Functional & Integrative Genomics

, Volume 11, Issue 4, pp 539–549

Soybean cyst nematode resistance in soybean is independent of the Rhg4 locus LRR-RLK gene

  • Xiaohong Liu
  • Shiming Liu
  • Aziz Jamai
  • Abdelhafid Bendahmane
  • David A. Lightfoot
  • Melissa G. Mitchum
  • Khalid Meksem
Original Paper

DOI: 10.1007/s10142-011-0225-4

Cite this article as:
Liu, X., Liu, S., Jamai, A. et al. Funct Integr Genomics (2011) 11: 539. doi:10.1007/s10142-011-0225-4

Abstract

To test the function of candidate genes in soybean for resistance to the soybean cyst nematode (SCN), a large collection of EMS-mutants from the SCN-resistant soybean cultivar “Forrest” was developed for Targeting Induced Local Lesions IN Genomes (TILLING). Additionally, due to the complexity of the soybean genome, an integrated set of genomic and genetic analysis tools was employed to complement the TILLING approach. The efficiency of this integrated set of tools was tested using a candidate soybean gene for resistance to SCN, encoding a leucine-rich repeat receptor-like kinase (LRR-RLK) that was identified by map-based cloning at the Rhg4 locus. The Rhg4 locus is one of the major quantitative trait loci controlling soybean resistance against SCN race 3 (HG type 0) in cv. Forrest, but the gene(s) sequence for resistance remains to be determined. Using TILLING, a Forrest mutant containing a nonsense mutation in the LRR domain of the candidate resistance protein was identified and confirmed; however, the SCN-resistant phenotype of the mutant was not altered. Haplotyping and EcoTILLING of recombinant inbred lines along with complementation analysis corroborated the TILLING result and ruled out the possibility of functional redundancy by a second copy of the LRR-RLK gene identified in the soybean genome. This study validates the use of TILLING, in combination with an integrated set of genomic tools, as an efficient means of testing candidate genes for SCN resistance in soybean.

Keywords

Cyst nematodeGeneticsGenomicsHeterodera glycinesResistanceSoybeanTILLING

Supplementary material

10142_2011_225_MOESM1_ESM.doc (16 kb)
Table S1EcoTILLING of the EXF RILs population using the LRR-kinase sequences at each, the Rhg1 locus (Rhg1 allele) and the Rhg4 locus (Rhg4 allele) and the corresponding SCN phenotype of each line. RIL recombinant inbred line of EXF population, E allele from Essex, F allele from Forrest, R resistant, S susceptible (DOC 16 kb)
10142_2011_225_MOESM2_ESM.ppt (109 kb)
Fig. S1(PPT 109 kb)

Copyright information

© Springer-Verlag 2011

Authors and Affiliations

  • Xiaohong Liu
    • 1
  • Shiming Liu
    • 2
  • Aziz Jamai
    • 2
  • Abdelhafid Bendahmane
    • 3
    • 4
  • David A. Lightfoot
    • 5
  • Melissa G. Mitchum
    • 1
  • Khalid Meksem
    • 2
  1. 1.Division of Plant Sciences and Bond Life Sciences CenterUniversity of MissouriColumbiaUSA
  2. 2.Plants and Microbes Genomics and Genetics Lab, Department of Plant Soil and Agricultural SystemsSouthern Illinois University at CarbondaleCarbondaleUSA
  3. 3.Unité de Recherche en Génomique Végétale, UMR INRA-CNRSEvry CedexFrance
  4. 4.Department of Plant Production, College of Food and Agricultural SciencesKing Saud UniversityRiyadhSaudi Arabia
  5. 5.Center for Excellence, The Illinois Soybean CenterCarbondaleUSA