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绿豆(Vigna radiata L.)B -box 基因家族的全基因组鉴定、分子进化和表达分析。

Genome-wide identification, molecular evolution and expression analysis of the B-box gene family in mung bean (Vigna radiata L.).

机构信息

College of Agronomy and Life Sciences, Shanxi Datong University, Datong, 037009, People's Republic of China.

School of Landscape and Ecological Engineering, Hebei University of Engineering, Handan, 056038, People's Republic of China.

出版信息

BMC Plant Biol. 2024 Jun 12;24(1):532. doi: 10.1186/s12870-024-05236-9.

Abstract

BACKGROUND

Mung bean (Vigna radiata L.) is an important warm-season grain legume. Adaptation to extreme environmental conditions, supported by evolution, makes mung bean a rich gene pool for stress tolerance traits. The exploration of resistance genes will provide important genetic resources and a theoretical basis for strengthening mung bean breeding. B-box (BBX) proteins play a major role in developmental processes and stress responses. However, the identification and analysis of the mung bean BBX gene family are still lacking.

RESULTS

In this study, 23 VrBBX genes were identified through comprehensive bioinformatics analysis and named based on their physical locations on chromosomes. All the VrBBXs were divided into five groups based on their phylogenetic relationships, the number of B-box they contained and whether there was an additional CONSTANS, CO-like and TOC1 (CCT) domain. Homology and collinearity analysis indicated that the BBX genes in mung bean and other species had undergone a relatively conservative evolution. Gene duplication analysis showed that only chromosomal segmental duplication contributed to the expansion of VrBBX genes and that most of the duplicated gene pairs experienced purifying selection pressure during evolution. Gene structure and motif analysis revealed that VrBBX genes clustered in the same group shared similar structural characteristics. An analysis of cis-acting elements indicated that elements related to stress and hormone responses were prevalent in the promoters of most VrBBXs. The RNA-seq data analysis and qRT-PCR of nine VrBBX genes demonstrated that VrBBX genes may play a role in response to environmental stress. Moreover, VrBBX5, VrBBX10 and VrBBX12 are important candidate genes for plant stress response.

CONCLUSIONS

In this study, we systematically analyzed the genomic characteristics and expression patterns of the BBX gene family under ABA, PEG and NaCl treatments. The results will help us better understand the complexity of the BBX gene family and provide valuable information for future functional characteristics of specific genes in this family.

摘要

背景

绿豆(Vigna radiata L.)是一种重要的喜温粮用豆。通过进化,绿豆适应极端环境条件,使其成为抗逆性性状的丰富基因库。对抗性基因的探索将为加强绿豆育种提供重要的遗传资源和理论基础。B-box(BBX)蛋白在发育过程和应激反应中起着重要作用。然而,绿豆 BBX 基因家族的鉴定和分析仍较为缺乏。

结果

本研究通过综合生物信息学分析,鉴定出 23 个 VrBBX 基因,并根据其在染色体上的物理位置进行命名。基于系统发育关系、所含 B-box 数量以及是否存在额外的 CONSTANS、CO-like 和 TOC1(CCT)结构域,将所有的 VrBBX 分为五个亚家族。同源性和共线性分析表明,绿豆和其他物种的 BBX 基因经历了相对保守的进化。基因复制分析表明,只有染色体片段复制促进了 VrBBX 基因的扩张,并且大多数复制基因对在进化过程中经历了纯化选择压力。基因结构和基序分析表明,在同一组中聚类的 VrBBX 基因具有相似的结构特征。顺式作用元件分析表明,大多数 VrBBX 启动子中存在与应激和激素反应相关的元件。对 9 个 VrBBX 基因的 RNA-seq 数据和 qRT-PCR 分析表明,VrBBX 基因可能在应对环境胁迫中发挥作用。此外,VrBBX5、VrBBX10 和 VrBBX12 是植物应激反应的重要候选基因。

结论

本研究系统分析了 BBX 基因家族在 ABA、PEG 和 NaCl 处理下的基因组特征和表达模式。研究结果有助于更好地理解 BBX 基因家族的复杂性,并为该家族特定基因的功能特性研究提供有价值的信息。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1777/11167828/a338df025a6b/12870_2024_5236_Fig1_HTML.jpg

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