Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis
| العنوان: | Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis |
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| المؤلفون: | Katrina Ngui, Cheryl Y. Brown, Alexandra J. Roth-Schulze, Stephen Wilcox, Esther Bandala-Sanchez, John M. Wentworth, Leonard C. Harrison, Jennifer J Couper, Jocelyn Sietsma Penington, Anthony T. Papenfuss, Nadim J. Ajami, Joseph F. Petrosino, Simon C. Barry, Megan A. S. Penno |
| المصدر: | Scientific Reports, Vol 8, Iss 1, Pp 1-10 (2018) Scientific Reports |
| بيانات النشر: | Springer Science and Business Media LLC, 2018. |
| سنة النشر: | 2018 |
| مصطلحات موضوعية: | 0301 basic medicine, Sequence analysis, 030106 microbiology, Individuality, lcsh:Medicine, Zoology, Biology, Article, Specimen Handling, Feces, 03 medical and health sciences, RNA, Ribosomal, 16S, Humans, lcsh:Science, Cryopreservation, Multidisciplinary, lcsh:R, Gastrointestinal Microbiome, Australia, Sequence Analysis, DNA, Replicate, Ribosomal RNA, 16S ribosomal RNA, DNA extraction, United States, 030104 developmental biology, lcsh:Q, Sample collection |
| الوصف: | To optimise fecal sampling for reproducible analysis of the gut microbiome, we compared different methods of sample collection and sequencing of 16S rRNA genes at two centers. Samples collected from six individuals on three consecutive days were placed in commercial collection tubes (OMNIgeneGut OMR-200) or in sterile screw-top tubes in a home fridge or home freezer for 6–24 h, before transfer and storage at −80 °C. Replicate samples were shipped to centers in Australia and the USA for DNA extraction and sequencing by their respective PCR protocols, and analysed with the same bioinformatic pipeline. Variation in gut microbiome was dominated by differences between individuals. Minor differences in the abundance of taxa were found between collection-processing methods and day of collection, and between the two centers. We conclude that collection with storage and transport at 4 °C within 24 h is adequate for 16S rRNA analysis of the gut microbiome. Other factors including differences in PCR and sequencing methods account for relatively minor variation compared to differences between individuals. |
| تدمد: | 2045-2322 |
| DOI: | 10.1038/s41598-018-22491-7 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::760c5bbe8e0f326a060670a6e5d49226 https://doi.org/10.1038/s41598-018-22491-7 |
| Rights: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....760c5bbe8e0f326a060670a6e5d49226 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 20452322 |
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| DOI: | 10.1038/s41598-018-22491-7 |