Extensive chromosome homoeology among brassiceae species were revealed by comparative genetic mapping with high-density EST-based SNP markers in radish (Raphanus sativus L.)

Feng Li, Yoichi Hasegawa, Masako Saito, Sachiko Shirasawa, Aki Fukushima, Toyoaki Ito, Hiroshi Fujii, Sachie Kishitani, Hiroyasu Kitashiba, Takeshi Nishio

Research output: Contribution to journalArticle

41 Citations (Scopus)

Abstract

A linkage map of expressed sequence tag (EST)-based markers in radish (Raphanus sativus L.) was constructed using a low-cost and high-efficiency single-nucleotide polymorphism (SNP) genotyping method named multiplex polymerase chain reactionmixed probe dot-blot analysis developed in this study. Seven hundred and forty-six SNP markers derived from EST sequences of R. sativus were assigned to nine linkage groups with a total length of 806.7 cM. By BLASTN, 726 markers were found to have homologous genes in Arabidopsis thaliana, and 72 syntenic regions, which have great potential for utilizing genomic information of the model species A. thaliana in basic and applied genetics of R. sativus, were identified. By construction and analysis of the genome structures of R. sativus based on the 24 genomic blocks within the Brassicaceae ancestral karyotype, 23 of the 24 genomic blocks were detected in the genome of R. sativus, and half of them were found to be triplicated. Comparison of the genome structure of R. sativus with those of the A, B, and C genomes of Brassica species and that of Sinapis alba L. revealed extensive chromosome homoeology among Brassiceae species, which would facilitate transfer of the genomic information from one Brassiceae species to another.

Original languageEnglish
Pages (from-to)401-411
Number of pages11
JournalDNA Research
Volume18
Issue number5
DOIs
Publication statusPublished - 2011 Oct

Keywords

  • Raphanus sativus
  • SNP genotyping
  • chromosome homoeology
  • comparative genomics
  • synteny

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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