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Confirmation of quantitative trait loci for resistance to multiple-HG types of soybean cyst nematode (Heterodera glycines Ichinohe)

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Abstract

Genetic analysis of resistance of plant introduction (PI) 438489B to soybean cyst nematode (SCN) have shown that this PI is highly resistant to many SCN HG types. However, validation of the previously detected quantitative trait loci (QTL) has not been done. In this study, 250 F2:3 progeny of a Magellan (susceptible) × PI 438489B (resistant) cross were used for primary genetic mapping to detect putative QTL for resistance to five SCN HG types. QTL confirmation study was subsequently conducted using F6:7 recombinant inbred lines (RILs) derived from the same cross. Simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) markers were employed for molecular genotyping. Interval mapping (IM), permutation tests, cofactor selection, and composite interval mapping (CIM) were performed to identify and map QTL. Results showed that five QTL intervals were associated with resistance to either multiple- or single-HG types of SCN. Among these, two major QTL for resistance to multiple-SCN HG types were mapped to chromosomes (Chr.) 8 and 18, consistent with the known rhg1 and Rhg4 locations. The other QTL were mapped to Chr. 4. The results of our study confirmed earlier reported SCN resistance QTL in this PI. Moreover, SSR and SNP molecular markers tightly linked to these QTL can be useful for the near-isogenic lines (NILs) development aiming to fine-mapping of these QTL regions and map-based cloning of SCN resistance candidate genes.

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References

  • Anand SC, Rao Arelli AP (1989) Genetic analysis of soybean genotypes resistant to soybean cyst nematode race 5. Crop Sci 29:1181–1184

    Article  Google Scholar 

  • Arelli PR, Wilcox JA, Myers J, Gibson PT (1997) Soybean germplasm resistant to races 1 and 2 of Heterodera glycines. Crop Sci 37:1367–1369

    Article  Google Scholar 

  • Arelli PR, Sleper DA, Yue P, Wilcox JA (2000) Soybean reactions to races 1 and 2 of Heterodera glycines. Crop Sci 40:824–826

    Article  Google Scholar 

  • Arelli PR, Young LD, Concibido VC (2009) Inheritance of resistance in soybean PI 567516C to LY1 nematode population infecting cv. Hartwig. Euphytica 165:1–4

    Article  CAS  Google Scholar 

  • Brim CA (1966) A modified pedigree method of selection in soybeans. Crop Sci 6:220

    Article  Google Scholar 

  • Caldwell BE, Brim CA, Ross JP (1960) Inheritance of resistance of soybeans to the cyst nematode, Heterodera glycines. Agron J 52:635–636

    Article  Google Scholar 

  • Chang SJC, Doubler TW, Kilo VY, Abu-Thredeih J, Prabhu R, Freire V, Suttner R, Klein J, Schmidt ME, Gibson PT, Lightfoot DA (1997) Association of loci underlying field resistance to soybean sudden death syndrome (SDS) and cyst nematode (SCN) race 3. Crop Sci 37:965–971

    Article  CAS  Google Scholar 

  • Chen Y, Wang D, Arelli PR, Ebrahimi M, Nelson RL (2006) Molecular marker diversity of SCN-resistant sources in soybean. Genome 49:938–949

    Article  PubMed  CAS  Google Scholar 

  • Choi IY, Hyten DL, Matukumalli LK, Song Q, Chaky JM, Quigley CV, Chase K, Lark KG, Reiter RS, Yoon MS, Hwang EY, Yi SI, Young ND, Shoemaker RC, van Tassell CP, Specht JE, Cregan PB (2007) A soybean transcript map: gene distribution, haplotype and single-nucleotide polymorphism analysis. Genetics 176:685–696

    Article  PubMed  CAS  Google Scholar 

  • Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138:963–971

    PubMed  CAS  Google Scholar 

  • Concibido VC, Denny RL, Boutin SR, Hautea R, Orf JH, Young ND (1994) DNA marker analysis of loci underlying resistance to soybean cyst nematode (Heterodera glycines Ichinohe). Crop Sci 34:240–246

