Rhodobacteraceae 是海洋生物絮团水产养殖中常见的生态关键细菌成员。

IF 3.3 4区 生物学 Q2 MICROBIOLOGY
Journal of Microbiology Pub Date : 2024-11-01 Epub Date: 2024-11-15 DOI:10.1007/s12275-024-00187-0
Meora Rajeev, Jang-Cheon Cho
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引用次数: 0

摘要

生物絮团是主要由异养细菌组成的微生物聚集体,在维持生物絮团水产养殖系统中的动物健康、肠道微生物群和水质方面发挥着重要的生态作用。尽管全球都在采用生物絮团养殖虾和鱼,但我们对生物絮团微生物群,特别是主要细菌成员及其生态功能的了解仍然有限。在这项研究中,我们采用了元分类学和元基因组学的综合方法来证明,低等变形菌属的罗多杆菌科一直在生物絮团微生物群中占主导地位,并发挥着重要的生态作用。我们首先分析了一个由 200 个 16S rRNA 基因扩增子组成的综合元分类数据集,这些扩增子采集自三个亚洲国家:我们首先分析了在韩国、中国和越南三个亚洲国家收集的 200 个 16S rRNA 基因扩增片段组成的综合元分类数据集。分类学调查发现,罗氏杆菌科(Rhodobacteraceae)是所有数据集中占优势且一致的细菌成员。通过元基因组学方法,包括读数分类和读数招募分析,进一步验证了该类群的优势地位。为了探索罗杆菌科细菌的生态作用,我们采用了以基因组为中心的元基因组学方法,重建了 45 个元基因组组装的基因组。对这些基因组进行功能注释后发现,罗氏杆菌科的优势菌属,如 Marivita、Ruegeria、Dinoroseobacter 和 Aliiroseovarius,参与了重要的生态过程,包括复杂碳水化合物降解、需氧反硝化、同化硝酸盐还原、氨同化和硫氧化。总之,我们的研究表明,在生物絮团水产养殖系统中添加碳水化合物的常见做法促进了特定异养细菌群落的生长,尤其是罗氏杆菌科细菌。这些细菌通过清除有毒的氮和硫化合物来维持水质,并通过定植肠道微生物群和发挥益生作用来增强动物健康。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Rhodobacteraceae are Prevalent and Ecologically Crucial Bacterial Members in Marine Biofloc Aquaculture.

Bioflocs are microbial aggregates primarily composed of heterotrophic bacteria that play essential ecological roles in maintaining animal health, gut microbiota, and water quality in biofloc aquaculture systems. Despite the global adoption of biofloc aquaculture for shrimp and fish cultivation, our understanding of biofloc microbiota-particularly the dominant bacterial members and their ecological functions-remains limited. In this study, we employed integrated metataxonomic and metagenomic approaches to demonstrate that the family Rhodobacteraceae of Alphaproteobacteria consistently dominates the biofloc microbiota and plays essential ecological roles. We first analyzed a comprehensive metataxonomic dataset consisting of 200 16S rRNA gene amplicons collected across three Asian countries: South Korea, China, and Vietnam. Taxonomic investigation identified Rhodobacteraceae as the dominant and consistent bacterial members across the datasets. The predominance of this taxon was further validated through metagenomics approaches, including read taxonomy and read recruitment analyses. To explore the ecological roles of Rhodobacteraceae, we applied genome-centric metagenomics, reconstructing 45 metagenome-assembled genomes. Functional annotation of these genomes revealed that dominant Rhodobacteraceae genera, such as Marivita, Ruegeria, Dinoroseobacter, and Aliiroseovarius, are involved in vital ecological processes, including complex carbohydrate degradation, aerobic denitrification, assimilatory nitrate reduction, ammonium assimilation, and sulfur oxidation. Overall, our study reveals that the common practice of carbohydrate addition in biofloc aquaculture systems fosters the growth of specific heterotrophic bacterial communities, particularly Rhodobacteraceae. These bacteria contribute to maintaining water quality by removing toxic nitrogen and sulfur compounds and enhance animal health by colonizing gut microbiota and exerting probiotic effects.

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来源期刊
Journal of Microbiology
Journal of Microbiology 生物-微生物学
CiteScore
5.70
自引率
3.30%
发文量
0
审稿时长
3 months
期刊介绍: Publishes papers that deal with research on microorganisms, including archaea, bacteria, yeasts, fungi, microalgae, protozoa, and simple eukaryotic microorganisms. Topics considered for publication include Microbial Systematics, Evolutionary Microbiology, Microbial Ecology, Environmental Microbiology, Microbial Genetics, Genomics, Molecular Biology, Microbial Physiology, Biochemistry, Microbial Pathogenesis, Host-Microbe Interaction, Systems Microbiology, Synthetic Microbiology, Bioinformatics and Virology. Manuscripts dealing with simple identification of microorganism(s), cloning of a known gene and its expression in a microbial host, and clinical statistics will not be considered for publication by JM.
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