An 18.5-kbp Deletion in the Genomic Region, Including the <i>Pun1</i>, is Responsible for Non-pungency Traits in the Japanese Sweet Pepper ‘Sampo Oamanaga’ (<i>Capsicum annuum</i>)

• DOI: 10.2503/hortj.qh-100
• Publication Date: 2024-01-15T17:10:56Z
• Authors: Moe Yamaguchi; Fumiya Kondo; Kazuhiro Nemoto; Kenichi Matsushima
• Keywords: Pungency; Sanger sequencing

Capsaicinoids are compounds that generate the characteristic pungent taste of chili peppers, presence or absence which determines utilization peppers as spices vegetables. Loss pungency is a qualitative trait resulting from dysfunction in any four capsaicinoid biosynthesis genes (Pun1, pAMT, CaKR1, and CaMYB31). However, lack sweet cannot be explained by known mutation alleles these genes. Herein, we report novel dysfunctional allele Pun1, encodes acyltransferase 3 (capsaicin synthase), Japanese pepper, 'Sampo Oamanaga'. Firstly, PCR genotyping Oamanaga' Pun1 showed it was not mutant allele. We also performed whole-genome resequencing found large genomic deletion around (XM_016704778.1). then examined precise size breakpoint Pun1-deletion region via de novo assembly Sanger sequencing analysis. an 18.5-kbp deletion, including on chromosome 2, designated this pun15. The genotypic effects pun15 were investigated using F2 progeny derived (pun15/pun15) × cultivar 'Takanotsume' (Pun1/Pun1) cross. Only pun15-homozygous plants non-pungency; co-segregation between genotypes traits observed. These results demonstrated deficiency associated with present study first to discover gene among pun1 alleles, provides new insights into regulation mechanism peppers.