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<p>The cytoplasmic–genic male sterility (CGMS) system enhances the economic efficiency of F<sub>1</sub> hybrid seed production by exploiting the interaction between sterile cytoplasm and nuclear restorer-of-fertility (<i>Rf</i>) genes. Molecular markers linked to the <i>Rf</i> gene facilitate the development of stable CMS lines by enabling fixation of the recessive <i>rf</i> allele in male-sterile (A) and maintainer (B) lines, identification of restorer lines, and assessment of genetic purity. In the present study, phenotyping of an F<sub>2</sub> population derived from IIHR4392A (<i>rfrf</i>) × IIHR4597R (<i>RfRf</i>) showed a 3:1 segregation ratio, confirming monogenic dominant inheritance of fertility restoration. Genotyping-by-sequencing (GBS) of this segregating F<sub>2</sub> population yielded 10,443 single-nucleotide polymorphisms (SNPs) with 481 to 1,074 SNPs per chromosome. Bulk segregant analysis identified three SNPs co-segregating with the <i>Rf</i> gene on chromosome 6. One candidate SNP, mapped at 2,343,509&#xa0;bp on chromosome 6, was converted into a derived cleaved amplified polymorphic sequence (dCAPS) marker and validated in the F<sub>2</sub> population. Three putative candidate genes, <i>i.e</i>., two fertility restorer-like proteins (<i>CA06g01070</i>, <i>CA06g01090</i>) and a pentatricopeptide repeat protein (<i>CA06g01100</i>), were predicted as potential <i>Rf</i> candidates. The developed dCAPS marker associated with the <i>Rf</i> gene for fertility restoration provides a valuable tool for marker-assisted breeding in chilli.</p>

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Development of SNP-based markers associated with restorer-of-fertility in chilli (Capsicum annuum L.)

  • 期刊论文

  • 发表日期：

    2026年7月31日

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  • Manoj Balenahalli Parameshwaraiah,
  • Madhavi Reddy Kambham,
  • Lakshmana Reddy Dhoranapalli ChinnappaReddy,
  • Sai Timmarao Koka,
  • Smaranika Mishra,
  • Karishma Pasupula,
  • Mahebub Shaik,
  • Naresh Ponnam

摘要

The cytoplasmic–genic male sterility (CGMS) system enhances the economic efficiency of F1 hybrid seed production by exploiting the interaction between sterile cytoplasm and nuclear restorer-of-fertility (Rf) genes. Molecular markers linked to the Rf gene facilitate the development of stable CMS lines by enabling fixation of the recessive rf allele in male-sterile (A) and maintainer (B) lines, identification of restorer lines, and assessment of genetic purity. In the present study, phenotyping of an F2 population derived from IIHR4392A (rfrf) × IIHR4597R (RfRf) showed a 3:1 segregation ratio, confirming monogenic dominant inheritance of fertility restoration. Genotyping-by-sequencing (GBS) of this segregating F2 population yielded 10,443 single-nucleotide polymorphisms (SNPs) with 481 to 1,074 SNPs per chromosome. Bulk segregant analysis identified three SNPs co-segregating with the Rf gene on chromosome 6. One candidate SNP, mapped at 2,343,509 bp on chromosome 6, was converted into a derived cleaved amplified polymorphic sequence (dCAPS) marker and validated in the F2 population. Three putative candidate genes, i.e., two fertility restorer-like proteins (CA06g01070, CA06g01090) and a pentatricopeptide repeat protein (CA06g01100), were predicted as potential Rf candidates. The developed dCAPS marker associated with the Rf gene for fertility restoration provides a valuable tool for marker-assisted breeding in chilli.