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

IF 1.3 4区生物学 Q4 GENETICS & HEREDITY

Genetica Pub Date : 2023-06-01 DOI:10.1007/s10709-023-00186-w

M Shijili, Ravisankar Valsalan, Deepu Mathew

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引用次数: 0

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。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genetica 生物-遗传学

CiteScore

2.70

自引率

0.00%

发文量

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.