    Article  CAS  Google Scholar 

  • Concibido VC, Lange D, Denny RL, Orf J, Young N (1997) Genome mapping on soybean cyst nematode resistance genes in ‘Peking’, PI 90763, and PI 88788 using DNA markers. Crop Sci 37:258–264

    Article  CAS  Google Scholar 

  • Concibido VC, Diers BW, Arelli PR (2004) A decade of QTL mapping of cyst nematode resistance in soybean. Crop Sci 44:1121–1131

    Article  CAS  Google Scholar 

  • Cregan PB, Mudge J, Fickus EW, Danesh D, Denny R, Young ND (1999) Two simple sequence repeat markers to select for soybean cyst nematode resistance conditioned by the rhg1 locus. Theor Appl Genet 99:811–818

    Article  CAS  Google Scholar 

  • Diers BW, Arelli PR (1999) Management of parasite nematodes of soybean through genetic resistance. In: Kauffman HE (ed) Proceedings of the 6th world soybean research conference, Chicago, IL, 4–7 Aug 1999. Superior Printing, Champaign, pp 300–306

  • Diers BW, Skorupska HT, Rao-Arelli AP, Cianzio SR (1997) Genetic relationships among soybean plant introductions with resistance to soybean cyst nematode. Crop Sci 37:1966–1972

    Article  Google Scholar 

  • Fan J, Gunderson K, Bibikova M, Yeakley J, Chen J, Garcia EW, Lebruska L, Laurent M, Shen R, Barker D (2006) Illumina universal bead arrays. Methods Enzymol 410:57–73

    Article  PubMed  CAS  Google Scholar 

  • Grant D, Nelson RT, Cannon SC, Shoemaker RC (2010) SoyBase: the USDA-ARS soybean genome database. http://soybase.org, as of Oct 2010

  • Guo B, Sleper DA, Arelli PR, Shannon JG, Nguyen HT (2005) Identification of QTLs associated with resistance to soybean cyst nematode races 2, 3 and 5 in soybean PI 90763. Theor Appl Genet 111:965–971

    Article  PubMed  CAS  Google Scholar 

  • Guo B, Sleper DA, Lu P, Shannon JG, Nguyen HT, Arelli PR (2006a) QTLs associated with resistance to soybean cyst nematode in soybean: meta-analysis of QTL locations. Crop Sci 46:595–604

    Article  Google Scholar 

  • Guo B, Sleper DA, Nguyen HT, Arelli PR, Shannon JG (2006b) Quantitative trait loci underlying resistance to three soybean cyst nematode populations in soybean PI 404198A. Crop Sci 46:224–233

    Article  CAS  Google Scholar 

  • Hauge BM, Wang ML, Parsons JD, Parnell LD (2001) Nucleic acid molecules and other molecules associated with soybean cyst nematode resistance. U.S. Patent Application No. 2030005491

  • Hauge BM, Wang ML, Parsons JD, Parnell LD (2006) Nucleic acid molecules and other molecules associated with soybean cyst nematode resistance. U.S. Patent No. 7,154,021

  • Heer JA, Knap HT, Mahalingam R, Shipe ER, Arelli PR, Matthews BF (1998) Molecular markers for resistance to Heterodera glycines in advanced soybean germplasm. Mol Breed 4:359–367

    Article  CAS  Google Scholar 

  • Hyten DL, Choi I-Y, Song Q, Specht JE, Carter TE, Shoemaker RC, Hwang E-Y, Matukumalli LK, Cregan PB (2010) A high density integrated genetic linkage map of soybean and the development of a 1536 universal soy linkage panel for QTL mapping. Crop Sci 50:960–968

    Article  CAS  Google Scholar 

  • Kabelka EA, Carlson SR, Diers BW (2005) Localization of two loci that confer resistance to soybean cyst nematode from Glycine soja PI 468916. Crop Sci 45:2473–2481

    Article  CAS  Google Scholar 

  • Lightfoot D, Meksem K (2002) Isolated polynucleotides and polypeptides relating to loci underlying resistance to soybean cyst nematode and soybean sudden death syndrome and methods employing same. U.S. Patent Application No. 20020144310

