An advanced 10K SNP panel for genotyping tomato (<i>Solanum lycopersicum</i> L.) via targeted genome sequencing.

ABSTRACT:

Introduction

Recent breakthroughs in genomics have facilitated the identification of single nucleotide polymorphisms (SNPs) and small insertions-deletions (InDels). With the reduction in sequencing costs, a variety of genotyping tools have emerged for genetic analysis in plants. However, there is a significant need for an effective and affordable tool that combines both foreground and background sites.

Methods

To meet this requirement in tomatoes, four SNP databases accounting for 12,442 SNPs were integrated with 186 trait-specific markers. A total of 335 tomato samples were used for the genotyping by target sequencing analysis. A series of criteria were performed for site selection and for assessing the sequencing data effectiveness.

Results and discussion

The panel

SUBMITTER: Adedze YMN 

PROVIDER: S-EPMC12133979 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature