Genetic Analysis of Recombinant Inbred Lines for Sorghum bicolor × Sorghum propinquum

Kong, Wenqian; Jin, Huizhe; Franks, Cleve D.; Kim, Changsoo; Bandopadhyay, Rajib; Rana, Mukesh K.; Auckland, Susan A.; Goff, Valorie H.; Rainville, Lisa K.; Burow, Gloria B.; Woodfin, Charles; Burke, John J.; Paterson, Andrew H.

doi:10.1534/g3.112.004499

Genetic Analysis of Recombinant Inbred Lines for Sorghum bicolor × Sorghum propinquum

Journal Article · Tue Jan 01 00:00:00 EST 2013 · G3

DOI:https://doi.org/10.1534/g3.112.004499· OSTI ID:1627945

Kong, Wenqian ^[1]; Jin, Huizhe ^[2]; Franks, Cleve D. ^[3]; Kim, Changsoo ^[2]; Bandopadhyay, Rajib ^[2]; Rana, Mukesh K. ^[2]; Auckland, Susan A. ^[2]; Goff, Valorie H. ^[2]; Rainville, Lisa K. ^[2]; Burow, Gloria B. ^[3]; Woodfin, Charles ^[3]; Burke, John J. ^[3]; Paterson, Andrew H. ^[2]

University of Georgia, Athens, GA (United States); DOE/OSTI
University of Georgia, Athens, GA (United States)
US Department. of Agriculture (USDA), Lubbock, TX (United States)

We describe a recombinant inbred line (RIL) population of 161 F5 genotypes for the widest euploid cross that can be made to cultivated sorghum (Sorghum bicolor) using conventional techniques, S. bicolor · Sorghum propinquum, that segregates for many traits related to plant architecture, growth and development, reproduction, and life history. The genetic map of the S. bicolor · S. propinquum RILs contains 141 loci on 10 linkage groups collectively spanning 773.1 cM. Although the genetic map has DNA marker density well-suited to quantitative trait loci mapping and samples most of the genome, our previous observations that sorghum pericentromeric heterochromatin is recalcitrant to recombination is highlighted by the finding that the vast majority of recombination in sorghum is concentrated in small regions of euchromatin that are distal to most chromosomes. The advancement of the RIL population in an environment to which the S. bicolor parent was well adapted (indeed bred for) but the S. propinquum parent was not largely eliminated an allele for short-day flowering that confounded many other traits, for example, permitting us to map new quantitative trait loci for flowering that previously eluded detection. Additional recombination that has accrued in the development of this RIL population also may have improved resolution of apices of heterozygote excess, accounting for their greater abundance in the F5 than the F2 generation. The S. bicolor · S. propinquum RIL population offers advantages over earlygeneration populations that will shed new light on genetic, environmental, and physiological/biochemical factors that regulate plant growth and development.

View Accepted Manuscript (DOE)

Research Organization:: US Department. of Agriculture (USDA), Lubbock, TX (United States); University of Georgia, Athens, GA (United States)

Sponsoring Organization:: Government of India; Indian Council of Agricultural Research; U.S. Department of Agriculture (USDA); USDOE

OSTI ID:: 1627945

Journal Information:: G3, Journal Name: G3 Journal Issue: 1 Vol. 3; ISSN 2160-1836

Publisher:: Genetics Society of AmericaCopyright Statement

Country of Publication:: United States

Language:: English

References (33)

Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench] Brown, S. M.; Hopkins, M. S.; Mitchell, S. E. Theoretical and Applied Genetics, Vol. 93-93, Issue 1-2 https://doi.org/10.1007/bf00225745	journal	July 1996
Characterization of RFLP probe sequences for gene discovery and SSR development in Sorghum bicolor (L.) Moench Schloss, S.; Mitchell, S.; White, G. Theoretical and Applied Genetics, Vol. 105, Issue 6 https://doi.org/10.1007/s00122-002-0991-4	journal	November 2002
Alignment of genetic maps and QTLs between inter- and intra-specific sorghum populations Feltus, F. A.; Hart, G. E.; Schertz, K. F. Theoretical and Applied Genetics, Vol. 112, Issue 7 https://doi.org/10.1007/s00122-006-0232-3	journal	February 2006
Inheritance of inflorescence architecture in sorghum Brown, P. J.; Klein, P. E.; Bortiri, E. Theoretical and Applied Genetics, Vol. 113, Issue 5 https://doi.org/10.1007/s00122-006-0352-9	journal	July 2006
Exploiting rice–sorghum synteny for targeted development of EST-SSRs to enrich the sorghum genetic linkage map Ramu, P.; Kassahun, B.; Senthilvel, S. Theoretical and Applied Genetics, Vol. 119, Issue 7 https://doi.org/10.1007/s00122-009-1120-4	journal	August 2009
Integrating sorghum whole genome sequence information with a compendium of sorghum QTL studies reveals uneven distribution of QTL and of gene-rich regions with significant implications for crop improvement Mace, E. S.; Jordan, D. R. Theoretical and Applied Genetics, Vol. 123, Issue 1 https://doi.org/10.1007/s00122-011-1575-y	journal	April 2011
SSR-based genetic maps of Miscanthus sinensis and M. sacchariflorus, and their comparison to sorghum Kim, Changsoo; Zhang, Dong; Auckland, Susan A. Theoretical and Applied Genetics, Vol. 124, Issue 7 https://doi.org/10.1007/s00122-012-1790-1	journal	January 2012
MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations Lander, Eric S.; Green, Philip; Abrahamson, Jeff Genomics, Vol. 1, Issue 2 https://doi.org/10.1016/0888-7543(87)90010-3	journal	October 1987
Evolutionary fate of rhizome-specific genes in a non-rhizomatous Sorghum genotype Jang, C. S.; Kamps, T. L.; Tang, H. Heredity, Vol. 102, Issue 3 https://doi.org/10.1038/hdy.2008.119	journal	November 2008
Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics Paterson, A. H.; Bowers, J. E.; Chapman, B. A. Proceedings of the National Academy of Sciences, Vol. 101, Issue 26 https://doi.org/10.1073/pnas.0307901101	journal	May 2004
Convergent evolution of perenniality in rice and sorghum Hu, F. Y.; Tao, D. Y.; Sacks, E. Proceedings of the National Academy of Sciences, Vol. 100, Issue 7 https://doi.org/10.1073/pnas.0630531100	journal	March 2003
Comparative analysis of QTLs affecting plant height and maturity across the Poaceae, in reference to an interspecific sorghum population. Lin, Y. R.; Schertz, K. F.; Paterson, A. H. Genetics, Vol. 141, Issue 1 https://doi.org/10.1093/genetics/141.1.391	journal	September 1995
Detailed Alignment of Saccharum and Sorghum Chromosomes: Comparative Organization of Closely Related Diploid and Polyploid Genomes Ming, R.; Liu, S-C; Lin, Y-R Genetics, Vol. 150, Issue 4 https://doi.org/10.1093/genetics/150.4.1663	journal	December 1998
A High-Density Genetic Recombination Map of Sequence-Tagged Sites for Sorghum , as a Framework for Comparative Structural and Evolutionary Genomics of Tropical Grains and Grasses Bowers, John E.; Abbey, Colette; Anderson, Sharon Genetics, Vol. 165, Issue 1 https://doi.org/10.1093/genetics/165.1.367	journal	September 2003
QTL Analysis in a Complex Autopolyploid: Genetic Control of Sugar Content in Sugarcane Ming, R. Genome Research, Vol. 11, Issue 12 https://doi.org/10.1101/gr.198801	journal	November 2001
Sorghum Expressed Sequence Tags Identify Signature Genes for Drought, Pathogenesis, and Skotomorphogenesis from a Milestone Set of 16,801 Unique Transcripts Pratt, Lee H.; Liang, Chun; Shah, Manish Plant Physiology, Vol. 139, Issue 2 https://doi.org/10.1104/pp.105.066134	journal	September 2005