  • Mansur LM, Carriquiry AL, Rao-Arelli AP (1993) Generation mean analysis of resistance to race 3 of soybean cyst nematode. Crop Sci 33:1249–1253

    Article  Google Scholar 

  • Matson AL, Williams LF (1965) Evidence of a fourth gene for resistance to the soybean cyst nematode. Crop Sci 5:477

    Article  Google Scholar 

  • Meksem K, Pantazopoulos P, Njiti VN, Hyten DL, Arelli PR, Lightfoot DA (2001) ‘Forrest’ resistance to the soybean cyst nematode is bigenic: saturation mapping of the Rhg1 and Rhg4 loci. Theor Appl Genet 103:710–717

    Article  CAS  Google Scholar 

  • Melito S, Heuberger AL, Cook D, Diers BW, MacGuidwin AE, Bent AF (2010) A nematode demographics assay in transgenic roots reveals no significant impacts of the Rhg1 locus LRR-Kinase on soybean cyst nematode resistance. BMC Plant Biol 10:104–117

    Article  PubMed  Google Scholar 

  • Mitchum MG, Wrather JA, Heinz RD, Shannon JG, Danekas G (2007) Variability in distribution and virulence phenotypes of Heterodera glycines in Missouri during 2005. Plant Dis 91:1473–1476

    Article  Google Scholar 

  • Niblack TL, Arelli PR, Noel GR, Opperman CH, Orf JH, Schmitt DP, Shannon JG, Tylka GL (2002) A revised classification scheme for genetically diverse populations of Heterodera glycines. J Nematol 34:279–288

    PubMed  CAS  Google Scholar 

  • Nyquist WE (1991) Estimation of heritability and prediction of selection response in plant populations. Crit Rev Plant Sci 10:235–322

    Article  Google Scholar 

  • Ohno Y, Tanase H, Nabika T, Otsuda K, Sasaki T, Suzawa T, Korii T, Yamori Y, Saruta T (2000) Selective genotyping with epistasis can be utilized for a major quantitative trait locus mapping in hypertension in rats. Genetics 155:785–792

    PubMed  CAS  Google Scholar 

  • Qiu BX, Arelli PR, Sleper DA (1999) RFLP markers associated with soybean cyst nematode resistance and seed composition in a ‘Peking’ × ‘Essex’ population. Theor Appl Genet 98:356–364

    Article  CAS  Google Scholar 

  • Rao-Arelli AP (1994) Inheritance of resistance to Heterodera glycines race 3 in soybean accessions. Plant Dis 78:898–900

    Article  Google Scholar 

  • Ruben E, Jamai A, Afzal J, Njiti V, Triwitayakorn K, Iqbal M, Yaegashi S, Bashir R, Kazi S, Arelli P, Town C, Ishihara H, Meksem K, Lightfoot D (2006) Genomic analysis of the rhg1 locus: candidate genes that underlie soybean resistance to the cyst nematode. Mol Genet Genomics 276:503–516

    Article  PubMed  CAS  Google Scholar 

  • Schapaugh WT, Owen PA, Clark KM, Sleper DA (1998) Registration of ‘Magellan’ soybean. Crop Sci 38:892

    Google Scholar 

  • Schmitt DP, Shannon JG (1992) Differentiating soybean responses to Heterodera glycines races. Crop Sci 32:275–277

    Article  Google Scholar 

  • van Ooijen JH, Voorrips RE (2001) JoinMap 3.0 software for the calculation of genetic linkage maps. Plant Research International, Wageningen

    Google Scholar 

  • Voorrips RE (2002) MapChart: software for the graphical presentation of the linkage maps and QTLs. J Hered 93:77–78

    Article  PubMed  CAS  Google Scholar 

  • Vuong TD, Sleper DA, Shannon JG, Nguyen HT (2010) Novel quantitative trait loci for broad-based resistance to soybean cyst nematode (Heterodera glycines Ichinohe) in soybean PI 567516C. Theor Appl Genet 121:1253–1266

