Identification of QTLs associated with resistance to soybean cyst nematode races 2, 3 and 5 in soybean PI 90763

Soybean cyst nematode (SCN) is a major soybean pest throughout the soybean growing regions in the world, including the USA. Soybean PI 90763 is an important SCN resistance source. It is resistant to several SCN populations including races 2, 3 and 5. But its genetics of resistance is not well known. The objectives of this study were to: (1) confirm quantitative trait loci (QTLs) for resistance to SCN race 3 in PI 90763 and (2) identify QTLs for resistance to SCN races 2 and 5. QTLs were searched in Hamilton × PI 90763 F2:3populations using 193 polymorphic simple sequence repeats (SSRs) covering 20 linkage groups (LGs). QTLs for resistance to SCN were identified on LGs A2, B1, E, G, J and L. The same QTL was suggested for resistance to different SCN races where their 1-LOD support intervals of QTL positions highly overlapped. The QTL on LG G was associated with resistance to races 2, 3 and 5. The QTL on LG B1 was associated with resistance to races 2 and 5. The QTL on LG J was associated with resistance to races 2 and 3. The QTLs on LGs A2 and L were associated with resistance to race 3. The QTL on LG E was associated with resistance to race 5. We conclude that LGs A2 and B1 may represent an important distinction between resistance to SCN race 3 and resistance to SCN races 2 and 5 in soybean.

[1]  J. A. Wrather,et al.  Soybean Disease Loss Estimates for the Southern United States, 1994 to 1996. , 1998, Plant disease.

[2]  K. Meksem,et al.  ’Forrest’ resistance to the soybean cyst nematode is bigenic: saturation mapping of the Rhg1and Rhg4 loci , 2001, Theoretical and Applied Genetics.

[3]  J. E. Specht,et al.  A new integrated genetic linkage map of the soybean , 2004, Theoretical and Applied Genetics.

[4]  Z. Zeng.  Precision mapping of quantitative trait loci. , 1994, Genetics.

[5]  B. Matthews,et al.  Molecular markers for resistance to Heterodera glycines in advanced soybean germplasm , 1998, Molecular Breeding.

[6]  R. Shoemaker,et al.  Targeted isolation of simple sequence repeat markers through the use of bacterial artificial chromosomes , 1999, Theoretical and Applied Genetics.

[7]  G. Sciumbato.  Soybean disease loss estimates for the southern United States during 1988-1991 , 1995 .

[8]  Z B Zeng,et al.  Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[9]  D. Sleper,et al.  Molecular characterization of resistance to Heterodera glycines in soybean PI 438489B , 2001, Theoretical and Applied Genetics.

[10]  Robert W. Williams,et al.  The nature and identification of quantitative trait loci: a community's view , 2003, Nature Reviews Genetics.

[11]  J. V. van Ooijen.  LOD significance thresholds for QTL analysis in experimental populations of diploid species , 1999 .

[12]  R. Doerge,et al.  Empirical threshold values for quantitative trait mapping. , 1994, Genetics.

[13]  J. Nadeau,et al.  Finding Genes That Underlie Complex Traits , 2002, Science.

[14]  C. D. Nickell,et al.  Registration of 'Hamilton' soybean. , 1990 .

[15]  T. Devine,et al.  Molecular markers located proximal to the soybean cyst nematode resistance gene, Rhg4 , 1992, Theoretical and Applied Genetics.

[16]  David A. Sleper,et al.  Mapping Resistance to Multiple Races of Heterodera glycines in Soybean PI 89772 , 2001 .

[17]  Peter M Visscher,et al.  Prediction of the Confidence Interval of Quantitative Trait Loci Location , 2004, Behavior genetics.

[18]  P. Cregan,et al.  Two Microsatellite Markers That Flank the Major Soybean Cyst Nematode Resistance Locus , 1997 .

[19]  N. Young,et al.  Genome Mapping of Soybean Cyst Nematode Resistance Genes in ‘Peking’, PI 90763, and PI 88788 Using DNA Markers , 1997 .

[20]  P. Keim,et al.  Genetic mapping of soybean cyst nematode race-3 resistance loci in the soybean PI 437.654 , 1995, Theoretical and Applied Genetics.

[21]  R. Shoemaker,et al.  Loci underlying resistance to Race 3 of soybean cyst nematode in Glycine soja plant introduction 468916 , 2001, Theoretical and Applied Genetics.

[22]  R. Jansen,et al.  Interval mapping of multiple quantitative trait loci. , 1993, Genetics.

[23]  D. Sleper,et al.  RFLP markers associated with soybean cyst nematode resistance and seed composition in a ‘Peking’בEssex’ population , 1999, Theoretical and Applied Genetics.

[24]  P. Cregan,et al.  Two simple sequence repeat markers to select for soybean cyst nematode resistance coditioned by the rhg1 locus , 1999, Theoretical and Applied Genetics.

[25]  Paul Gibson,et al.  Soybean Germplasm Resistant to Races 1 and 2 of Heterodera glycines , 1997 .

[26]  Nevin D. Young,et al.  DNA marker analysis of loci underlying resistance to soybean cyst nematode (Heterodera glycines Ichinohe) , 1994 .

[27]  David A. Sleper,et al.  Soybean Reaction to Races 1 and 2 of Heterodera glycines , 2000 .

[28]  Brian W Diers,et al.  A Decade of QTL Mapping for Cyst Nematode Resistance in Soybean , 2004 .

[29]  T. Devine,et al.  Molecular markers residing close to the Rhg4 locus conferring resistance to soybean cyst nematode race 3 on linkage group A of soybean , 1998, Theoretical and Applied Genetics.

[30]  L. D. Ploper,et al.  Soybean Disease Loss Estimates for the Top 10 Soybean Producing Countries in 1994. , 1997, Plant disease.

[31]  J. Shannon,et al.  A Revised Classification Scheme for Genetically Diverse Populations of Heterodera glycines. , 2002, Journal of nematology.

[32]  E. Lander,et al.  Genetic dissection of complex traits: guidelines for interpreting and reporting linkage results , 1995, Nature Genetics.

[33]  R. Shoemaker,et al.  A rapid protocol for isolating soybean DNA , 1988 .

[34]  N. Young,et al.  RFLP Mapping and Marker-Assisted Selection of Soybean Cyst Nematode Resistance in PI 209332 , 1996 .

[35]  G. Shannon,et al.  Differentiating Soybean Responses to Heterodera Glycines Races , 1992 .

[36]  H. H. Ram,et al.  Soybean disease loss estimates for the top ten soybean-producing counries in 1998 , 2001 .

[37]  M. Soller,et al.  A Simple Method to Calculate Resolving Power and Confidence Interval of QTL Map Location , 1997, Behavior genetics.

[38]  M. Soller,et al.  An analytical formula to estimate confidence interval of QTL location with a saturated genetic map as a function of experimental design , 2004, Theoretical and Applied Genetics.

[39]  B. Diers,et al.  Near Isogenic Lines Confirm a Soybean Cyst Nematode Resistance Gene from PI 88788 on Linkage Group J , 2004 .