Complete genome sequence and Carbohydrate Active Enzymes (CAZymes) repertoire of Gilvimarinus sp. DA14 isolated from the South China Sea

IF 1.3 4区生物学 Q4 GENETICS & HEREDITY Marine genomics Pub Date : 2022-10-01 DOI:10.1016/j.margen.2022.100982

Qun-Jian Yin , Hong-Zhi Tang , Fang-Chao Zhu , Xu-Yang Chen , De-Wei Cheng , Li-Chang Tang , Xiao-Qing Qi , Xue-Gong Li

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引用次数: 1

Abstract

Gilvimarinus sp. DA14, a putative new species isolated from mangrove sediment in the South China Sea (Beihai, Guangxi province), is an aerobic and heterotrophic agar degrading bacterium. Here, we present the complete genome sequence of strain DA14, which comprises 3.96 Mb sequences with 53.39% GC content. In total, 3391 CDSs, 6 rRNA genes and 44 tRNA genes were obtained. Genomic analysis of strain DA14 revealed that 218 CAZymes classes were identified and they were organized in 371 CAZymes in PULs involved in polysaccharides degradation, transport and regulation. Further, we performed the genome comparison among Gilvimarinus strains and analysis the diversity of CAZymes and PULs. Meanwhile, ability of agar and alginate degradation in strain DA14 were analyzed. This study represents a thorough genomic characterization of CAZymes repertoire of Gilvimarinus, provides insight into diversity of polysaccharide degrading enzymes existing in Gilvimarinus sp. DA14 and their biotechnological applications.

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南海Gilvimarinus sp. DA14的全基因组序列和碳水化合物活性酶库(CAZymes

Gilvimarinus sp. DA14是一种需氧异养琼脂降解细菌，是一种从南海(广西北海)红树林沉积物中分离出来的新种。在这里，我们展示了菌株DA14的全基因组序列，包含3.96 Mb序列，GC含量为53.39%。共获得CDSs 3391个，rRNA基因6个，tRNA基因44个。对菌株DA14进行基因组分析，鉴定出218个CAZymes类，并将其归类为参与多糖降解、运输和调控的371个CAZymes类。此外，我们对Gilvimarinus菌株进行了基因组比较，并分析了CAZymes和PULs的多样性。同时对菌株DA14对琼脂和海藻酸盐的降解能力进行了分析。本研究为Gilvimarinus sp. DA14中存在的多糖降解酶的多样性及其生物技术应用提供了全面的基因组特征，为Gilvimarinus sp. DA14中多糖降解酶的多样性及其生物技术应用提供了依据。

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来源期刊

Marine genomics 生物-遗传学

CiteScore

3.60

自引率

5.30%

发文量

审稿时长

29 days

期刊介绍： The journal publishes papers on all functional and evolutionary aspects of genes, chromatin, chromosomes and (meta)genomes of marine (and freshwater) organisms. It deals with new genome-enabled insights into the broader framework of environmental science. Topics within the scope of this journal include: • Population genomics and ecology • Evolutionary and developmental genomics • Comparative genomics • Metagenomics • Environmental genomics • Systems biology More specific topics include: geographic and phylogenomic characterization of aquatic organisms, metabolic capacities and pathways of organisms and communities, biogeochemical cycles, genomics and integrative approaches applied to microbial ecology including (meta)transcriptomics and (meta)proteomics, tracking of infectious diseases, environmental stress, global climate change and ecosystem modelling.