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全基因组鉴定和不同采后贮藏时间的基因家族表达分析。

Genome-Wide Identification of Gene Family in and Expression Analysis at Different Postharvest Preservation Times.

机构信息

Key Laboratory of Beibu Gulf Environment Change and Resources Utilization of Ministry of Education, Nanning Normal University, Nanning 530001, China.

College of Life Sciences, Northeast Agricultural University, Harbin 150030, China.

出版信息

Genes (Basel). 2024 Jul 12;15(7):911. doi: 10.3390/genes15070911.

Abstract

Ascorbate peroxidase (APX) is a crucial enzyme involved in cellular antioxidant defense and plays a pivotal role in modulating reactive oxygen species (ROS) levels under various environmental stresses in plants. This study utilized bioinformatics methods to identify and analyze the gene family of pomelo, while quantitative real-time PCR (qRT-PCR) was employed to validate and analyze the expression of at different stages of fruit postharvest. This study identified 96 members of the family in the entire pomelo genome, with uneven distribution across nine chromosomes and occurrences of gene fragment replication. The subcellular localization includes peroxisome, cytoplasm, chloroplasts, and mitochondria. The family exhibits a similar gene structure, predominantly consisting of two exons. An analysis of the upstream promoter regions revealed a significant presence of cis-acting elements associated with light (Box 4, G-Box), hormones (ABRE, TCA-element), and stress-related (MBS, LTR, ARE) responses. Phylogenetic and collinearity analyses revealed that the gene family can be classified into three subclasses, with seven collinear gene pairs. Furthermore, are closely related to citrus, pomelo, and lemon, followed by Arabidopsis, and exhibit low homology with rice. Additionally, the transcriptomic heat map and qPCR results revealed that the expression levels of , , , , , and were positively correlated with granulation degree, indicating the activation of the endogenous stress resistance system in pomelo cells by these genes, thereby conferring resistance to ROS. This finding is consistent with the results of GO enrichment analysis. Furthermore, 38 miRNAs were identified as potential regulators targeting the family for post-transcriptional regulation. Thus, this study has preliminarily characterized members of the gene family in pomelo and provided valuable insights for further research on their antioxidant function and molecular mechanism.

摘要

抗坏血酸过氧化物酶(APX)是一种参与细胞抗氧化防御的关键酶,在植物各种环境胁迫下调节活性氧(ROS)水平中发挥关键作用。本研究利用生物信息学方法鉴定和分析了柚子的基因家族,同时利用定量实时 PCR(qRT-PCR)验证和分析了该基因在果实采后不同阶段的表达。本研究在整个柚子基因组中鉴定出 96 个 基因家族成员,它们不均匀分布在九条染色体上,并存在基因片段复制。亚细胞定位包括过氧化物酶体、细胞质、叶绿体和线粒体。该基因家族表现出相似的基因结构,主要由两个外显子组成。对上游启动子区域的分析表明,存在与光(框 4,G-Box)、激素(ABRE、TCA 元件)和应激相关(MBS、LTR、ARE)反应相关的顺式作用元件。系统发育和共线性分析表明, 基因家族可以分为三个亚类,有七个共线性基因对。此外, 与柑橘、柚子和柠檬密切相关,其次是拟南芥,与水稻的同源性较低。此外,转录组热图和 qPCR 结果表明, 、 、 、 、和 的表达水平与粒化程度呈正相关,表明这些基因激活了柚子细胞的内源性应激抵抗系统,从而赋予了 ROS 抗性。这一发现与 GO 富集分析的结果一致。此外,鉴定出 38 个 miRNA 作为潜在的调控因子,靶向 家族进行转录后调控。因此,本研究初步鉴定了柚子 基因家族的成员,为进一步研究其抗氧化功能和分子机制提供了有价值的信息。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9080/11276291/e0e9a8118b05/genes-15-00911-g001.jpg

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