SEQanswers

Go Back   SEQanswers > Literature Watch



Similar Threads
Thread Thread Starter Forum Replies Last Post
PubMed: Looking ultra deep: short identical sequences and transcriptional slippage. Newsbot! Literature Watch 0 11-16-2011 02:00 AM
PubMed: RNA-ligase-dependent biases in miRNA representation in deep-sequenced small R Newsbot! Literature Watch 0 10-18-2011 02:00 AM
PubMed: Understanding human genetic variation in the era of high-throughput sequencin Newsbot! Literature Watch 0 12-17-2010 10:30 AM
PubMed: Characterization of transcriptional complexity during berry development in Vi Newsbot! Literature Watch 0 02-02-2010 02:10 AM

Reply
 
Thread Tools
Old 04-07-2010, 02:00 AM   #1
Newsbot!
RSS Posting Maniac
 

Join Date: Feb 2008
Posts: 1,443
Default PubMed: Organismal, genetic, and transcriptional variation in the deeply sequenced gu

Syndicated from PubMed RSS Feeds

Related Articles Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins.

Proc Natl Acad Sci U S A. 2010 Apr 2;

Authors: Turnbaugh PJ, Quince C, Faith JJ, McHardy AC, Yatsunenko T, Niazi F, Affourtit J, Egholm M, Henrissat B, Knight R, Gordon JI

We deeply sampled the organismal, genetic, and transcriptional diversity in fecal samples collected from a monozygotic (MZ) twin pair and compared the results to 1,095 communities from the gut and other body habitats of related and unrelated individuals. Using a new scheme for noise reduction in pyrosequencing data, we estimated the total diversity of species-level bacterial phylotypes in the 1.2-1.5 million bacterial 16S rRNA reads obtained from each deeply sampled cotwin to be ~800 (35.9%, 49.1% detected in both). A combined 1.1 million read 16S rRNA dataset representing 281 shallowly sequenced fecal samples from 54 twin pairs and their mothers contained an estimated 4,018 species-level phylotypes, with each sample having a unique species assemblage (53.4 +/- 0.6% and 50.3 +/- 0.5% overlap with the deeply sampled cotwins). Of the 134 phylotypes with a relative abundance of >0.1% in the combined dataset, only 37 appeared in >50% of the samples, with one phylotype in the Lachnospiraceae family present in 99%. Nongut communities had significantly reduced overlap with the deeply sequenced twins' fecal microbiota (18.3 +/- 0.3%, 15.3 +/- 0.3%). The MZ cotwins' fecal DNA was deeply sequenced (3.8-6.3 Gbp/sample) and assembled reads were assigned to 25 genus-level phylogenetic bins. Only 17% of the genes in these bins were shared between the cotwins. Bins exhibited differences in their degree of sequence variation, gene content including the repertoire of carbohydrate active enzymes present within and between twins (e.g., predicted cellulases, dockerins), and transcriptional activities. These results provide an expanded perspective about features that make each of us unique life forms and directions for future characterization of our gut ecosystems.

PMID: 20363958 [PubMed - as supplied by publisher]



More...
Newsbot! is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 12:52 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO