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Theoretical and Applied Genetics

, Volume 108, Issue 6, pp 1131–1139 | Cite as

QTL mapping of ten agronomic traits on the soybean (Glycine max L. Merr.) genetic map and their association with EST markers

  • W.-K. Zhang
  • Y.-J. Wang
  • G.-Z. Luo
  • J.-S. Zhang
  • C.-Y. He
  • X.-L. Wu
  • J.-Y. GaiEmail author
  • S.-Y. ChenEmail author
Original Paper

Abstract

A set of 184 recombinant inbred lines (RILs) derived from soybean vars. Kefeng No.1 × Nannong 1138-2 was used to construct a genetic linkage map. The two parents exhibit contrasting characteristics for most of the traits that were mapped. Using restricted fragment length polymorphisms (RFLPs), simple sequence repeats (SSRs) and expressed sequence tags (ESTs), we mapped 452 markers onto 21 linkage groups and covered 3,595.9 cM of the soybean genome. All of the linkage groups except linkage group F were consistent with those of the consensus map of Cregan et al. (1999). Linkage group F was divided into two linkage groups, F1 and F2. The map consisted of 189 RFLPs, 219 SSRs, 40 ESTs, three R gene loci and one phenotype marker. Ten agronomic traits—days to flowering, days to maturity, plant height, number of nodes on main stem, lodging, number of pods per node, protein content, oil content, 100-seed weight, and plot yield—were studied. Using winqtlcart, we detected 63 quantitative trait loci (QTLs) that had LOD>3 for nine of the agronomic traits (only exception being seed oil content) and mapped these on 12 linkage groups. Most of the QTLs were clustered, especially on groups B1 and C2. Some QTLs were mapped to the same loci. This pleiotropism was common for most of the QTLs, and one QTL could influence at most five traits. Seven EST markers were found to be linked closely with or located at the same loci as the QTLs. EST marker GmKF059a, encoding a repressor protein and mapped on group C2, accounted for about 20% of the total variation of days to flowering, plant height, lodging and nodes on the main stem, respectively.

Keywords

Quantitative Trait Locus Linkage Group Plant Height Seed Weight Agronomic Trait 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgements

This work was supported by National 973 project (G1998010209 and 2002CB111301) and National High Technology Program (2002AA211051).