    Article  PubMed  CAS  Google Scholar 

  • 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

    Article  CAS  Google Scholar 

  • Webb DM, Baltazar BM, Rao-Arelli PA, Schupp J, Clayton K, Keim P, Beavis WD (1995) Genetic mapping of soybean cyst nematode race-3 resistance loci in soybean PI 437654. Theor Appl Genet 91:574–581

    Article  CAS  Google Scholar 

  • Winter SMJ, Shelp BJ, Anderson TR, Welacky TW, Rajcan I (2007) QTL associated with horizontal resistance to soybean nematode in Glycine soja PI 644925B. Theor Appl Genet 114:461–472

    Article  PubMed  Google Scholar 

  • Wrather JA, Koenning SR (2006) Estimates of disease effects on soybean yields in the United States 2003 to 2005. J Nematol 38:173–180

    PubMed  Google Scholar 

  • Wu X, Blake S, Sleper DA, Shannon JG, Cregan PB, Nguyen HT (2009) QTL, additive, and epistatic effects for SCN resistance in PI 437654. Theor Appl Genet 118:1093–1105

    Article  PubMed  CAS  Google Scholar 

  • Yang J, Zhu J, Williams RW (2007) Mapping the genetic architecture of complex traits in experimental populations. Bioinformatics 23:1527–1536

    Article  PubMed  CAS  Google Scholar 

  • Ye F, Li M-S, Taylor JD, Nguyen Q, Colton HM, Casey WM, Wagner M, Weiner MP, Chen J (2001) Fluorescent microsphere-based readout technology for multiplexed human single nucleotide polymorphism analysis and bacterial identification. Hum Mutat 17:305–316

    Article  PubMed  CAS  Google Scholar 

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

    Article  CAS  Google Scholar 

  • Yue P, Sleper DA, Arelli PR (2001b) Mapping resistance to multiple races of Heterodera glycines in soybean PI 89772. Crop Sci 41:1589–1595

    Article  CAS  Google Scholar 

  • Zeng Z-B (1993) Theoretical basis of separation of multiple linked gene effects on mapping quantitative trait loci. Proc Natl Acad Sci USA 90:10972–10976

    Article  PubMed  CAS  Google Scholar 

  • Zeng Z-B (1994) Precision mapping of quantitative trait loci. Genetics 136:1457–1468

    PubMed  CAS  Google Scholar 

  • Zhang J, Arelli PR, Sleper DA, Qiu BX, Ellersieck MR (1999) Genetic diversity of soybean germplasm resistance to Heterodera glycines. Euphytica 107:205–216

    Article  CAS  Google Scholar 

Download references

Acknowledgments

This research was supported by the United Soybean Board, Missouri Soybean Merchandizing Council, and National Center for Soybean Biotechnology (USDA-CSREES Award No. 2008-34555-19305). The authors acknowledge Dr. Md Pathan, John Wilcox, Md. Sariful Islam, Sabrina Brown, Kerry Clark, and Cuilan Liu, Division of Plant Sciences, University of Missouri, for their technical assistance. The authors would like to thank Drs. Perry Cregan and David Hyten, Soybean Genomics and Improvement Lab, USDA-ARS, Beltsville, MD 20705, for the development and early accessibility of a universal soybean single nucleotide polymorphism panel (USLP 1.0) used in this study.

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  1. X. Wu

    Present address: Bayer CropScience, 3500 Paramount Parkway, Morrisville, NC, 27560, USA

Authors and Affiliations

  1. Division of Plant Sciences and National Center for Soybean Biotechnology (NCSB), University of Missouri-Columbia, Columbia, MO, 65211, USA

    T. D. Vuong, D. A. Sleper, X. Wu & H. T. Nguyen

  2. Division of Plant Sciences and NCSB, University of Missouri-Columbia, Delta Center, P.O. Box 160, Portageville, MO, 63873, USA

    J. G. Shannon

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  1. T. D. Vuong
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Vuong, T.D., Sleper, D.A., Shannon, J.G. et al. Confirmation of quantitative trait loci for resistance to multiple-HG types of soybean cyst nematode (Heterodera glycines Ichinohe). Euphytica 181, 101–113 (2011). https://doi.org/10.1007/s10681-011-0430-1

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