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

Molecular Breeding : New Strategies in Plant Improvement
Zübeyir DevranMahmut Tör

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.

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Citations

Aug 16, 2016·Frontiers in Plant Science·Matthew T WellingGraham J King
Jul 10, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Zübeyir DevranMahmut Tör
Sep 24, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Hongbing SheZhaosheng Xu
Apr 12, 2020·International Journal of Molecular Sciences·Mario ParisiPasquale Tripodi
Sep 8, 2021·Frontiers in Plant Science·Erdem KahveciMahmut Tör

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Datasets Mentioned

BETA
SRX713975

Methods Mentioned

BETA
PCR
genotyping
Illumina sequencing

Software Mentioned

BLASTX
Biomatters
Btrim
Geneious R7
Artemis Comparison Tool
BLASTN
Integrative Genomics Viewer IGV

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