Identification of candidate genes associated with peanut pod length by combined analysis of QTL-seq and RNA-seq

IF 3.4 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics Pub Date : 2024-03-22 DOI:10.1016/j.ygeno.2024.110835

Zhenghao Lv , Guohu Lan , Baiyi Bai , Penghao Yu , Chuantang Wang , He Zhang , Chao Zhong , Xinhua Zhao , Haiqiu Yu

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引用次数: 0

Abstract

Pod length (PL) is one of the major traits determining pod size and yield of peanut. Discovering the quantitative trait loci (QTL) and identifying candidate genes associated with PL are essential for breeding high-yield peanut. In this study, quantitative trait loci sequencing (QTL-seq) was performed using the F₂ population constructed by a short-pod variety Tifrunner (Tif) and a long-pod line Lps, and a 0.77 Mb genomic region on chromosome 07 was identified as the candidate region for PL. Then, the candidate region was narrowed to a 265.93 kb region by traditional QTL approach. RNA-seq analysis showed that there were four differentially expressed genes (DEGs) in the candidate region, among which Arahy.PF2L6F (AhCDC48) and Arahy.P4LK2T (AhTAA1) were speculated to be PL-related candidate genes. These results were informative for the elucidation of the underlying regulatory mechanism in peanut pod length and would facilitate further identification of valuable target genes.

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通过 QTL-seq 和 RNA-seq 联合分析鉴定与花生荚果长度相关的候选基因。

豆荚长度（PL）是决定花生豆荚大小和产量的主要性状之一。发现数量性状位点（QTL）和鉴定与荚果长度相关的候选基因对于培育高产花生至关重要。本研究利用短荚品种Tifrunner（Tif）和长荚品系Lps构建的F2群体进行了数量性状位点测序（QTL-seq），确定了07号染色体上0.77 Mb的基因组区域为PL的候选区域。然后，通过传统的 QTL 方法将候选区域缩小到 265.93 kb 区域。RNA-seq分析表明，候选区域内有4个差异表达基因（DEGs），其中Arahy.PF2L6F（AhCDC48）和Arahy.P4LK2T（AhTAA1）被推测为与PL相关的候选基因。这些结果对阐明花生荚果长度的潜在调控机制具有参考价值，并有助于进一步鉴定有价值的目标基因。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genomics 生物-生物工程与应用微生物

CiteScore

9.60

自引率

2.30%

发文量

260

审稿时长

60 days

期刊介绍： Genomics is a forum for describing the development of genome-scale technologies and their application to all areas of biological investigation. As a journal that has evolved with the field that carries its name, Genomics focuses on the development and application of cutting-edge methods, addressing fundamental questions with potential interest to a wide audience. Our aim is to publish the highest quality research and to provide authors with rapid, fair and accurate review and publication of manuscripts falling within our scope.