Development of molecular markers tightly linked to Pvr4 gene in pepper using next-generation sequencing

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DEVRAN Z., Kahveci E., OZKAYNAK E., Studholme D. J., Toer M.

MOLECULAR BREEDING, vol.35, no.4, 2015 (SCI-Expanded) identifier identifier identifier

  • Publication Type: Article / Article
  • Volume: 35 Issue: 4
  • Publication Date: 2015
  • Doi Number: 10.1007/s11032-015-0294-5
  • Journal Name: MOLECULAR BREEDING
  • Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus
  • Keywords: Potato virus Y, Pepper, Pvr4, Next-generation sequencing, MAS, Synteny, POTYVIRUS RESISTANCE GENES, SPOTTED WILT VIRUS, CAPSICUM CHINENSE, HYPERSENSITIVE RESISTANCE, ARABIDOPSIS-THALIANA, PROVIDES INSIGHTS, ENCODING GENES, SELECTION, ANNUUM, MAP
  • Akdeniz University Affiliated: Yes

Abstract

It is imperative to identify highly polymorphic and tightly linked markers of a known trait for molecular marker-assisted selection. Potyvirus resistance 4 (Pvr4) locus in pepper confers resistance to three pathotypes of potato virus Y and to pepper mottle virus. We describe the use of next-generation sequencing technology to generate molecular markers tightly linked to Pvr4. Initially, comparative genomics was carried out, and a syntenic region of tomato on chromosome ten was used to generate PCR-based markers and map Pvr4. Subsequently, the genomic sequence of pepper was used, and more than 5000 single-nucleotide variants (SNVs) were identified within the interval. In addition, we identified nucleotide binding site-leucine-rich repeat-type disease resistance genes within the interval. Several of these SNVs were converted to molecular markers desirable for large-scale molecular breeding programmes.