma, M K and Leal-Bertioli, S and Liang, X and Bertioli, D J and Guo, B and Jackson, S A and Ozias-Akins, P and Varshney, R K (2017) Development and Evaluation of a High Density Genotyping ‘Axiom_Arachis’ Array with 58 K SNPs for Accelerating Genetics and Breeding in Groundnut. Scientific Reports, 7. pp. 1-10. ISSN 2045-2322
Pandey, M K and Agarwal, G and Kale, S M and Clevenger, J and Nayak, S N and Sriswathi, M and Chitikineni, A and Chavarro, C and Chen, X and Upadhyaya, H D and Vishwakarma, M K and Leal-Bertioli, S and Liang, X and Bertioli, D J and Guo, B and Jackson, S A and Ozias-Akins, P and Varshney, R K (2017) The first high density genotyping ‘Axiom_Arachis’ 58K SNPs array for genetic studies and molecular breeding in groundnut. In: InterDrought-V, February 21-25, 2017, Hyderabad, India.
Clevenger, J and Chu, Y and Chavarro, C and Agarwal, G and Bertioli, D J and Leal-Bertioli, S C M and Pandey, M K and Vaughn, J and Abernathy, B and Barkley, N A and Hovav, R and Burow, M and Nayak, S N and Chitikineni, A and Isleib, T G and Holbrook, C C and Jackson, S A and Varshney, R K and Ozias-Akins, P (2017) Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut. Molecular Plant, 10 (2). pp. 309-322. ISSN 1674-2052
Agarwal, G and Clevenger, J and Pandey, M K and Wang, H and Shasidhar, Y and Chu, Y and Fountain, J C and Choudhary, D and Culbreath, A K and Liu, X and Huang, G and Wang, X and Deshmukh, R and Holbrook, C C and Bertioli, D J and Ozias-Akins, P and Jackson, S A and Varshney, R K and Guo, B (2018) High-density genetic map using whole-genome resequencing for fine mapping and candidate gene discovery for disease resistance in peanut. Plant Biotechnology Journal (TSI), 16 (11). pp. 1954-1967. ISSN 14677644
Bertioli, D J and Jenkins, J and Clevenger, J and Dudchenko, O and Gao, D and Seijo, G and Leal-Bertioli, S C M and Ren, L and Farmer, A D and Pandey, M K and Samoluk, S S and Abernathy, B and Agarwal, G and Ballén-Taborda, C and Cameron, C and Campbell, J and Chavarro, C and Chitikineni, A and Chu, Y and Dash, S and El Baidouri, M and Guo, B and Huang, W and Kim, K D and Korani, W and Lanciano, S and Lui, C G and Mirouze, M and Moretzsohn, M C and Pham, M and Shin, J H and Shirasawa, K and Sinharoy, S and Sreedasyam, A and Weeks, N and Zhang, X and Zheng, Z and Sun, Z and Froenicke, L and Aiden, E L and Michelmore, R and Varshney, R K and Holbrook, C C and Cannon, E K S and Scheffler, B E and Grimwood, J and Ozias-Akins, P and Cannon, S B and Jackson, S A and Schmutz, J (2019) The genome sequence of segmental allotetraploid peanut Arachis hypogaea. Nature Genetics (TSI), 51 (5). pp. 877-884. ISSN 1061-4036
Valliyodan, B and Cannon, S B and Bayer, P E and Shu, S and Brown, A V and Ren, L and Jenkins, J and Chung, C Y L and Chan, T F and Daum, C G and Plott, C and Hastie, A and Baruch, K and Barry, K W and Huang, W and Patil, G and Varshney, R K and Hu, H and Batley, J and Yuan, Y and Song, Q and Stupar, R M and Goodstein, D M and Stacey, G and Lam, H M and Jackson, S A and Schmutz, J and Grimwood, J and Edwards, D and Nguyen, H T (2019) Construction and comparison of three reference‐quality genome assemblies for soybean. The Plant Journal (TSI), 100 (5). pp. 1066-1082. ISSN 0960-7412