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dc.contributor.authorRausch, Philipp
dc.contributor.authorBasic, Marijana
dc.contributor.authorBatra, Arvind
dc.contributor.authorBischoff, Stephan C
dc.contributor.authorBlaut, Michael
dc.contributor.authorClavel, Thomas
dc.contributor.authorGläsner, Joachim
dc.contributor.authorGopalakrishnan, Shreya
dc.contributor.authorGrassl, Guntram A
dc.contributor.authorGünther, Claudia
dc.contributor.authorHaller, Dirk
dc.contributor.authorHirose, Misa
dc.contributor.authorIbrahim, Saleh
dc.contributor.authorLoh, Gunnar
dc.contributor.authorMattner, Jochen
dc.contributor.authorNagel, Stefan
dc.contributor.authorPabst, Oliver
dc.contributor.authorSchmidt, Franziska
dc.contributor.authorSiegmund, Britta
dc.contributor.authorStrowig, Till
dc.contributor.authorVolynets, Valentina
dc.contributor.authorWirtz, Stefan
dc.contributor.authorZeissig, Sebastian
dc.contributor.authorZeissig, Yvonne
dc.contributor.authorBleich, André
dc.contributor.authorBaines, John F
dc.date.accessioned2017-04-21T10:47:31Z
dc.date.available2017-04-21T10:47:31Z
dc.date.issued2016-08
dc.identifier.citationAnalysis of factors contributing to variation in the C57BL/6J fecal microbiota across German animal facilities. 2016, 306 (5):343-55 Int. J. Med. Microbiol.en
dc.identifier.issn1618-0607
dc.identifier.pmid27053239
dc.identifier.doi10.1016/j.ijmm.2016.03.004
dc.identifier.urihttp://hdl.handle.net/10033/620903
dc.description.abstractThe intestinal microbiota is involved in many physiological processes and it is increasingly recognized that differences in community composition can influence the outcome of a variety of murine models used in biomedical research. In an effort to describe and account for the variation in intestinal microbiota composition across the animal facilities of participating members of the DFG Priority Program 1656 "Intestinal Microbiota", we performed a survey of C57BL/6J mice from 21 different mouse rooms/facilities located at 13 different institutions across Germany. Fresh feces was sampled from five mice per room/facility using standardized procedures, followed by extraction and 16S rRNA gene profiling (V1-V2 region, Illumina MiSeq) at both the DNA and RNA (reverse transcribed to cDNA) level. In order to determine the variables contributing to bacterial community differences, we collected detailed questionnaires of animal husbandry practices and incorporated this information into our analyses. We identified considerable variation in a number of descriptive aspects including the proportions of major phyla, alpha- and beta diversity, all of which displayed significant associations to specific aspects of husbandry. Salient findings include a reduction in alpha diversity with the use of irradiated chow, an increase in inter-individual variability (beta diversity) with respect to barrier access and open cages and an increase in bacterial community divergence with time since importing from a vendor. We further observe a high degree of facility-level individuality, which is likely due to each facility harboring its own unique combination of multiple varying attributes of animal husbandry. While it is important to account and control for such differences between facilities, the documentation of such diversity may also serve as a valuable future resource for investigating the origins of microbial-driven host phenotypes.
dc.language.isoenen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-sa/4.0/*
dc.subject.meshAnimal Husbandryen
dc.subject.meshAnimalsen
dc.subject.meshCluster Analysisen
dc.subject.meshDNA, Ribosomalen
dc.subject.meshFecesen
dc.subject.meshGastrointestinal Microbiomeen
dc.subject.meshGermanyen
dc.subject.meshMaleen
dc.subject.meshMice, Inbred C57BLen
dc.subject.meshPhylogenyen
dc.subject.meshRNA, Ribosomal, 16Sen
dc.subject.meshSequence Analysis, DNAen
dc.subject.meshSurveys and Questionnairesen
dc.titleAnalysis of factors contributing to variation in the C57BL/6J fecal microbiota across German animal facilities.en
dc.typeArticleen
dc.contributor.departmentHelmholtz Centre for infection research, Inhoffenstr. 7, 38124 Braunschweig, Germany.en
dc.identifier.journalInternational journal of medical microbiology : IJMMen
refterms.dateFOA2018-06-12T23:52:28Z
html.description.abstractThe intestinal microbiota is involved in many physiological processes and it is increasingly recognized that differences in community composition can influence the outcome of a variety of murine models used in biomedical research. In an effort to describe and account for the variation in intestinal microbiota composition across the animal facilities of participating members of the DFG Priority Program 1656 "Intestinal Microbiota", we performed a survey of C57BL/6J mice from 21 different mouse rooms/facilities located at 13 different institutions across Germany. Fresh feces was sampled from five mice per room/facility using standardized procedures, followed by extraction and 16S rRNA gene profiling (V1-V2 region, Illumina MiSeq) at both the DNA and RNA (reverse transcribed to cDNA) level. In order to determine the variables contributing to bacterial community differences, we collected detailed questionnaires of animal husbandry practices and incorporated this information into our analyses. We identified considerable variation in a number of descriptive aspects including the proportions of major phyla, alpha- and beta diversity, all of which displayed significant associations to specific aspects of husbandry. Salient findings include a reduction in alpha diversity with the use of irradiated chow, an increase in inter-individual variability (beta diversity) with respect to barrier access and open cages and an increase in bacterial community divergence with time since importing from a vendor. We further observe a high degree of facility-level individuality, which is likely due to each facility harboring its own unique combination of multiple varying attributes of animal husbandry. While it is important to account and control for such differences between facilities, the documentation of such diversity may also serve as a valuable future resource for investigating the origins of microbial-driven host phenotypes.


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