Fine mapping of TFL, a major gene regulating fruit length in snake gourd (Trichosanthes anguina L)

TL;DR

This study identifies a key gene, TFL, that controls fruit length in snake gourd, offering a tool for breeding programs.

Contribution

The study identifies TFL as a major gene regulating fruit length in snake gourd through fine mapping and functional analysis.

Findings

TFL is located on chromosome 4 in a 18.9-kb interval and is associated with fruit length variation.

A non-synonymous mutation in TFL leads to amino acid substitution, potentially affecting fruit length.

TFL expression is higher in short fruits, suggesting its regulatory role in determining fruit length.

Abstract

Fruit length is a crucial agronomic trait of snake gourd (Trichosanthes anguina L); however, genes associated with fruit length have not been characterised. In this study, F2 snake gourd populations were generated by crossing the inbred lines, S1 and S2 (fruit lengths: 110 and 20 cm, respectively). Subsequently, bulk segregant analysis, sequencing, and fine-mapping were performed on the F2 population to identify target genes. Our findings suggest that the fruit length of snake gourd is regulated by a major-effect regulatory gene. Mining of genes regulating fruit length in snake gourd to provide a basis for subsequent selection and breeding of new varieties. Genotype-phenotype association analysis was performed on the segregating F2 population comprising 6,000 plants; the results indicate that the target gene is located on Chr4 (61,846,126–61,865,087 bp, 18.9-kb interval), which only carries the annotated candidate gene, Tan0010544 (designated TFL). TFL belongs to the MADS-box family, one of the largest transcription factor families. Sequence analysis revealed a non-synonymous mutation of base C to G at position 202 in the coding sequence of TFL, resulting in the substitution of amino acid Gln to Glu at position 68 in the protein sequence. Subsequently, an InDel marker was developed to aid the marker-assisted selection of TFL. The TFL in the expression parents within the same period was analysed using quantitative real-time PCR; the TFL expression was significantly higher in short fruits than long fruits. Therefore, TFL can be a candidate gene for determining the fruit length in snake gourd. Collectively, these findings improve our understanding of the genetic components associated with fruit length in snake gourds, which could aid the development of enhanced breeding strategies for plant species.

The online version contains supplementary material available at 10.1186/s12870-024-04952-6.

Figures