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Identification of putative QTL that underlie yield in interspecific soybean backcross populations

Abstract

Glycine soja, the wild progenitor of soybean, is a potential source of useful genetic variation in soybean improvement. The objective of our study was to map quantitative trait loci (QTL) from G. soja that could improve the crop. Five populations of BC2F4-derived lines were developed using the Glycine max cultivar IA2008 as a recurrent parent and the G. soja plant introduction (PI) 468916 as a donor parent. There were between 57 and 112 BC2F4-derived lines in each population and a total of 468 lines for the five populations. The lines were evaluated with simple sequence repeat markers and in field tests for yield, maturity, plant height, and lodging. The field testing was done over 2 years and at two locations each year. Marker data were analyzed for linkage and combined with field data to identify QTL. Using an experimentwise significance threshold of P=0.05, four yield QTL were identified across environments on linkage groups C2, E, K, and M. For these yield QTL, the IA2008 marker allele was associated with significantly greater yield than the marker allele from G. soja. In addition, one lodging QTL, four maturity QTL, and five QTL for plant height were identified across environments. Of the 14 QTL identified, eight mapped to regions where QTL with similar effects were previously mapped. Many regions carrying the yield QTL were also significant for other traits, such as plant height and lodging. When the significance threshold was reduced and the data were analyzed with simple linear regression, four QTL with a positive allele for yield from G. soja were mapped. One epistatic interaction between two genetic regions was identified for yield using an experimentwise significance threshold of P=0.05. Additional research is needed to establish whether multiple trait associations are the result of pleiotropy or genetic linkage and to retest QTL with a positive effect from G. soja.

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References

  1. Basten CJ, Weir BS, Zeng Z-B (1999) QTL Cartographer, Version 1.13. Department of Statistics, North Carolina State University, Raleigh, NC

  2. Beavis WD (1994) The power and deceit of QTL experiments: Lessons from comparative QTL studies. In: Proceedings of the Forty-sixth Annual Corn and Sorghum Industry Research Conference ASTA, Washington, DC

  3. Bernacchi D, Beck Bunn T, Eshed Y, Lopez J, Petiard V, Uhlig J, Zamir D, Tanksley S (1998) Advanced backcross QTL analysis in tomato. I. Identification of QTLs for traits of agronomic importance from Lycopersicon hirsutum. Theor Appl Genet 97:381–397

  4. Bernard RL, Juvik GA, Nelson RL (1989) USDA soybean germplasm collection inventory, vol 2(30). University of Illinois at Urbana-Champaign

  5. Chase K, FR Adler, KG Lark (1997) Epistat: a computer program for identifying and testing interactions between pairs of quantitative trait loci. Theor Appl Genet 94:724–730

  6. Chen FQ, Foolad MR, Hyman J, St. Clair DA, Bellaman RB (1999) Mapping of QTLs for lycopene and other fruit traits in a Lycopersicon esculentum × L. pimpinellifolium cross and comparison of QTLs across tomato species. Mol Breeding 5:283–299

  7. Concibido VC, Vallee BL, Mclaird P, Pineda N, Meyer J, Hummel L, Yang J, Wu K, Delannay X (2003) Introgression of a quantitative trait locus for yield from Glycine soja into commercial soybean cultivars. Theor Appl Genet 106:575–582

  8. Cregan PB, Quigley CV (1997) Simple sequence repeat DNA marker analysis. In: Caetano-Anolles G, Gresshoff PM (eds) DNA markers: protocols, applications and overviews. Wiley, New York, pp 173–185

  9. Cregan PB, Jarvik T, Bush AL, Shoemaker RC, Lark KG, Kahler AL, Kaya N, VanToai TT, Lohnes DG, Chung J, Specht JE (1999) An integrated genetic linkage map of the soybean genome. Crop Sci 39:1464–1490

  10. deVicente MC, Tanksley SD (1993) QTL analysis of transgressive segregation in an interspecific tomato cross. Genetics 134:585–596

  11. Diers BW, Keim P, Fehr WR, Shoemaker RC (1992) RFLP analysis of soybean seed protein and oil content. Theor Appl Genet 83:608–612

  12. Ertl DS, Fehr WR (1985) Agronomic performance of soybean genotypes from Glycine max × Glycine soja crosses. Crop Sci 25:589–592

  13. Fehr WR (1987) Principles of cultivar development. Macmillan, New York

  14. Fulton TM, Beck Bunn T, Emmatty D, Eshed Y, Lopez J, Petiard V, Uhlig J, Zamir D, Tanksley SD (1997) QTL analysis of an advanced backcross of Lycopersicon peruvianum to the cultivated tomato and comparisons with QTLs found in other wild species. Theor Appl Genet 95:881–894

  15. Gizlice Z, Carter TE, Burton JW (1994) Genetic base for North American public soybean cultivars released between 1947 and 1988. Crop Sci 34:1143–1151

  16. Graef GL, Fehr WR, Cianzio SR (1989) Relation of isozyme genotypes to quantitative characters in soybean. Crop Sci 29:683–688

  17. Hymowitz T, Singh RJ (1987) Taxonomy and speciation. In: Wilcox JR (ed) Soybean: improvement, production and uses, 2nd edn, vol 16. American Society of Agronomy, Madison, Wis., pp 23–48

  18. Keim P, Diers BW, Olson TC, Shoemaker RC (1990a) RFLP mapping in soybean: association between marker loci and variation in quantitative traits. Genetics 126:735–742

  19. Keim P, Diers BW, Shoemaker RC (1990b) Genetic analysis of soybean hard seededness with molecular markers. Theor Appl Genet 79:465–469

  20. Kisha TJ, Sneller CH, Diers BW (1997) Relationship between genetic distance among parents and genetic variance in populations of soybean. Crop Sci 37:1317–1325

  21. Kosambi DD (1944) The estimation of map distance from recombination values. Ann Eugen 12:185–199

  22. Lark KG, Orf J, Mansur LM (1994) Epistatic expression of quantitative trait loci (QTL) in soybean (Glycine max (L.) Merr.) determined by QTL association with RFLP alleles. Theor Appl Genet 88:486–489

  23. Mansur LM, Lark KG, Kross H, Oliveira A (1993a) Interval mapping of quantitative trait loci for reproductive, morphological, and seed traits of soybean (Glycine max L.). Theor Appl Genet 86:907–913

  24. Mansur LM, Orf J, Lark KG (1993b) Determining the linkage of quantitative trait loci to RFLP markers using extreme phenotypes of recombinant inbreds of soybean (Glycine max L. Merr.). Theor Appl Genet 86:914–918

  25. Mansur LM, Orf JH, Chase K, Jarvik T, Cregan PB, Lark KG (1996) Genetic mapping of agronomic traits using recombinant inbred lines of soybean. Crop Sci 36:1327–1336

  26. Maughan PJ, Saghai Maroof MA, Buss GR (1995) Microsatellite and amplified sequence length polymorphisms in cultivated and wild soybean. Genome 38:715–723

  27. Moncada P, Martinez CP, Borrero J, Chatel M, Gauch H, Jr., Guimaraes E, Tohme J, McCouch SR (2001) Quantitative trait loci for yield and yield components in an Oryza sativa × Oryza rufipogon BC2F2 population evaluated in an upland environment. Theor Appl Genet 102:41–52

  28. Orf JH, Chase K, Adler FR, Mansur LM, Lark KG (1999a) Genetics of soybean agronomic traits. II. Interactions between yield quantitative trait loci in soybean. Crop Sci 39:1652–1657

  29. Orf JH, Chase K, Jarvik T, Mansur LM, Cregan PB, Adler FR, Lark KG (1999b) Genetics of soybean agronomic traits: I. Comparison of three related recombinant inbred populations. Crop Sci 39:1642–1651

  30. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning, a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory Press, Plainview, NY

  31. SAS (1988) SAS/STAT user's guide, version 6.03. SAS Institute, Cary, NC

  32. Sebolt AM, Shoemaker RC, Diers BW (2000) Analysis of a quantitative trait locus allele from wild soybean that increases seed protein concentration in soybean. Crop Sci 40:1438–1444

  33. Specht JE, Hume DJ, Kumudini SV (1999) Soybean yield potential-a genetic and physiological perspective. Crop Sci 39:1560–1570

  34. Specht JE, Chase K, Macrander M, Graef GL, Chung J, Markwell JP, Germann M, Orf JH, Lark KG (2001) Soybean response to water: a QTL analysis of drought tolerance. Crop Sci 41:493–509

  35. Stam P (1993) Construction of integrated genetic linkage maps by means of a new computer package: JoinMap. Plant J 3:739–744

  36. Suarez JC, Graef GL, Fehr WR, Cianzio SR (1991) Association of isozyme genotypes with agronomic and seed composition traits in soybean. Euphytica 52:137–146

  37. Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277:1063–1066

  38. Tanksley SD, Nelson JC (1996) Advanced backcross QTL analysis: a method for the simultaneous discovery and transfer of valuable QTLs from unadapted germplasm into elite breeding lines. Theor Appl Genet 92:191–203

  39. Tanksley SD, Grandillo S, Fulton TM, Zamir D, Eshed Y, Petiard V, Lopez J, Beck Bunn T (1996) Advanced backcross QTL analysis in a cross between elite processing line of tomato and its wild relative L. pimpinellifolium. Theor Appl Genet 92:213–224

  40. Wang D, Arelli PR, Shoemaker RC, Diers BW (2001) Loci underlying resistance to race 3 of soybean cyst nematode in Glycine soja plant introduction 468916. Theor Appl Genet 103:561–566

  41. Wang D, Shi J, Carlson SR, Cregan PB, Ward RW, Diers BW (2003) A low-cost, high-throughput polyacrylamide gel electrophoresis system for genotyping with microsatellite DNA markers. Crop Sci 43:1828–1832

  42. Wilcox JR (2001) Sixty years of improvement in publicly developed elite soybean lines. Crop Sci 49:1711–1716

  43. Xiao J, Grandillo S, Ahn SN, McCouch SR, Tanksley SD, Li J, Yuan L, Xiao JH, Li JM, Yuan LP (1996) Genes from wild rice improve yield. Nature 384:223–224

  44. Xiao J, Li J, Grandillo S, Ahn S, Yuan L, Tanksley SD, McCouch SR (1998) Identification of trait-improving quantitative trait loci alleles from a wild rice relative, Oryza rufipogon. Genetics 150:899–909

  45. Yuan J, Njiti VN, Meksem K, Iqbal MJ, Triwitayakorn K, Kassem MA, Davis GT, Schmidt ME, Lightfoot DA (2002) Quantitative trait loci in two soybean recombinant inbred line populations segregating for yield and disease resistance. Crop Sci 42:271–277

  46. Yue P, Arelli PR, Sleper DA (2001) Molecular characterization of resistance to Heterodera glycines in soybean PI 438489B. Theor Appl Genet 102:921–928

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Acknowledgements

This material is based upon work supported by USDA-NRI Award No. 99–35300–7820. We appreciate the help of Kevin Chase and Gordon Lark for their assistance in using the program Epistat. This publication is a contribution of the University of Nebraska Agricultural Research Division, Lincoln, NE, 68583, Journal Series No. 13989.

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Correspondence to B. W. Diers.

Additional information

Communicated by H.C. Becker

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Wang, D., Graef, G.L., Procopiuk, A.M. et al. Identification of putative QTL that underlie yield in interspecific soybean backcross populations. Theor Appl Genet 108, 458–467 (2004). https://doi.org/10.1007/s00122-003-1449-z

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Keywords

  • Quantitative Trait Locus
  • Plant Height
  • Simple Sequence Repeat Marker
  • Quantitative Trait Locus Analysis
  • Composite Interval Mapping