Hostname: page-component-78c5997874-ndw9j Total loading time: 0 Render date: 2024-11-20T00:28:31.273Z Has data issue: false hasContentIssue false

Genomics of plant genetic resources: a gateway to a new era of global food security

Published online by Cambridge University Press:  16 July 2014

Suk-Ha Lee*
Affiliation:
Department of Plant Science and Research Institute for Agriculture and Life Sciences, Seoul National University, Seoul151-921, Republic of Korea Plant Genomics and Breeding Research Institute, Seoul National University, Seoul151-921, Republic of Korea
Roberto Tuberosa
Affiliation:
Department of Agroenvironmental Science and Technology, Viale Fanin 44, 40127Bologna, Italy
Scott A. Jackson
Affiliation:
Center for Applied Genetic Technologies, University of Georgia, Athens, GA, USA
Rajeev K. Varshney
Affiliation:
Center of Excellence in Genomics, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, Andhra Pradesh, India
*
* Corresponding author. E-mail: [email protected]

Abstract

Image of the first page of this content. For PDF version, please use the ‘Save PDF’ preceeding this image.'
Type
Research Article
Copyright
Copyright © NIAB 2014 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Akhunov, E, Nicolet, C and Dvorak, J (2009) Single nucleotide polymorphism genotyping in polyploid wheat with the Illumina GoldenGate assay. Theoretical and Applied Genetics 119: 507517.CrossRefGoogle ScholarPubMed
Baenziger, PS, Bakhsh, A, Lorenz, A and Walia, H (2014) Bridging conventional breeding and genomics for a more sustainable wheat production. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 2. Crop Productivity, Food Security and Nutritional Quality. New York: Springer, pp. 185210.CrossRefGoogle Scholar
Barabaschi, D, Guerra, D, Lacrima, K, Laino, P, Michelotti, V, Urso, S, Vale, G and Cattivelli, L (2012) Emerging knowledge from genome sequencing of crop species. Molecular Biotechnology 50: 250266.CrossRefGoogle ScholarPubMed
Bovina, R, Talamè, V, Ferri, M, Tuberosa, R, Chmielewska, B, Szarejko, I and Sanguineti, MC (2011) Identification of root morphology mutants in barley. Plant Genetic Resources 9: 357360.CrossRefGoogle Scholar
Chang, CC and Hsu, SH (2011) Food security – Global trends and region perspective with reference to East Asia. Agricultural & Applied Economics Association 2011 AAEA & NAREA Joint Annual Meeting, Pittsburgh, PA, USA.Google Scholar
Choulet, F, Caccamo, M, Wright, J, Alaux, M, Simková, H, Safár, J, Leroy, P, Doležel, J, Rogers, J, Eversole, K and Feuillet, C (2014) The Wheat Black Jack: Advances towards sequencing the 21 chromosomes Of bread wheat. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 1. Managing, Sequencing and Mining Genetic Resources. New York: Springer, pp. 405438.CrossRefGoogle Scholar
Edwards, D and Batley, J (2010) Plant genome sequencing: applications for crop improvement. Plant Biotechnology Journal 8: 29.CrossRefGoogle ScholarPubMed
Frison, E and Demers, N (2014) Building a global plant genetic resources system. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 1. Managing, Sequencing and Mining Genetic Resources. New York: Springer, pp. 326.CrossRefGoogle Scholar
Gepts, P (2006) Plant genetic resources conservation and utilization: the accomplishments and future of a societal insurance policy. Crop Science 46: 22782292.CrossRefGoogle Scholar
Gilbert, JE, Lewis, RV, Wilkinson, MJ and Caligari, PDS (1999) Developing an appropriate strategy to assess genetic variability in plant germplasm collections. Theoretical and Applied Genetics 98: 11251131.CrossRefGoogle Scholar
Godfray, HCJ, Beddubgton, JR, Crute, IR, Haddad, L, Lawrence, D, Muir, JF, Pretty, J, Robinson, S, Thomas, SM and Toulmin, C (2010) Food security: the challenge of feeding 9 billion people. Science 327: 812818.CrossRefGoogle ScholarPubMed
