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Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments

It is now well accepted that the gut microbiota contributes to our health. However, what determines the microbiota composition is still unclear. Whereas it might be expected that the intestinal niche would be dominant in shaping the microbiota, studies in vertebrates have repeatedly demonstrated dom...

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Autores principales: Berg, Maureen, Stenuit, Ben, Ho, Joshua, Wang, Andrew, Parke, Caitlin, Knight, Matthew, Alvarez-Cohen, Lisa, Shapira, Michael
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5029150/
https://www.ncbi.nlm.nih.gov/pubmed/26800234
http://dx.doi.org/10.1038/ismej.2015.253
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author Berg, Maureen
Stenuit, Ben
Ho, Joshua
Wang, Andrew
Parke, Caitlin
Knight, Matthew
Alvarez-Cohen, Lisa
Shapira, Michael
author_facet Berg, Maureen
Stenuit, Ben
Ho, Joshua
Wang, Andrew
Parke, Caitlin
Knight, Matthew
Alvarez-Cohen, Lisa
Shapira, Michael
author_sort Berg, Maureen
collection PubMed
description It is now well accepted that the gut microbiota contributes to our health. However, what determines the microbiota composition is still unclear. Whereas it might be expected that the intestinal niche would be dominant in shaping the microbiota, studies in vertebrates have repeatedly demonstrated dominant effects of external factors such as host diet and environmental microbial diversity. Hypothesizing that genetic variation may interfere with discerning contributions of host factors, we turned to Caenorhabditis elegans as a new model, offering the ability to work with genetically homogenous populations. Deep sequencing of 16S rDNA was used to characterize the (previously unknown) worm gut microbiota as assembled from diverse produce-enriched soil environments under laboratory conditions. Comparisons of worm microbiotas with those in their soil environment revealed that worm microbiotas resembled each other even when assembled from different microbial environments, and enabled defining a shared core gut microbiota. Community analyses indicated that species assortment in the worm gut was non-random and that assembly rules differed from those in their soil habitat, pointing at the importance of competitive interactions between gut-residing taxa. The data presented fills a gap in C. elegans biology. Furthermore, our results demonstrate a dominant contribution of the host niche in shaping the gut microbiota.
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spelling pubmed-50291502016-09-21 Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments Berg, Maureen Stenuit, Ben Ho, Joshua Wang, Andrew Parke, Caitlin Knight, Matthew Alvarez-Cohen, Lisa Shapira, Michael ISME J Original Article It is now well accepted that the gut microbiota contributes to our health. However, what determines the microbiota composition is still unclear. Whereas it might be expected that the intestinal niche would be dominant in shaping the microbiota, studies in vertebrates have repeatedly demonstrated dominant effects of external factors such as host diet and environmental microbial diversity. Hypothesizing that genetic variation may interfere with discerning contributions of host factors, we turned to Caenorhabditis elegans as a new model, offering the ability to work with genetically homogenous populations. Deep sequencing of 16S rDNA was used to characterize the (previously unknown) worm gut microbiota as assembled from diverse produce-enriched soil environments under laboratory conditions. Comparisons of worm microbiotas with those in their soil environment revealed that worm microbiotas resembled each other even when assembled from different microbial environments, and enabled defining a shared core gut microbiota. Community analyses indicated that species assortment in the worm gut was non-random and that assembly rules differed from those in their soil habitat, pointing at the importance of competitive interactions between gut-residing taxa. The data presented fills a gap in C. elegans biology. Furthermore, our results demonstrate a dominant contribution of the host niche in shaping the gut microbiota. Nature Publishing Group 2016-08 2016-01-22 /pmc/articles/PMC5029150/ /pubmed/26800234 http://dx.doi.org/10.1038/ismej.2015.253 Text en Copyright © 2016 International Society for Microbial Ecology http://creativecommons.org/licenses/by-nc-nd/4.0/ This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-nd/4.0/
spellingShingle Original Article
Berg, Maureen
Stenuit, Ben
Ho, Joshua
Wang, Andrew
Parke, Caitlin
Knight, Matthew
Alvarez-Cohen, Lisa
Shapira, Michael
Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title_full Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title_fullStr Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title_full_unstemmed Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title_short Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments
title_sort assembly of the caenorhabditis elegans gut microbiota from diverse soil microbial environments
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5029150/
https://www.ncbi.nlm.nih.gov/pubmed/26800234
http://dx.doi.org/10.1038/ismej.2015.253
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