References

  1. Akkaya MS, Shoemaker RC, Specht JE, Bhagwat AA, Cregan PB (1995) Integration of simple sequence repeat DNA markers into a soybean linkage map. Crop Sci 35:1439–1445Google Scholar
  2. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402PubMedGoogle Scholar
  3. Basten CJ, Weir BS, Zeng Z-B (1994) zmap—a QTL cartographer. In: Smith C, Gavora JS, Benkel B, Chesnais J, Fairfull W, Gibson JP, Kennedy BW, Burnside EB (eds) Proc 5th World Congr Genet Appl Livestock Prod: Computing Strategies Software. Organizing Committee, 5th World Congress on Genetics Applied to Livestock Production, Guelph, Ont., vol 22, pp 65–66Google Scholar
  4. Bernard RL (1971) Two genes for time of flowering and maturity in soybean Crop Sci 11:242–244Google Scholar
  5. Brummer EC, Graef GL, Orf J, Wilcox JR, Shoemaker RC (1997) Mapping QTL fro seed protein and oil content in eight soybean populations. Crop Sci 37:370–378Google Scholar
  6. Cregan PB, Jarvik T, Bush AL, et al. (1999) An integrated genetic linkage map of the soybean genome. Crop Sci 39:1464–1490Google Scholar
  7. Diers BW, Keim P, Fehr WR, Shoemaker RC (1992) RFLP analysis of soybean seed protein and oil content. Theor Appl Genet 83:608–612Google Scholar
  8. He CY, Tian AG, Zhang JS, Zhang ZY, Chen SY (2003) Isolation and characterization of a full-length resistance gene homolog from soybean. Theor Appl Genet 106:786–793PubMedGoogle Scholar
  9. Hoecka JA, Fehr WR, Shoemaker RC, Welkea GA, Johnson SL, Cianzioa SR (2003) Molecular marker analysis of seed size in soybean. Crop Sci 43:68–74Google Scholar
  10. Keim P, Diers BW, Olson TC, Shoemaker RC (1990) RFLP mapping in soybean: association between marker loci and variation in quantitative traits. Genetics 126:735–742PubMedGoogle Scholar
  11. Keim P, Schupp JM, Travis SE, et al. (1997) A high-density soybean genetic map based on AFLP markers. Crop Sci 37:537–543Google Scholar
  12. Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newburg L (1987) mapmaker: an interactive computer package for constructing genetic linkage maps of experimental and natural populations. Genomics 1:174–181PubMedGoogle Scholar
  13. Lark KG, Weisemann JM, Matthews BF, Palmer R, Chase K, Macalma T (1993) A genetic map of soybean (Glycine max L.) using an intraspecific cross of two cultivars: Minsoy and Noir 1. Theor Appl Genet 86:901–906Google Scholar
  14. Lark KG, Chase K, Adler F, Mansur LM, Orf JH (1995). Interactions between quantitative trait loci in soybean in which trait variation at one locus is conditional upon a specific allele at another. Proc Natl Acad Sci USA 92:4656–4660PubMedGoogle Scholar
  15. Lee SH, Bailey MA, Mian MAR, Shipe ER, Ashley DA, Parrot WA, Hussey RS, Boerma HR (1996) Identification of quantitative trait loci for plant height, lodging, and maturity in a soybean population segregating for growth habit. Theor Appl Genet 92:516–523CrossRefGoogle Scholar
  16. Lincoln SE, Lander SL (1993) mapmaker/exp 3.0 and mapmaker/qtl 1.1. Technical report. Whitehead Institute of Medical Research, Cambridge, Mass.Google Scholar
  17. Liu F, Zhuang B-C, Zhang J-S, Chen S-Y (2000) Construction and analysis of soybean genetic map. Acta Bot Sin 27:1018–1026Google Scholar
  18. Mansur LM, Lark KG, Kross HK, Oliveira L (1993) Interval mapping of quantitative trait loci for reproductive, morphological, and seed traits of soybean (Glycine max L.) Theor Appl Genet 86:907–913Google Scholar
  19. 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 36:1327–1336Google Scholar
  20. Matthews BF, Devine TE, Weisemann JM, Beard HS, Lewers KS, McDonald MH, Park Y-B, Maiti R, Lin J-J, Kuo J, Pedroni MJ, Cregan PB, Saunders JA (2001) Incorporation of sequenced cDNA and genomic markers into the soybean genetic map. Crop Sci 41:516–521Google Scholar
  21. Mian MAR, Bailey MA, Tamulonis JP, Shipe ER, Carter TE, Parrott JWA, Ashley DA, Hussey RS, Boerma HR (1996) Molecular markers associated with seed weight in two soybean populations. Theor Appl Genet 93:1011–1016Google Scholar
  22. Mian MAR, Ashly DA, Vencil WK, Boerma HR (1998) QTLs conditioning early growth in a soybean population segregating for growth habit. Theor Appl Genet 97:1210–1216CrossRefGoogle Scholar
  23. Muehlbauer GJ, Staswick PE, Specht JE, Graef GL, Shoemaker RC, Keim P (1991) RFLP mapping using near-isogenic lines in the soybean [Glycine max (L.) Merr.]. Theor Appl Genet 81:189–198Google Scholar
  24. Orf JH, Chase K, Adler FR, Mansur LM, Lark KG (1999) Genetics of soybean agronomic traits: II. Interactions between yield quantitative trait loci in soybean. Crop Sci 39:1652–1657Google Scholar
  25. Shoemaker RC, Olson TC (1993) Molecular linkage map of soybean (Glycine max L. Merr.). In: O’Brien SJ (ed) Genetic maps: locus maps of complex genomes. Cold Spring Harbor Press, Cold Spring Harbor, pp 6.131–6.138Google Scholar
  26. Shoemaker RC, Specht JE (1995) Integration of the soybean molecular and classical genetic linkage groups. Crop Sci 35:436–446Google Scholar
  27. Song W, Solimeo H, Rupert RA, Yadav NS, Zhu Q (2002) Functional dissection of a rice Dr1/DrAp1 transcriptional repression complex Plant Cell 14:181–195Google Scholar
  28. Specht JE, Chase K, Macrander M, Graef GL, Chung JU, Markwell JP, Germann M, Orf JH, Lark KG (2001) Soybean response to water: a QTL analysis of drought tolerance. Crop Sci 41:493–509Google Scholar
  29. Tanksley SD, Nelson JC (1996) Advanced backcross QTL analysis in a cross between an elite proceeding line of tomato and its wild relative L. pimpinellifolium. Theor. Appl. Genet. 92:213–224Google Scholar
  30. Tasma IM, Lorenzen LL, Green DE, Shoemaker RC (2001) Mapping genetic loci for flowering times, maturity and photoperiod insensitivity in soybean. Mol Breed 8:25–35CrossRefGoogle Scholar
  31. Wang SC, Basten, CJ, Zeng ZB (2001) windows qtl cartographer, ver. 1.21. Department of Statistics, N.C. State University, Raleigh, N.C.Google Scholar
  32. Wang YJ (2001) Establishment and adjustment of RIL population and its application to map construction, mapping genes resistant to SMV and QTL analysis of agronomic and quality traits in soybeans. PhD thesis, Nanjing Agricultural University, ChinaGoogle Scholar
  33. Wu XL, He CY, Wang YJ, Zhang ZY, Dongfang Y, Zhang JS, Chen SY, Gai JY (2001) Construction and analysis of a genetic linkage map of soybean. Acta Genet Sin 28:1051–1061PubMedGoogle Scholar
  34. Yamanaka N, Ninomiya S, Hoshi M, Tsubokura Y, Yano M, Nagamura Y, Sasaki T, Harada K (2001) An informative linkage map of soybean reveals QTLs for flowering time, leaflet morphology and regions of segregation distortion. DNA Res 8:61–72PubMedGoogle Scholar
  35. 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 42:271–277PubMedGoogle Scholar
  36. Zeng ZB (1993) Theoretical basis of separation of multiple linked gene effects on mapping quantitative trait loci. Proc Natl Acad Sci USA 90:10972–10976PubMedGoogle Scholar
  37. Zhang DS, Dong W, Hui DW, Chen SY, Zhuang BC (1997) Construction of a soybean linkage map using an F2 hybrid population from a cultivated variety and a semi-wild soybean. Chin Sci Bull 42:1326–1330Google Scholar

Copyright information

© Springer-Verlag 2004

Authors and Affiliations

  1. 1.Plant Biotechnology Laboratory, Institute of Genetics and Developmental BiologyThe Chinese Academy of SciencesBeijingChina
  2. 2.Soybean Research Institute of Nanjing Agricultural University, National Center for Soybean ImprovementNational Key Laboratory for Crop Genetics and Germplasm EnhancementNanjing China

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