Goff, SA, Ricke, D, Lan, TH, Presting, G, Wang, R, Dunn, M, Glazebrook, J, Sessions, A, Oeller, P, Varma, H, Hadley, D, Hutchison, D, Martin, C, Katagiri, F, Lange, BM, Moughamer, T, Xia, Y, Budworth, P, Zhong, J, Miguel, T, Paszkowski, U, Zhang, S, Colbert, M, Sun, WL, Chen, L, Cooper, B, Park, S, Wood, TC, Mao, L, Quail, P, Wing, R, Dean, R, Yu, Y, Zharkikh, A, Shen, R, Sahasrabudhe, S, Thomas, A, Cannings, R, Gutin, M, Pruss, D, Reid, J, Tavtigian, S, Mitchell, J, Eldredge, G, Scholl, T, Miller, RM, Bhatnagar, S, Adey, N, Rubano, T, Tusneem, N, Robinson, R, Feldhaus, J, Macalma, T, Oliphant, A and Briggs, S (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296: 92100.CrossRefGoogle ScholarPubMed
Grandillo, S (2014) Introgression libraries with wild relatives of crops. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 2. Crop Productivity, Food Security and Nutritional Quality. New York: Springer, pp. 87122.CrossRefGoogle Scholar
Gregory, PJ and George, TS (2011) Feeding nine billion: the challenge to sustainable crop production. Journal of Experimental Botany 62: 52335239.CrossRefGoogle ScholarPubMed
Gupta, PK, Rustgi, S and Mir, RR (2008) Array-based high-throughput DNA markers for crop improvement. Heredity 101: 518.CrossRefGoogle ScholarPubMed
Fargione, J, Hill, J, Tilman, D, Polasky, S and Hawthorne, P (2008) Land clearing and the biofuel carbon debt. Science 319: 12351238.CrossRefGoogle ScholarPubMed
Hammer, K (2003) A paradigm shift in the discipline of plant genetic resources. Genetic Resources and Crop Evolution 50: 310.CrossRefGoogle Scholar
Harrison, RJ (2012) Understanding genetic variation and function: the applications of next generation sequencing. Seminars in Cell & Developmental Biology 23: 230236.CrossRefGoogle ScholarPubMed
Hoisington, D, Khairallah, M, Reeves, T, Ribaut, J-M, Skovmand, B, Taba, S and Warburton, M (1999) Plant genetic resources: what can they contribute toward increased crop productivity? Proceeding of the National Academy of Sciences USA 96: 59375943.CrossRefGoogle ScholarPubMed
Hyten, DL, Smith, JR, Frederick, RD, Tucker, ML, Song, Q and Cregan, PB (2009) Bulked segregant analysis using the GoldenGate assay to locate the Rpp3 locus that confers resistance to soybean rust in soybean. Crop Science 49: 265271.CrossRefGoogle Scholar
Moose, SP and Mumm, RH (2008) Molecular plant breeding as the foundation for 21st century crop improvement. Plant Physiology 147: 969977.CrossRefGoogle ScholarPubMed
Rusk, N (2009) Cheap third-generation sequencing. Nature Methods 6: 244245.CrossRefGoogle Scholar
Schmutz, J, Cannon, SB, Schlueter, J, Ma, J, Mitros, T, Nelson, W, Hyten, DL, Song, Q, Thelen, JJ, Cheng, J, Xu, D, Hellsten, U, May, GD, Yu, Y, Sakurai, T, Umezawa, T, Bhattacharyya, MK, Sandhu, D, Valliyodan, B, Lindquist, E, Peto, M, Grant, D, Shu, S, Goodstein, D, Barry, K, Futrell-Griggs, M, Abernathy, B, Du, J, Tian, Z, Zhu, L, Gill, N, Joshi, T, Libault, M, Sethuraman, A, Zhang, XC, Shinozaki, K, Nguyen, HT, Wing, RA, Cregan, P, Specht, JE, Grimwood, J, Rokhsar, D, Stacey, G, Shoemaker, RC and Jackson, SA (2010) Genome sequence of the palaeopolyploid soybean. Nature 463: 178183.CrossRefGoogle ScholarPubMed
Schnable, PS, Ware, D, Fulton, RS, Stein, JC, Wei, F, Pasternak, S, Liang, C, Zhang, J, Fulton, L, Graves, TA, Minx, P, Reily, AD, Courtney, L, Kruchowski, SS, Tomlinson, C, Strong, C, Delehaunty, K, Fronick, C, Courtney, B, Rock, SM, Belter, E, Du, F, Kim, K, Abbott, RM, Cotton, M, Levy, A, Marchetto, P, Ochoa, K, Jackson, SM, Gillam, B, Chen, W, Yan, L, Higginbotham, J, Cardenas, M, Waligorski, J, Applebaum, E, Phelps, L, Falcone, J, Kanchi, K, Thane, T, Scimone, A, Thane, N, Henke, J, Wang, T, Ruppert, J, Shah, N, Rotter, K, Hodges, J, Ingenthron, E, Cordes, M, Kohlberg, S, Sgro, J, Delgado, B, Mead, K, Chinwalla, A, Leonard, S, Crouse, K, Collura, K, Kudrna, D, Currie, J, He, R, Angelova, A, Rajasekar, S, Mueller, T, Lomeli, R, Scara, G, Ko, A, Delaney, K, Wissotski, M, Lopez, G, Campos, D, Braidotti, M, Ashley, E, Golser, W, Kim, H, Lee, S, Lin, J, Dujmic, Z, Kim, W, Talag, J, Zuccolo, A, Fan, C, Sebastian, A, Kramer, M, Spiegel, L, Nascimento, L, Zutavern, T, Miller, B, Ambroise, C, Muller, S, Spooner, W, Narechania, A, Ren, L, Wei, S, Kumari, S, Faga, B, Levy, MJ, McMahan, L, Van