全基因组关联研究和选择性扫描分析发现了控制花椰菜凝乳枝长度的候选基因。

IF 4.4 1区 农林科学 Q1 AGRONOMY Theoretical and Applied Genetics Pub Date : 2024-08-28 DOI:10.1007/s00122-024-04719-5
Yingxia Yang, Yutong Guo, Jing Wang, Wenjuan Cheng, Mingjie Lyu, Qian Wang, Jianjin Wu, Mingyan Hua, Weihua Zhang, Deling Sun, Xianhong Ge, Xingwei Yao, Rui Chen
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摘要

菜花是芸薹属植物中的一个独特亚种,因为它有专门的可食用花器官。花椰菜的凝乳是由增大的花序分生组织组成的,通过一系列精确的分子调控发育而成。仅根据凝乳的坚固程度,花椰菜一般被分为两类(紧密凝乳和松散凝乳),其中凝乳分枝长度是决定凝乳形态差异的关键参数。为了解凝乳枝发育的遗传基础,我们利用代表花椰菜两个类群的共 298 个近交系,对其致病基因和调控机制进行了全面研究。系统发育和种群结构分析表明,两个亚群可进一步划分为紧密型凝乳枝组和松散型凝乳枝组。综合基因型和表型数据,我们对凝乳最外层分支(LOB)和次生分支(LSB)的长度进行了全基因组关联研究。研究发现了 64 个与凝乳枝条发育高度相关的重要基因位点。全基因组选择性扫描分析(FST 和 XP-EHH)的证据将 8 号染色体上的主要信号缩小到约 79 kb 的区域,该区域编码 11 个蛋白质编码基因。经过进一步的单倍型分析、转录组分析和基因表达验证,我们最终推断,作为 AtARR9 的同源对应基因,BOB08G028680 可能是同时调控花椰菜 LOB 和 LSB 性状的因果基因。这一结果为今后花椰菜育种中改善凝乳坚实性提供了宝贵的信息。
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Genome-wide association study and selective sweep analysis uncover candidate genes controlling curd branch length in cauliflower.

Cauliflower is a distinct subspecies of the Brassica oleracea plants due to its specialized and edible floral organ. Cauliflower curd is composed of enlarged inflorescence meristems that developed by a series of precise molecular regulations. Based solely on the curd solidity, cauliflower is generally classified into two groups (compact-curd and loose-curd), where curd branch length acts as a crucial parameter to determine the curd morphological difference. Herein, to understand the genetic basis of curd branch development, we utilized a total of 298 inbred lines representing two groups of cauliflower to comprehensively investigate the causal genes and regulatory mechanisms. Phylogenetic and population structure analyses revealed that two subgroups could be further categorized into the compact-curd and the loose-curd groups, respectively. Integrating the genotype and phenotype data, we conducted a genome-wide association study for the length of the outermost branch (LOB) and secondary branch (LSB) of the curd. Sixty-four significant loci were identified that are highly associated with curd branch development. Evidence from genome-wide selective sweep analysis (FST and XP-EHH) narrowed down the major signal on chromosome 8 into an approximately 79 kb region which encodes eleven protein-coding genes. After further analysis of haplotypes, transcriptome profiling, and gene expression validation, we finally inferred that BOB08G028680, as a homologous counterpart of AtARR9, might be the causal gene for simultaneously regulating LOB and LSB traits in cauliflower. This result provides valuable information for improving curd solidity in future cauliflower breeding.

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来源期刊
CiteScore
9.60
自引率
7.40%
发文量
241
审稿时长
2.3 months
期刊介绍: Theoretical and Applied Genetics publishes original research and review articles in all key areas of modern plant genetics, plant genomics and plant biotechnology. All work needs to have a clear genetic component and significant impact on plant breeding. Theoretical considerations are only accepted in combination with new experimental data and/or if they indicate a relevant application in plant genetics or breeding. Emphasizing the practical, the journal focuses on research into leading crop plants and articles presenting innovative approaches.
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