The B73 Maize Genome: Complexity, Diversity, and Dynamics Schnable, P. S.; Ware, D.; Fulton, R. S. Science, Vol. 326, Issue 5956, p. 1112-1115 https://doi.org/10.1126/science.1178534	journal	November 2009
Convergent Domestication of Cereal Crops by Independent Mutations at Corresponding Genetic Loci Paterson, A. H.; Lin, Y. -R.; Li, Z. Science, Vol. 269, Issue 5231 https://doi.org/10.1126/science.269.5231.1714	journal	September 1995
Comparative analysis of QTLs affecting plant height and flowering among closely-related diploid and polyploid genomes Ming, Ray; Del Monte, Terrye A.; Hernandez, Eduardo Genome, Vol. 45, Issue 5 https://doi.org/10.1139/g02-042	journal	October 2002
Designing sorghum as a dedicated bioenergy feedstock Rooney, William L.; Blumenthal, Jürg; Bean, Brent Biofuels, Bioproducts and Biorefining, Vol. 1, Issue 2 https://doi.org/10.1002/bbb.15	journal	October 2007
On the Tetraploid Origin of the Maize Genome Swigonova, Zuzana; Lai, Jinsheng; Ma, Jianxin Comparative and Functional Genomics, Vol. 5, Issue 3 https://doi.org/10.1002/cfg.395	journal	January 2004
Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench] Brown, S. M.; Hopkins, M. S.; Mitchell, S. E. Theoretical and Applied Genetics, Vol. 93-93, Issue 1-2 https://doi.org/10.1007/BF00225745	journal	July 1996
A detailed RFLP map of Sorghum bicolor x S. propinquum, suitable for high-density mapping, suggests ancestral duplication of Sorghum chromosomes or chromosomal segments Chittenden, L. M.; Schertz, K. F.; Lin, Y. R. Theoretical and Applied Genetics, Vol. 87, Issue 8 https://doi.org/10.1007/BF00225786	journal	March 1994
Characteristics, linkage-map positions, and allelic differentiation of Sorghum bicolor (L.) Moench DNA simple-sequence repeats (SSRs) Kong, L.; Dong, J.; Hart, G. E. Theoretical and Applied Genetics, Vol. 101, Issue 3 https://doi.org/10.1007/s001220051501	journal	August 2000
A Sorghum propinquum BAC library, suitable for cloning genes associated with loss-of-function mutations during crop domestication Lin, Yann-Rong; Zhu, Linghua; Ren, Shuxin Molecular Breeding, Vol. 5, Issue 6, p. 511-520 https://doi.org/10.1023/A:1009642201139	journal	January 1999
The Sorghum bicolor genome and the diversification of grasses Paterson, Andrew H.; Bowers, John E.; Bruggmann, Rémy Nature, Vol. 457, Issue 7229 https://doi.org/10.1038/nature07723	journal	January 2009
Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses Bowers, J. E.; Arias, M. A.; Asher, R. Proceedings of the National Academy of Sciences, Vol. 102, Issue 37 https://doi.org/10.1073/pnas.0502365102	journal	September 2005
The weediness of wild plants: molecular analysis of genes influencing dispersal and persistence of johnsongrass, Sorghum halepense (L.) Pers. Paterson, A. H.; Schertz, K. F.; Lin, Y. R. Proceedings of the National Academy of Sciences, Vol. 92, Issue 13 https://doi.org/10.1073/pnas.92.13.6127	journal	June 1995
Toward Integration of Comparative Genetic, Physical, Diversity, and Cytomolecular Maps for Grasses and Grains, Using the Sorghum Genome as a Foundation Draye, Xavier; Lin, Yann-Rong; Qian, Xiao-yin Plant Physiology, Vol. 125, Issue 3 https://doi.org/10.1104/pp.125.3.1325	journal	March 2001
Meeting US biofuel goals with less land: the potential of Miscanthus Heaton, Emily A.; Dohleman, Frank G.; Long, Stephen P. Global Change Biology, Vol. 14, Issue 9 https://doi.org/10.1111/j.1365-2486.2008.01662.x	journal	September 2008
The Estimation of map Distances from Recombination Values Kosambi, D. D. Annals of Eugenics, Vol. 12, Issue 1 https://doi.org/10.1111/j.1469-1809.1943.tb02321.x	journal	January 1943
Beneficial Biofuels--The Food, Energy, and Environment Trilemma Tilman, D.; Socolow, R.; Foley, J. A. Science, Vol. 325, Issue 5938 https://doi.org/10.1126/science.1177970	journal	July 2009
Increased Food and Ecosystem Security via Perennial Grains Glover, J. D.; Reganold, J. P.; Bell, L. W. Science, Vol. 328, Issue 5986 https://doi.org/10.1126/science.1188761	journal	June 2010

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