小麦(Triticum aestivum L.)菱形样基因家族的全基因组鉴定、基因表达和单倍型分析。

IF 3.9 2区 生物学 Q1 GENETICS & HEREDITY Plant Genome Pub Date : 2024-06-01 Epub Date: 2024-02-13 DOI:10.1002/tpg2.20435
Yanyan Zhang, Xiaoya Huang, Long Zhang, Weidong Gao, Jingfu Ma, Tao Chen, Delong Yang
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引用次数: 0

摘要

Rhomboid-like(RBL)基因编码丝氨酸蛋白酶,在应对细胞发育和各种胁迫方面发挥着重要作用。然而,在小麦(Triticum aestivum L.)中尚未对 RBL 家族基因进行全基因组鉴定、表达谱分析和单倍型分析。本研究通过基因结构分析、进化关系分析、启动子顺式作用元件分析、表达模式分析和单倍型分析等多种方法,研究了小麦基因组中RBL家族基因的系统发育和多样性。在小麦基因组中鉴定出41个TaRBL基因,并将其分为五个亚家族。通过分段复制和纯化选择,扩增了RBL家族基因。顺式元素分析表明,这些基因参与了各种胁迫反应和植物发育。RNA-seq和real-time-PCR定量分析结果表明,TaRBL基因在发育中的穗/粒中表达水平较高,并在聚乙二醇、氯化钠和脱落酸处理下受到差异调控,表明它们在谷粒发育和非生物胁迫响应中的作用。我们开发了一种竞争性等位基因特异性PCR分子标记,以确认263个小麦品种中TaRBL14a基因的单核苷酸多态性。我们发现,精英单倍型TaRBL14a-Hap2在至少三种环境中的千粒重显著高于TaRBL14a-Hap11,TaRBL14a-Hap2在小麦育种中被积极选育。这些发现将有助于深入了解小麦TaRBL基因家族的进化和功能特征,为今后探索TaRBL基因在植物生长发育中的调控机制及其对非生物胁迫的响应奠定基础。
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Genome-wide identification, gene expression and haplotype analysis of the rhomboid-like gene family in wheat (Triticum aestivum L.).

The rhomboid-like (RBL) gene encodes serine protease, which plays an important role in the response to cell development and diverse stresses. However, genome-wide identification, expression profiles, and haplotype analysis of the RBL family genes have not been performed in wheat (Triticum aestivum L.). This study investigated the phylogeny and diversity of the RBL family genes in the wheat genome through various approaches, including gene structure analysis, evolutionary relationship analysis, promoter cis-acting element analysis, expression pattern analysis, and haplotype analysis. The 41 TaRBL genes were identified and divided into five subfamilies in the wheat genome. RBL family genes were expanded through segmented duplication and purification selection. The cis-element analysis revealed their involvement in various stress responses and plant development. The results of RNA-seq and quantitative real-time-PCR showed that TaRBL genes displayed higher expression levels in developing spike/grain and were differentially regulated under polyethylene glycol, NaCl, and abscisic acid treatments, indicating their roles in grain development and abiotic stress response. A kompetitive allele-specific PCR molecular marker was developed to confirm the single nucleotide polymorphism of TaRBL14a gene in 263 wheat accessions. We found that the elite haplotype TaRBL14a-Hap2 showed a significantly higher 1000-grain weight than TaRBL14a-Hap11 in at least three environments, and the TaRBL14a-Hap2 was positively selected in wheat breeding. The findings will provide a good insight into the evolutionary and functional characteristics of the TaRBL genes family in wheat and lay the foundation for future exploration of the regulatory mechanisms of TaRBL genes in plant growth and development, as well as their response to abiotic stresses.

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来源期刊
Plant Genome
Plant Genome PLANT SCIENCES-GENETICS & HEREDITY
CiteScore
6.00
自引率
4.80%
发文量
93
审稿时长
>12 weeks
期刊介绍: The Plant Genome publishes original research investigating all aspects of plant genomics. Technical breakthroughs reporting improvements in the efficiency and speed of acquiring and interpreting plant genomics data are welcome. The editorial board gives preference to novel reports that use innovative genomic applications that advance our understanding of plant biology that may have applications to crop improvement. The journal also publishes invited review articles and perspectives that offer insight and commentary on recent advances in genomics and their potential for agronomic improvement.
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