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  Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms

Rausch, P., Rühlemann, M., Hermes, B., Doms, S., Dagan, T., Dierking, K., et al. (2019). Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms. Microbiome, 7(1): 133. doi:10.1101/604314.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0003-73D4-C Version Permalink: http://hdl.handle.net/21.11116/0000-0004-EB7B-A
Genre: Journal Article

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10.1186_s40168-019-0743-1.pdf (Publisher version), 3MB
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 Creators:
Rausch, Philipp, Author
Rühlemann, Malte, Author
Hermes, Britt1, Author              
Doms, Shauni1, Author              
Dagan, Tal, Author
Dierking, Katja, Author
Domin, Hanna, Author
Fraune, Sebastian, Author
Frieling, Jakob von, Author
Humeida, Ute Henschel, Author
Heinsen, Femke-Anouska, Author
Höppner, Marc, Author
Jahn, Martin, Author
Jaspers, Cornelia, Author
Kissoyan, Kohar Annie B., Author
Langfeldt, Daniela, Author
Rehman, Ateeqr, Author
Reusch, Thorsten B. H., Author
Röder, Thomas, Author
Schmitz, Ruth A., Author
Schulenburg, Hinrich2, Author              Soluch, Ryszard, AuthorSommer, Felix, AuthorStukenbrock, Eva H.3, Author              Weiland-Bräuer, Nancy, AuthorRosenstiel, Philip, AuthorFranke, Andre, AuthorBosch, Thomas, AuthorBaines, John F.1, Author               more..
Affiliations:
1Guest Group Evolutionary Genomics, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_1445638              
2External Organizations, ou_persistent22              
3Max Planck Fellow Group Environmental Genomics, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_2068284              

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Free keywords: animal microbiome; evolution; phylosymbiosis; holobiont; metaorganism
 Abstract: Background The interplay between hosts and their associated microbiome is now recognized as a fundamental basis of the ecology, evolution and development of both players. These interdependencies inspired a new view of multicellular organisms as “}metaorganisms{”}. The goal of the Collaborative Research Center {“}Origin and Function of Metaorganisms{” is to understand why and how microbial communities form long-term associations with hosts from diverse taxonomic groups, ranging from sponges to humans in addition to plants.Methods In order to optimize the choice of analysis procedures, which may differ according to the host organism and question at hand, we systematically compared the two main technical approaches for profiling microbial communities, 16S rRNA gene amplicon- and metagenomic shotgun sequencing across our panel of ten host taxa. This includes two commonly used 16S rRNA gene regions and two amplification procedures, thus totaling five different microbial profiles per host sample.Conclusion While 16S rRNA gene-based analyses are subject to much skepticism, we demonstrate that many aspects of bacterial community characterization are consistent across methods and that metagenomic shotgun results are largely dependent on the employed pipeline. The resulting insight facilitates the selection of appropriate methods across a wide range of host taxa. Finally, by contrasting taxonomic and functional profiles and performing phylogenetic analysis, we provide important and novel insight into broad evolutionary patterns among metaorganisms, whereby the transition of animals from an aquatic to a terrestrial habitat marks a major event in the evolution of host-associated microbial composition.

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Language(s): eng - English
 Dates: 2019-02-082019-08-232019-09-142019-12
 Publication Status: Published in print
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: No review
 Identifiers: DOI: 10.1101/604314
 Degree: -

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Title: Microbiome
Source Genre: Journal
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Publ. Info: United Kingdom : BioMed Central
Pages: - Volume / Issue: 7 (1) Sequence Number: 133 Start / End Page: - Identifier: Other: 2049-2618
CoNE: https://pure.mpg.de/cone/journals/resource/2049-2618