Show simple item record

dc.contributor.authorAnahtar, Melis N.
dc.contributor.authorBowman, Brittany A.
dc.contributor.authorKwon, Douglas
dc.date.accessioned2016-07-07T18:46:22Z
dc.date.available2016-07-07T18:46:22Z
dc.date.issued2016-04
dc.identifier.issn1940-087X
dc.identifier.urihttp://hdl.handle.net/1721.1/103539
dc.description.abstractThere is a growing appreciation for the role of microbial communities as critical modulators of human health and disease. High throughput sequencing technologies have allowed for the rapid and efficient characterization of bacterial communities using 16S rRNA gene sequencing from a variety of sources. Although readily available tools for 16S rRNA sequence analysis have standardized computational workflows, sample processing for DNA extraction remains a continued source of variability across studies. Here we describe an efficient, robust, and cost effective method for extracting nucleic acid from swabs. We also delineate downstream methods for 16S rRNA gene sequencing, including generation of sequencing libraries, data quality control, and sequence analysis. The workflow can accommodate multiple samples types, including stool and swabs collected from a variety of anatomical locations and host species. Additionally, recovered DNA and RNA can be separated and used for other applications, including whole genome sequencing or RNA-seq. The method described allows for a common processing approach for multiple sample types and accommodates downstream analysis of genomic, metagenomic and transcriptional information.en_US
dc.description.sponsorshipBill & Melinda Gates Foundationen_US
dc.description.sponsorshipNational Institute of Allergy and Infectious Diseases (U.S.) (NIAID (1R01AI111918))en_US
dc.description.sponsorshipBurroughs Wellcome Funden_US
dc.description.sponsorshipNational Institute of General Medical Sciences (U.S.) (NIGMS T32GM007753)en_US
dc.description.sponsorshipPaul & Daisy Soros Fellowships for New Americans (New York, N.Y.)en_US
dc.language.isoen_US
dc.publisherMyJoVE Corporationen_US
dc.relation.isversionofhttp://dx.doi.org/10.3791/53939en_US
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivs Licenseen_US
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en_US
dc.sourceJournal of Visualized Experiments (JoVE)en_US
dc.titleEfficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterizationen_US
dc.typeArticleen_US
dc.identifier.citationAnahtar, Melis N., Brittany A. Bowman, and Douglas S. Kwon. “Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization.” JoVE no. 110 (April 14, 2016).en_US
dc.contributor.departmentRagon Institute of MGH, MIT and Harvarden_US
dc.contributor.departmentKoch Institute for Integrative Cancer Research at MITen_US
dc.contributor.mitauthorAnahtar, Melis N.en_US
dc.contributor.mitauthorBowman, Brittany A.en_US
dc.contributor.mitauthorKwon, Douglasen_US
dc.relation.journalJournal of Visualized Experimentsen_US
dc.eprint.versionFinal published versionen_US
dc.type.urihttp://purl.org/eprint/type/JournalArticleen_US
eprint.statushttp://purl.org/eprint/status/PeerRevieweden_US
dspace.orderedauthorsAnahtar, Melis N.; Bowman, Brittany A.; Kwon, Douglas S.en_US
dspace.embargo.termsNen_US
dc.identifier.orcidhttps://orcid.org/0000-0002-4711-6225
mit.licensePUBLISHER_CCen_US


Files in this item

Thumbnail

This item appears in the following Collection(s)

Show simple item record