Effect of room temperature transport vials on DNA quality and phylogenetic composition of faecal microbiota of elderly adults and infants

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dc.contributor.author Hill, Cian J.
dc.contributor.author Brown, Jillian R. M.
dc.contributor.author Lynch, Denise B.
dc.contributor.author Jeffery, Ian B.
dc.contributor.author Ryan, C. Anthony
dc.contributor.author Ross, R. Paul
dc.contributor.author Stanton, Catherine
dc.contributor.author O'Toole, Paul W.
dc.date.accessioned 2016-12-19T12:03:27Z
dc.date.available 2016-12-19T12:03:27Z
dc.date.issued 2016-05-10
dc.identifier.citation Hill, C. J., Brown, J. R. M., Lynch, D. B., Jeffery, I. B., Ryan, C. A., Ross, R. P., Stanton, C. and O’Toole, P. W. (2016) 'Effect of room temperature transport vials on DNA quality and phylogenetic composition of faecal microbiota of elderly adults and infants', Microbiome, 4(19), pp. 1-10. doi:10.1186/s40168-016-0164-3 en
dc.identifier.volume 4 en
dc.identifier.issued 19 en
dc.identifier.startpage 1 en
dc.identifier.endpage 10 en
dc.identifier.issn 2049-2618
dc.identifier.uri http://hdl.handle.net/10468/3395
dc.identifier.doi 10.1186/s40168-016-0164-3
dc.description.abstract Background: Alterations in intestinal microbiota have been correlated with a growing number of diseases. Investigating the faecal microbiota is widely used as a non-invasive and ethically simple proxy for intestinal biopsies. There is an urgent need for collection and transport media that would allow faecal sampling at distance from the processing laboratory, obviating the need for same-day DNA extraction recommended by previous studies of freezing and processing methods for stool. We compared the faecal bacterial DNA quality and apparent phylogenetic composition derived using a commercial kit for stool storage and transport (DNA Genotek OMNIgene GUT) with that of freshly extracted samples, 22 from infants and 20 from older adults. Results: Use of the storage vials increased the quality of extracted bacterial DNA by reduction of DNA shearing. When infant and elderly datasets were examined separately, no differences in microbiota composition were observed due to storage. When the two datasets were combined, there was a difference according to a Wilcoxon test in the relative proportions of Faecalibacterium, Sporobacter, Clostridium XVIII, and Clostridium XlVa after 1 week's storage compared to immediately extracted samples. After 2 weeks' storage, Bacteroides abundance was also significantly different, showing an apparent increase from week 1 to week 2. The microbiota composition of infant samples was more affected than that of elderly samples by storage, with significantly higher Spearman distances between paired freshly extracted and stored samples (p en
dc.description.sponsorship Department of Agriculture, Food and Marine (10FDairy INFANTMET); Science Foundation Ireland (SFI/12/RC/2273) en
dc.format.mimetype application/pdf en
dc.language.iso en en
dc.publisher BioMed Central en
dc.rights © 2016, Hill et al. Open Access. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. en
dc.rights.uri http://creativecommons.org/licenses/by/4.0/ en
dc.subject Microbiome en
dc.subject Microbiota en
dc.subject Storage en
dc.subject Methodology en
dc.subject Infant en
dc.subject Elderly en
dc.subject Gut microbiota en
dc.subject Extraction methods en
dc.subject Intestinal microbiota en
dc.subject Bacterial en
dc.subject Impact en
dc.subject Samples en
dc.subject Reads en
dc.title Effect of room temperature transport vials on DNA quality and phylogenetic composition of faecal microbiota of elderly adults and infants en
dc.type Article (peer-reviewed) en
dc.internal.authorcontactother Paul O'Toole, Microbiology, University College Cork, Cork, Ireland. +353-21-490-3000 Email: pwotoole@ucc.ie en
dc.internal.availability Full text available en
dc.date.updated 2016-12-19T11:53:14Z
dc.description.version Published Version en
dc.internal.rssid 372342441
dc.internal.wokid 000375658100001
dc.contributor.funder Department of Agriculture, Food and the Marine en
dc.contributor.funder Science Foundation Ireland en
dc.description.status Peer reviewed en
dc.identifier.journaltitle Microbiome en
dc.internal.copyrightchecked Yes en
dc.internal.licenseacceptance Yes en
dc.internal.IRISemailaddress pwotoole@ucc.ie en


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© 2016, Hill et al. Open Access. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Except where otherwise noted, this item's license is described as © 2016, Hill et al. Open Access. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
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