Cited by 276Marine Sponges and Natural ProductsMicrobial Community Ecology and PhysiologyGenomics and Phylogenetic Studies

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

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Siegl, Alexander, Kamke, Janine, Hochmuth, Thomas, Piel, Jörn, Richter, Michael, Liang, Chunguang, Dandekar, Thomas, Hentschel, Ute·2011·The ISME Journal

DOI 10.1038/ismej.2010.95PMC PMC3105677

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Abstract

In this study, we present a single-cell genomics approach for the functional characterization of the candidate phylum Poribacteria, members of which are nearly exclusively found in marine sponges. The microbial consortia of the Mediterranean sponge Aplysina aerophoba were singularized by fluorescence-activated cell sorting, and individual microbial cells were subjected to phi29 polymerase-mediated ‘whole-genome amplification’. Pyrosequencing of a single amplified genome (SAG) derived from a member of the Poribacteria resulted in nearly 1.6 Mb of genomic information distributed among 554 contigs analyzed in this study. Approximately two-third of the poribacterial genome was sequenced. Our findings shed light on the functional properties and lifestyle of a possibly ancient bacterial symbiont of marine sponges. The Poribacteria are mixotrophic bacteria with autotrophic CO2-fixation capacities through the Wood–Ljungdahl pathway. The cell wall is of Gram-negative origin. The Poribacteria produce at least two polyketide synthases (PKSs), one of which is the sponge-specific Sup-type PKS. Several putative symbiosis factors such as adhesins (bacterial Ig-like domains, lamininin G domain proteins), adhesin-related proteins (ankyrin, fibronectin type III) and tetratrico peptide repeat domain-encoding proteins were identified, which might be involved in mediating sponge–microbe interactions. The discovery of genes coding for 24-isopropyl steroids implies that certain fossil biomarkers used to date the origins of metazoan life on earth may possibly be of poribacterial origin. Single-cell genomic approaches, such as those shown herein, contribute to a better understanding of beneficial microbial consortia, of which most members are, because of the lack of cultivation, inaccessible by conventional techniques.

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Authors: Siegl, A., Kamke, J., Hochmuth, T., Piel, J., Richter, M., Liang, C., Dandekar, T., & Hentschel, U.
Affiliations: University of Vienna (AT)
University of Würzburg (DE)
University of Bonn (DE)
Ribocon (Germany) (DE)
Corresponding author: Hentschel, Ute
ORCID: Kamke, Janine
Piel, Jörn
Richter, Michael
Liang, Chunguang
Dandekar, Thomas
Hentschel, Ute
Venue: The ISME Journal
Publisher: Oxford University Press (OUP)
Published: 2010-07-08
Volume: 5
Issue: 1
Pages: 61-70
ISSN: 1751-7362 (ISSN-L)
1751-7370
DOI: 10.1038/ismej.2010.95
PMC: PMC3105677
OpenAlex: W2040439966
Cited by: 276
References: 56
Citations by year: 2026: 3 · 2025: 5 · 2024: 12 · 2023: 9 · 2022: 9 · 2021: 21 · 2020: 8 · 2019: 17 · 2018: 24 · 2017: 26 · 2016: 22 · 2015: 19 · 2014: 23 · 2013: 39 · 2012: 21
FWCI: 21.21
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: academic.oup.com/pages/standard-publication-reuse-rights (vor)
Locations: The ISME Journal (publishedVersion)
Europe PMC (PubMed Central) (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Helmholtz Centre for Ocean Research Kiel (GEOMAR) (acceptedVersion)
Phaidra (Universität Wien) (submittedVersion, cc-by-nc-nd)
mediaTUM – the media and publications repository of the Technical University Munich (Technical University Munich) (submittedVersion)
Funders: U.S. Department of Energy
Joint Genome Institute
Deutsche Forschungsgemeinschaft (SFB567, Da 208/10-1)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Biotechnology › Marine Sponges and Natural Products
Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords: marine sponge symbionts, Aplysina aerophoba, bacterial symbiosis, mixotrophic bacteria, Wood-Ljungdahl pathway, polyketide synthase, adhesins, metazoan origin, microbial consortia, single amplified genomes
MeSH terms: Animals, Bacteria, Molecular Sequence Data, Phylogeny, Porifera, Sterols, Symbiosis, Genome, Bacterial, Bacterial Physiological Phenomena, Genomics, Polyketide Synthases

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

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