Buren, P, Vaughn, MW, Ying, K, Yeh, CT, Emrich, SJ, Jia, Y, Kalyanaraman, A, Hsia, AP, Barbazuk, WB, Baucom, RS, Brutnell, TP, Carpita, NC, Chaparro, C, Chia, JM, Deragon, JM, Estill, JC, Fu, Y, Jeddeloh, JA, Han, Y, Lee, H, Li, P, Lisch, DR, Liu, S, Liu, Z, Nagel, DH, McCann, MC, SanMiguel, P, Myers, AM, Nettleton, D, Nguyen, J, Penning, BW, Ponnala, L, Schneider, KL, Schwartz, DC, Sharma, A, Soderlund, C, Springer, NM, Sun, Q, Wang, H, Waterman, M, Westerman, R, Wolfgruber, TK, Yang, L, Yu, Y, Zhang, L, Zhou, S, Zhu, Q, Bennetzen, JL, Dawe, RK, Jiang, J, Jiang, N, Presting, GG, Wessler, SR, Aluru, S, Martienssen, RA, Clifton, SW, McCombie, WR, Wing, RA and Wilson, R (2009) The B73 maize genome: complexity, diversity, and dynamics. Science 326: 11121115.CrossRefGoogle ScholarPubMed
Tanksley, SD and McCouch, SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277: 10631066.CrossRefGoogle ScholarPubMed
Tuberosa, R, Graner, A and Frison, E (2014) Genomics of Plant Genetic Resources Volumes 1 and 2. New York: Springer, pp. 87122.Google Scholar
Van, K, Kim, MY, Shin, JH, Kim, KD, Lee, YH and Lee, SH (2014) Molecular evidence for soybean domestication. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 1. Managing, Sequencing and Mining Genetic Resources. New York: Springer, pp. 465482.CrossRefGoogle Scholar
van Zonneveld, M, Dawson, I, Thomas, E, Scheldeman, X, van Etten, J, Loo, J and Hormaza, JI (2014) Application of molecular markers in spatial analysis to optimize in situ conservation of plant genetic resources. In: Tuberosa, R, Graner, A and Frison, E (eds) Genomics of Plant Genetic Resources Volume 1. Managing, Sequencing and Mining Genetic Resources. New York: Springer, pp. 6792.CrossRefGoogle Scholar
Varshney, RK and Tuberosa, R (2013) Translational genomics for crop breeding, Volumes 1 and 2. Oxford: Wiley Blackwell.Google Scholar
Varshney, RK, Nayak, SN, May, GD and Jackson, SA (2009) Next-generation sequencing technologies and their implications for crop genetics and breeding. Trends in Biotechnology 27: 522530.CrossRefGoogle ScholarPubMed
Varshney, RK, Chen, W, Li, Y, Bharti, AK, Saxena, RK, Schlueter, JA, Donoghue, MT, Azam, S, Fan, G, Whaley, AM, Farmer, AD, Sheridan, J, Iwata, A, Tuteja, R, Penmetsa, RV, Wu, W, Upadhyaya, HD, Yang, SP, Shah, T, Saxena, KB and Michael, T (2011) Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology 30: 8389.CrossRefGoogle ScholarPubMed
Waugh, R, Jannink, J-L, Muehlbauer, G and Ramsay, L (2009) The emergence of whole genome association scans in barley. Current Opinion in Plant Biology 12: 218222.CrossRefGoogle ScholarPubMed
Yu, J, Hu, S, Wang, J, Wong, GK, Li, S, Liu, B, Deng, Y, Dai, L, Zhou, Y, Zhang, X, Cao, M, Liu, J, Sun, J, Tang, J, Chen, Y, Huang, X, Lin, W, Ye, C, Tong, W, Cong, L, Geng, J, Han, Y, Li, L, Li, W, Hu, G, Huang, X, Li, W, Li, J, Liu, Z, Li, L, Liu, J, Qi, Q, Liu, J, Li, L, Li, T, Wang, X, Lu, H, Wu, T, Zhu, M, Ni, P, Han, H, Dong, W, Ren, X, Feng, X, Cui, P, Li, X, Wang, H, Xu, X, Zhai, W, Xu, Z, Zhang, J, He, S, Zhang, J, Xu, J, Zhang, K, Zheng, X, Dong, J, Zeng, W, Tao, L, Ye, J, Tan, J, Ren, X, Chen, X, He, J, Liu, D, Tian, W, Tian, C, Xia, H, Bao, Q, Li, G, Gao, H, Cao, T, Wang, J, Zhao, W, Li, P, Chen, W, Wang, X, Zhang, Y, Hu, J, Wang, J, Liu, S, Yang, J, Zhang, G, Xiong, Y, Li, Z, Mao, L, Zhou, C, Zhu, Z, Chen, R, Hao, B, Zheng, W, Chen, S, Guo, W, Li, G, Liu, S, Tao, M, Wang, J, Zhu, L, Yuan, L and Yang, H (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. indica) . Science 296: 7992.CrossRefGoogle ScholarPubMed