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Application of real-time PCR-based SNP detection for mapping of Net2, a causal D-genome gene for hybrid necrosis in interspecific crosses between tetraploid wheat and Aegilops tauschii.
Genes Genet Syst. 2012; 87(2):137-43.GG

Abstract

Available information on genetically assigned molecular markers is not sufficient for efficient construction of a high-density linkage map in wheat. Here, we report on application of high resolution melting (HRM) analysis using a real-time PCR apparatus to develop single nucleotide polymorphism (SNP) markers linked to a hybrid necrosis gene, Net2, located on wheat chromosome 2D. Based on genomic information on barley chromosome 2H and wheat expressed sequence tag libraries, we selected wheat cDNA sequences presumed to be located near the Net2 chromosomal region, and then found SNPs between the parental Ae. tauschii accessions of the synthetic wheat mapping population. HRM analysis of the PCR products from F(2) individuals' DNA enabled us to assign 44.4% of the SNP-representing cDNAs to chromosome 2D despite the presence of the A and B genomes. In addition, the designed SNP markers were assigned to chromosome 2D of Ae. tauschii. The order of the assigned SNP markers in synthetic hexaploid wheat was confirmed by comparison with the markers in barley and Ae. tauschii. Thus, the SNP-genotyping method based on HRM analysis is a useful tool for development of molecular markers at target loci in wheat.

Authors+Show Affiliations

Graduate School of Agricultural Science, Kobe University, Nada, Japan.No affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

22820387

Citation

Matsuda, Ryusuke, et al. "Application of Real-time PCR-based SNP Detection for Mapping of Net2, a Causal D-genome Gene for Hybrid Necrosis in Interspecific Crosses Between Tetraploid Wheat and Aegilops Tauschii." Genes & Genetic Systems, vol. 87, no. 2, 2012, pp. 137-43.
Matsuda R, Iehisa JC, Takumi S. Application of real-time PCR-based SNP detection for mapping of Net2, a causal D-genome gene for hybrid necrosis in interspecific crosses between tetraploid wheat and Aegilops tauschii. Genes Genet Syst. 2012;87(2):137-43.
Matsuda, R., Iehisa, J. C., & Takumi, S. (2012). Application of real-time PCR-based SNP detection for mapping of Net2, a causal D-genome gene for hybrid necrosis in interspecific crosses between tetraploid wheat and Aegilops tauschii. Genes & Genetic Systems, 87(2), 137-43.
Matsuda R, Iehisa JC, Takumi S. Application of Real-time PCR-based SNP Detection for Mapping of Net2, a Causal D-genome Gene for Hybrid Necrosis in Interspecific Crosses Between Tetraploid Wheat and Aegilops Tauschii. Genes Genet Syst. 2012;87(2):137-43. PubMed PMID: 22820387.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Application of real-time PCR-based SNP detection for mapping of Net2, a causal D-genome gene for hybrid necrosis in interspecific crosses between tetraploid wheat and Aegilops tauschii. AU - Matsuda,Ryusuke, AU - Iehisa,Julio C M, AU - Takumi,Shigeo, PY - 2012/7/24/entrez PY - 2012/7/24/pubmed PY - 2012/12/10/medline SP - 137 EP - 43 JF - Genes & genetic systems JO - Genes Genet Syst VL - 87 IS - 2 N2 - Available information on genetically assigned molecular markers is not sufficient for efficient construction of a high-density linkage map in wheat. Here, we report on application of high resolution melting (HRM) analysis using a real-time PCR apparatus to develop single nucleotide polymorphism (SNP) markers linked to a hybrid necrosis gene, Net2, located on wheat chromosome 2D. Based on genomic information on barley chromosome 2H and wheat expressed sequence tag libraries, we selected wheat cDNA sequences presumed to be located near the Net2 chromosomal region, and then found SNPs between the parental Ae. tauschii accessions of the synthetic wheat mapping population. HRM analysis of the PCR products from F(2) individuals' DNA enabled us to assign 44.4% of the SNP-representing cDNAs to chromosome 2D despite the presence of the A and B genomes. In addition, the designed SNP markers were assigned to chromosome 2D of Ae. tauschii. The order of the assigned SNP markers in synthetic hexaploid wheat was confirmed by comparison with the markers in barley and Ae. tauschii. Thus, the SNP-genotyping method based on HRM analysis is a useful tool for development of molecular markers at target loci in wheat. SN - 1880-5779 UR - https://www.unboundmedicine.com/medline/citation/22820387/Application_of_real_time_PCR_based_SNP_detection_for_mapping_of_Net2_a_causal_D_genome_gene_for_hybrid_necrosis_in_interspecific_crosses_between_tetraploid_wheat_and_Aegilops_tauschii_ L2 - http://japanlinkcenter.org/DN/JST.JSTAGE/ggs/87.137?lang=en&from=PubMed DB - PRIME DP - Unbound Medicine ER -