Genome wide identification and characterization of MATE family genes in mangrove plants.

IF 16.4 1区化学 Q1 CHEMISTRY, MULTIDISCIPLINARY

Accounts of Chemical Research Pub Date : 2023-06-01 DOI:10.1007/s10709-023-00186-w

M Shijili, Ravisankar Valsalan, Deepu Mathew

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Abstract

Multidrug and Toxic Compound Extrusion (MATE) proteins are essential transporters that extrude metabolites and participate in plant development and cellular detoxification. MATE transporters, which play crucial roles in the survival of mangrove plants under highly challenged environments, by specialized salt extrusion mechanisms, are mined from their genomes and reported here for the first time. Through homology search and domain prediction in the genome assemblies of Avicennia marina, Bruguiera sexangula, Ceriops zippeliana, Kandelia obovata, Rhizophora apiculata and Ceriops tagal, 74, 68, 66, 66, 63 and 64 MATE proteins, respectively were identified. The phylogenetic analysis divided the identified proteins into five major clusters and following the clustering pattern of the functionally characterized proteins, functions of the transporters in each cluster were predicted. Amino acid sequences, exon-intron structure, motif details and subcellular localization pattern for all the 401 proteins are described. The custom designed repeat masking libraries generated for each of these genomes, which will be of extensive use for the researchers worldwide, are also provided in this paper. This is the first study on the MATE genes in mangroves and the results provide comprehensive information on the molecular mechanisms enabling the survival of mangroves under hostile conditions.

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红树林植物MATE家族基因的全基因组鉴定与特征分析。

多药和有毒化合物挤出(MATE)蛋白是挤出代谢物并参与植物发育和细胞解毒的重要转运蛋白。MATE转运体通过特殊的盐挤压机制对红树林植物在高挑战环境下的生存起着至关重要的作用，这是首次从红树林植物的基因组中挖掘出来的。通过对Avicennia marina、Bruguiera sexangula、Ceriops zippeliana、Kandelia obovata、Rhizophora apiculata和Ceriops tagal基因组序列的同源性搜索和结构域预测，分别鉴定出74、68、66、66、63和64个MATE蛋白。系统发育分析将鉴定的蛋白分为5大簇，并按照功能特征蛋白的聚类模式，预测每个簇中转运蛋白的功能。描述了所有401种蛋白的氨基酸序列、外显子-内含子结构、基序细节和亚细胞定位模式。本文还提供了为每个基因组生成的定制设计的重复掩蔽文库，这些文库将广泛用于全世界的研究人员。这是对红树林MATE基因的首次研究，结果为红树林在恶劣条件下生存的分子机制提供了全面的信息。

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来源期刊

Accounts of Chemical Research 化学-化学综合

CiteScore

31.40

自引率

1.10%

发文量

312

审稿时长

2 months

期刊介绍： Accounts of Chemical Research presents short, concise and critical articles offering easy-to-read overviews of basic research and applications in all areas of chemistry and biochemistry. These short reviews focus on research from the author’s own laboratory and are designed to teach the reader about a research project. In addition, Accounts of Chemical Research publishes commentaries that give an informed opinion on a current research problem. Special Issues online are devoted to a single topic of unusual activity and significance. Accounts of Chemical Research replaces the traditional article abstract with an article "Conspectus." These entries synopsize the research affording the reader a closer look at the content and significance of an article. Through this provision of a more detailed description of the article contents, the Conspectus enhances the article's discoverability by search engines and the exposure for the research.