Genome-wide association study reveals the candidate genes for petiole length and diameter in cucumber

IF 4.2 2区农林科学 Q1 HORTICULTURE

Scientia Horticulturae Pub Date : 2024-03-08 DOI:10.1016/j.scienta.2024.113038

Xiangsheng Li , Shaoyun Dong , Xiaotong Sun , Diane M. Beckles , Xiaoping Liu , Jiantao Guan , Qi Zhou , Congying Zhang , Han Miao , Shengping Zhang

{"title":"Genome-wide association study reveals the candidate genes for petiole length and diameter in cucumber","authors":"Xiangsheng Li , Shaoyun Dong , Xiaotong Sun , Diane M. Beckles , Xiaoping Liu , Jiantao Guan , Qi Zhou , Congying Zhang , Han Miao , Shengping Zhang","doi":"10.1016/j.scienta.2024.113038","DOIUrl":null,"url":null,"abstract":"<div>Increasing planting density is an effective method to improve crop yield. Petiole length is one of the main factors determining how many plants can be effectively cultivated per unit area. However, the genetic factors controlling petiole-related traits remained largely unexplored. In this study, we investigated petiole length (PL) and petiole diameter (PD) in 130 accessions of the cucumber core germplasm which originate from four distinct geographical groups. A Genome-Wide Association Study (GWAS) was performed to identify the genes associated with PL and PD. Three genetic loci for petiole length (gPL4.1, gPL4.2, gPL7.1) were repeatedly detected in three experiments, and a total of seven genetic loci for petiole diameter (gPD2.1, gPD2.2, gPD3.1, gPD6.1, gPD7.1, gPD7.2, gPD7.3) were detected, of which, gPD2.2 was detected in all three experiments. By using haplotype analysis and evaluating gene expression levels, we pinpointed four candidate genes within the regions identified via GWAS. These genes include CsaV3_4G036380 for gPL4.1, CsaV3_4G036610 for gPL4.2, CsaV3_2G014690 for gPD2.2, and CsaV3_7G026710 for gPL7.1/gPD7.2. This study therefore sheds light on the genetic underpinnings of petiole-related traits in cucumbers, providing valuable insights for crop breeding and agricultural practices aimed at maximizing yield through dense planting strategies.</div>","PeriodicalId":21679,"journal":{"name":"Scientia Horticulturae","volume":"330 ","pages":"Article 113038"},"PeriodicalIF":4.2000,"publicationDate":"2024-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Scientia Horticulturae","FirstCategoryId":"97","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S0304423824001973","RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"HORTICULTURE","Score":null,"Total":0}

引用次数: 0

Abstract

Increasing planting density is an effective method to improve crop yield. Petiole length is one of the main factors determining how many plants can be effectively cultivated per unit area. However, the genetic factors controlling petiole-related traits remained largely unexplored. In this study, we investigated petiole length (PL) and petiole diameter (PD) in 130 accessions of the cucumber core germplasm which originate from four distinct geographical groups. A Genome-Wide Association Study (GWAS) was performed to identify the genes associated with PL and PD. Three genetic loci for petiole length (gPL4.1, gPL4.2, gPL7.1) were repeatedly detected in three experiments, and a total of seven genetic loci for petiole diameter (gPD2.1, gPD2.2, gPD3.1, gPD6.1, gPD7.1, gPD7.2, gPD7.3) were detected, of which, gPD2.2 was detected in all three experiments. By using haplotype analysis and evaluating gene expression levels, we pinpointed four candidate genes within the regions identified via GWAS. These genes include CsaV3_4G036380 for gPL4.1, CsaV3_4G036610 for gPL4.2, CsaV3_2G014690 for gPD2.2, and CsaV3_7G026710 for gPL7.1/gPD7.2. This study therefore sheds light on the genetic underpinnings of petiole-related traits in cucumbers, providing valuable insights for crop breeding and agricultural practices aimed at maximizing yield through dense planting strategies.

查看原文本刊更多论文

全基因组关联研究揭示了黄瓜叶柄长度和直径的候选基因

增加种植密度是提高作物产量的有效方法。叶柄长度是决定单位面积可有效栽培多少植株的主要因素之一。然而，控制叶柄相关性状的遗传因素在很大程度上仍未得到探索。在这项研究中，我们调查了黄瓜核心种质 130 个登录品系中的叶柄长度（PL）和叶柄直径（PD），这些登录品系来自四个不同的地理群体。我们进行了全基因组关联研究（GWAS），以确定与叶柄长度和叶柄直径相关的基因。在三个实验中重复检测到了三个叶柄长度基因位点（gPL4.1、gPL4.2、gPL7.1），共检测到了七个叶柄直径基因位点（gPD2.1、gPD2.2、gPD3.1、gPD6.1、gPD7.1、gPD7.2、gPD7.3），其中gPD2.2在所有三个实验中都被检测到。通过单倍型分析和评估基因表达水平，我们在通过 GWAS 确定的区域内找到了四个候选基因。这些基因包括 gPL4.1 的 CsaV3_4G036380、gPL4.2 的 CsaV3_4G036610、gPD2.2 的 CsaV3_2G014690，以及 gPL7.1/gPD7.2 的 CsaV3_7G026710。因此，本研究揭示了黄瓜叶柄相关性状的遗传基础，为作物育种和农业实践提供了有价值的见解，旨在通过密植策略实现产量最大化。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Scientia Horticulturae 农林科学-园艺

CiteScore

8.60

自引率

4.70%

发文量

796

审稿时长

47 days

期刊介绍： Scientia Horticulturae is an international journal publishing research related to horticultural crops. Articles in the journal deal with open or protected production of vegetables, fruits, edible fungi and ornamentals under temperate, subtropical and tropical conditions. Papers in related areas (biochemistry, micropropagation, soil science, plant breeding, plant physiology, phytopathology, etc.) are considered, if they contain information of direct significance to horticulture. Papers on the technical aspects of horticulture (engineering, crop processing, storage, transport etc.) are accepted for publication only if they relate directly to the living product. In the case of plantation crops, those yielding a product that may be used fresh (e.g. tropical vegetables, citrus, bananas, and other fruits) will be considered, while those papers describing the processing of the product (e.g. rubber, tobacco, and quinine) will not. The scope of the journal includes all horticultural crops but does not include speciality crops such as, medicinal crops or forestry crops, such as bamboo. Basic molecular studies without any direct application in horticulture will not be considered for this journal.