Genome-wide identification and expression analysis of the universal stress protein (USP) gene family in Arabidopsis thaliana, Zea mays, and Oryza sativa.

IF 1.3 4区 生物学 Q4 GENETICS & HEREDITY
Genetica Pub Date : 2024-06-01 Epub Date: 2024-05-24 DOI:10.1007/s10709-024-00209-0
Mingxia Fan, Song Gao, Yating Yang, Shuang Yang, He Wang, Lei Shi
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Abstract

The Universal Stress Protein (USP) primarily participates in cellular responses to biotic and abiotic stressors, playing a pivotal role in plant growth, development, and Stress responses to adverse environmental conditions. Totals of 23, 26 and 26 USP genes were recognized in Arabidopsis thaliana, Zea mays, and Oryza sativa, respectively. According to USP genes physicochemical properties, proteins from USP I class were identified as hydrophilic proteins with high stability. Based on phylogenetic analysis, USP genes family were classified into nine groups, USP II were rich in motifs. Additionally, members of the same subgroup exhibited similar numbers of introns/exons, and shared conserved domains, indicating close evolutionary relationships. Motif analysis results demonstrated a high degree of conservation among USP genes. Chromosomal distribution suggested that USP genes might have undergone gene expansion through segmental duplication in Arabidopsis thaliana, Zea mays, and Oryza sativa. Most Ka/Ks ratios were found to be less than 1, suggesting that USP genes in Arabidopsis thaliana, Zea mays, and Oryza sativa have experienced purifying selection. Expression profile analysis revealed that USP genes primarily respond to drought stress in Oryza sativa, temperature, and drought stress in Zea mays, and cold stress in Arabidopsis thaliana. Gene collinearity analysis can reveal correlations between genes, aiding subsequent in-depth investigations. This study sheds new light on the evolution of USP genes in monocots and dicots and lays the foundation for a better understanding of the biological functions of the USP genes family.

Abstract Image

拟南芥、玉米和大豆中通用应激蛋白(USP)基因家族的全基因组鉴定和表达分析。
通用应激蛋白(USP)主要参与细胞对生物和非生物应激源的反应,在植物生长、发育和对不利环境条件的应激反应中起着关键作用。拟南芥、玉米和大豆中分别发现了 23、26 和 26 个 USP 基因。根据 USP 基因的理化特性,USP I 类蛋白被鉴定为具有高稳定性的亲水蛋白。根据系统进化分析,USP 基因家族被分为九个类群,其中 USP II 类含有丰富的基序。此外,同一亚群的成员具有相似的内含子/外显子数量,并共享保守结构域,表明其进化关系密切。基调分析结果表明,USP 基因之间具有高度的保守性。染色体分布表明,拟南芥、玉米和大豆中的 USP 基因可能是通过片段复制实现基因扩增的。大部分基因的 Ka/Ks 比值小于 1,这表明拟南芥、玉米和黑麦中的 USP 基因经历了纯化选择。表达谱分析显示,USP 基因主要响应拟南芥的干旱胁迫、玉米的温度和干旱胁迫以及拟南芥的冷胁迫。基因共线性分析可以揭示基因之间的相关性,有助于后续的深入研究。这项研究为USP基因在单子叶植物和双子叶植物中的进化提供了新的线索,为更好地了解USP基因家族的生物学功能奠定了基础。
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来源期刊
Genetica
Genetica 生物-遗传学
CiteScore
2.70
自引率
0.00%
发文量
32
审稿时长
>12 weeks
期刊介绍: Genetica publishes papers dealing with genetics, genomics, and evolution. Our journal covers novel advances in the fields of genomics, conservation genetics, genotype-phenotype interactions, evo-devo, population and quantitative genetics, and biodiversity. Genetica publishes original research articles addressing novel conceptual, experimental, and theoretical issues in these areas, whatever the taxon considered. Biomedical papers and papers on breeding animal and plant genetics are not within the scope of Genetica, unless framed in an evolutionary context. Recent advances in genetics, genomics and evolution are also published in thematic issues and synthesis papers published by experts in the field.
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