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大豆同源基因家族的全基因组鉴定以及GmALKBH10Bs作为RNA mA去甲基化酶的功能表征和非生物胁迫下的表达模式

Genome-Wide Identification of the Soybean Homologue Gene Family and Functional Characterization of GmALKBH10Bs as RNA mA Demethylases and Expression Patterns under Abiotic Stress.

作者信息

Zhao Jie, Yang Tengfeng, Liu Peng, Liu Huijie, Zhang Hui, Guo Sichao, Liu Xiaoye, Chen Xiaoguang, Chen Mingjia

机构信息

College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China.

Department of Criminal Science and Technology, Nanjing Police University, Nanjing 210023, China.

出版信息

Plants (Basel). 2024 Sep 5;13(17):2491. doi: 10.3390/plants13172491.

DOI:10.3390/plants13172491
PMID:39273973
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11397283/
Abstract

Soybean ( (L.) Merr) is one of the most important crops worldwide, but its yield is vulnerable to abiotic stresses. In Arabidopsis, the AlkB homologue (ALKBH) family genes plays a crucial role in plant development and stress response. However, the identification and functions of its homologous genes in soybean remain obscured. Here, we identified a total of 22 genes in soybean and classified them into seven subfamilies according to phylogenetic analysis. Gene duplication events among the family members and gene structure, conserved domains, and motifs of all candidate genes were analyzed. By comparing the changes in the mA levels on mRNA from hair roots between soybean seedlings harboring the empty vector and those harboring the GmALKBH10B protein, we demonstrated that all four GmALKBH10B proteins are mA RNA demethylases in vivo. Subcellular localization and expression patterns of the GmALKBH10B revealed that they might be functionally redundant. Furthermore, an analysis of -elements coupled with gene expression data demonstrated that subfamily genes, including , , , and , are likely involved in the -elements' response to various environmental stimuli. In summary, our study is the first to report the genome-wide identification of family genes in soybean and to determine the function of GmALKBH10B proteins as mA RNA demethylases, providing insights into genes in response to abiotic stresses.

摘要

大豆(Glycine max (L.) Merr)是全球最重要的作物之一,但其产量易受非生物胁迫影响。在拟南芥中,AlkB同源物(ALKBH)家族基因在植物发育和胁迫响应中起关键作用。然而,其在大豆中的同源基因的鉴定和功能仍不清楚。在此,我们在大豆中总共鉴定出22个基因,并根据系统发育分析将它们分为七个亚家族。分析了家族成员之间的基因复制事件以及所有候选基因的基因结构、保守结构域和基序。通过比较携带空载体的大豆幼苗和携带GmALKBH10B蛋白的大豆幼苗毛根mRNA上的mA水平变化,我们证明所有四种GmALKBH10B蛋白在体内都是mA RNA去甲基化酶。GmALKBH10B的亚细胞定位和表达模式表明它们可能在功能上是冗余的。此外,对顺式作用元件与基因表达数据的分析表明,包括GmALKBH2、GmALKBH3、GmALKBH6和GmALKBH9在内的亚家族基因可能参与顺式作用元件对各种环境刺激的响应。总之,我们的研究首次报道了大豆中ALKBH家族基因的全基因组鉴定,并确定了GmALKBH10B蛋白作为mA RNA去甲基化酶的功能,为ALKBH基因响应非生物胁迫提供了见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/602faa16003e/plants-13-02491-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/70a1463c53d0/plants-13-02491-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/5a5e2290c133/plants-13-02491-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/51b2b2a6ecc5/plants-13-02491-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/454521b8d168/plants-13-02491-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/8c17a137d8ca/plants-13-02491-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/89e8c0badb1f/plants-13-02491-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/602faa16003e/plants-13-02491-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/70a1463c53d0/plants-13-02491-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/5a5e2290c133/plants-13-02491-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/51b2b2a6ecc5/plants-13-02491-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/454521b8d168/plants-13-02491-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/8c17a137d8ca/plants-13-02491-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/89e8c0badb1f/plants-13-02491-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2a80/11397283/602faa16003e/plants-13-02491-g007.jpg

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