Development of SNP markers and haplotype analysis of the candidate gene for rhg1, which confers resistance to soybean cyst nematode in soybean
| Autor: | Zhangxiong Liu, M.J.M. Smulders, Chen Zhang, Zulu Ma, Zhongshan Gao, Lijuan Qiu, Yinghui Li, Ruzhen Chang, Haiyang Nan |
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| Rok vydání: | 2009 |
| Předmět: |
Candidate gene
loci underlying resistance Soybean cyst nematode Single-nucleotide polymorphism Plant Science Biology Quantitative trait locus diversity heterodera-glycines Laboratorium voor Plantenveredeling rice blast resistance PRI Biodiversiteit en Veredeling single-nucleotide polymorphisms Genetics Molecular Biology Gene Haplotype dna polymorphism biology.organism_classification Molecular biology PRI Biodiversity and Breeding Plant Breeding qtls Genetic marker quantitative trait loci Microsatellite Agronomy and Crop Science metaanalysis Biotechnology |
| Zdroj: | Molecular Breeding 24 (2009) 1 Molecular Breeding, 24(1), 63-76 |
| ISSN: | 1572-9788 1380-3743 |
| DOI: | 10.1007/s11032-009-9272-0 |
| Popis: | Soybean cyst nematode (SCN; Heterodera glycines Ichinohe) is one of the most destructive pests in the cultivation of soybean (Glycine max (L.) Merr.) worldwide. Markers based on the SCN resistance gene will enable efficient marker-assisted selection (MAS). We sequenced the candidate gene rhg1 in six resistant and two susceptible soybean genotypes and identified 37 SNPs (single nucleotide polymorphisms) among the sequences, of which 11 were in the coding region. Seven of these 11 SNPs led to changes in the amino acid sequence of the gene. The amino acid sequence we obtained differs from the previously published one by a stretch of 26¿27 amino acids. Six codominant allele-specific SNP markers based on agarose gel detection were developed and tested in 70 genotypes, among which occurred only nine different haplotypes. Two neutrality tests (Tajima¿s D and Fu and Li¿s F) were significant for the six SNP loci in the 70 genotypes, which is consistent with intensive directional selection. A strong LD pattern was detected among five SNPs except 2868T > C. Two SNPs (689C > A and 757C > T) formed one haplotype (689C-757C) that was perfectly associated with SCN resistance. The new allele-specific PCR markers located in the alleged sequence of the rhg1 candidate gene, combined with the microsatellite marker BACR-Satt309, will significantly improve the efficiency of MAS during the development of SCN-resistant cultivars. |
| Databáze: | OpenAIRE |
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