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单细胞基因组学揭示了海洋海绵中 poribacterial 共生体的复杂碳水化合物降解模式。

Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges.

机构信息

Department of Botany II, Julius-von-Sachs Institute for Biological Sciences, University of Wuerzburg, Wuerzburg, Germany.

出版信息

ISME J. 2013 Dec;7(12):2287-300. doi: 10.1038/ismej.2013.111. Epub 2013 Jul 11.


DOI:10.1038/ismej.2013.111
PMID:23842652
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3834845/
Abstract

Many marine sponges are hosts to dense and phylogenetically diverse microbial communities that are located in the extracellular matrix of the animal. The candidate phylum Poribacteria is a predominant member of the sponge microbiome and its representatives are nearly exclusively found in sponges. Here we used single-cell genomics to obtain comprehensive insights into the metabolic potential of individual poribacterial cells representing three distinct phylogenetic groups within Poribacteria. Genome sizes were up to 5.4 Mbp and genome coverage was as high as 98.5%. Common features of the poribacterial genomes indicated that heterotrophy is likely to be of importance for this bacterial candidate phylum. Carbohydrate-active enzyme database screening and further detailed analysis of carbohydrate metabolism suggested the ability to degrade diverse carbohydrate sources likely originating from seawater and from the host itself. The presence of uronic acid degradation pathways as well as several specific sulfatases provides strong support that Poribacteria degrade glycosaminoglycan chains of proteoglycans, which are important components of the sponge host matrix. Dominant glycoside hydrolase families further suggest degradation of other glycoproteins in the host matrix. We therefore propose that Poribacteria are well adapted to an existence in the sponge extracellular matrix. Poribacteria may be viewed as efficient scavengers and recyclers of a particular suite of carbon compounds that are unique to sponges as microbial ecosystems.

摘要

许多海洋海绵是密集的和系统发育多样的微生物群落的宿主,这些微生物群落位于动物的细胞外基质中。候选门 Poribacteria 是海绵微生物组的主要成员,其代表几乎只存在于海绵中。在这里,我们使用单细胞基因组学来全面了解代表 Poribacteria 三个不同系统发育群的单个 Poribacteria 细胞的代谢潜力。基因组大小高达 5.4 Mbp,基因组覆盖率高达 98.5%。Poribacteria 基因组的常见特征表明,异养可能对这个细菌候选门很重要。碳水化合物活性酶数据库筛选和对碳水化合物代谢的进一步详细分析表明,该菌可能具有降解源自海水和宿主自身的各种碳水化合物源的能力。存在的糖醛酸降解途径以及几种特定的硫酸盐酶为 Poribacteria 降解糖胺聚糖链(糖蛋白的重要成分)提供了强有力的支持,糖蛋白是海绵宿主基质的重要组成部分。占主导地位的糖苷水解酶家族进一步表明,它们可以降解宿主基质中的其他糖蛋白。因此,我们提出 Poribacteria 非常适应海绵细胞外基质的存在。Poribacteria 可以被视为海绵微生物生态系统中特有的特定碳化合物套件的有效清道夫和再循环者。

相似文献

[1]
Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges.

ISME J. 2013-7-11

[2]
Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges.

ISME J. 2010-7-8

[3]
Coexistence of poribacterial phylotypes among geographically widespread and phylogenetically divergent sponge hosts.

Environ Microbiol Rep. 2017-12-14

[4]
Comparative Genomics Provides Insight into the Function of Broad-Host Range Sponge Symbionts.

mBio. 2021-10-26

[5]
The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features.

PLoS One. 2014-1-31

[6]
Marine sponges and their microbial symbionts: love and other relationships.

Environ Microbiol. 2011-3-28

[7]
Pyrosequencing reveals diverse and distinct sponge-specific microbial communities in sponges from a single geographical location in Irish waters.

Microb Ecol. 2012-1-28

[8]
Marine Sponges as Hot Spots: Genomic Insights and High-Resolution Visualization of an Abundant and Diverse Symbiotic Clade.

mSystems. 2018-12-26

[9]
Discovery of the novel candidate phylum "Poribacteria" in marine sponges.

Appl Environ Microbiol. 2004-6

[10]
Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization.

ISME J. 2017-11

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本文引用的文献

[1]
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