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Groups of associated microbes with different levels of sequence reads.

Hai-Xia Wu (1628389)
Xiaoming Chen (230202)
Hang Chen (23866)
Qin Lu (995)
Zixiang Yang (4542451)
Weibin Ren (5334242)
Juan Liu (6492)
Shuxia Shao (4542454)
Chao Wang (146527)
Kirst King-Jones (203750)
Ming-Shun Chen (14421)

Publication date

November 2018

DOI

10.1371/journal.pone.0200049.t002

Publisher

Public Library of Science (PLoS)

Abstract

The lowest known level of taxonomy is given in the table. The numbers in parenthesis are the numbers of OTUs in that taxonomic unit.</p

Extracted data

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Taxonomic classification of bacterial reads retrieved from different wells at phylum (A) and genus (B) levels from 16S rRNA gene pyrosequencing.

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Nesrine Lenchi (425064)
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Davi Pedroni Barreto (647356)
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Jing Yi (81891)
Bin Dong (147019)
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<p>Taxonomic composition of bacterial communities at the genus level for the sequences retrieved fro...

Major bacterial taxa to which fetal, newborn and maternal bacterial DNA were assigned.

Keith A. Martinez II (841159)
Joann Romano-Keeler (5233466)
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Thomas H. A. Haverkamp (514193)
Øyvind Hammer (514194)
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Annamarie D Horan (5100128)
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April 2018

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Kaiying Chen (14265861)
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Chouaïbou S. Mouhamadou (12072001)
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Ya-Jun Yang (119016)
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Xiao-Jun Kong (4857340)
Jian-Yong Li (424635)

February 2018

<p>The phylogenetic tree is the first layer constructed based on the representative OTU sequences, a...

Assemblage of the abundant biosphere, representing operational taxonomic units (OUTs) that constitute >1% of sequences in a sample.

Katja Metfies (662159)
Wilken-Jon von Appen (2148043)
Estelle Kilias (2148052)
Anja Nicolaus (2148046)
Eva-Maria Nöthig (2148049)

February 2016

<p>An OTU represents a cluster of sequences with 97% similarity in the sequence of the 18S rRNA V4 r...

rarefied OTU table L7

Emily Farrer (3263775)
Lee Taylor (1283991)
Andrea Porras-Alfaro (3275619)
Katharine Suding (3263784)
Robert Sinsabaugh (3275694)
Sarah Hicks (3275691)

October 2016

Rarefied OTU x sampleID tables (there are 6 tables for 6 taxonomic levels, species through phylum. L...

Microbiome taxonomy composition of samples from each rig (phylum level).

Pan Ji (192141)
Jeffrey Parks (817484)
Marc A. Edwards (817485)
Amy Pruden (781822)

October 2015

<p>Data were combined across all 27 pipe samples for each rig. Relative abundance was calculated as ...

rarefied OTU table L6

Farrer, Emily
Taylor, Lee
Porras-Alfaro, Andrea
Suding, Katharine
Sinsabaugh, Robert
Hicks, Sarah

September 2013

Rarefied genus x sampleID tables (there are 6 tables for 6 taxonomic levels, species through phylum....

Taxonomic classification of the bacterial OTUs detected in BAL samples.

Robert P. Dickson (565098)
John R. Erb-Downward (229348)
Christine M. Freeman (229357)
Natalie Walker (565099)
Brittan S. Scales (565100)
James M. Beck (565101)
Fernando J. Martinez (49907)
Jeffrey L. Curtis (54247)
Vibha N. Lama (293319)
Gary B. Huffnagle (229389)

May 2014

<p>Families and OTUs are ranked in descending order of mean relative abundance among all subjects. B...

Bar diagrams representing the relative proportion of 16S sequences (rRNA and gene) belonging to the most abundant phyla.

Ina Severin (492958)
Eva S. Lindström (202186)
Örjan Östman (202187)

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<p>‘Others’ contain OTUs with a relative abundance below 0.5% in the entire data set. ‘Unidentified’...

Phylogenetic tree and Heatmap of bacterial 16S rRNA sequences derived from throat swabs.

Paul Andres Cardenas (304157)
Philip J. Cooper (218309)
Michael J. Cox (175111)
Martha Chico (270482)
Carlos Arias (304158)
Miriam F. Moffatt (175135)
William Osmond Cookson (304159)

February 2013

<p>Total sequence counts for individual operational taxonomic units (OTUs) are shown in the right co...

Taxonomic classification of bacterial reads retrieved from different wells at phylum (A) and genus (B) levels from 16S rRNA gene pyrosequencing.

Nesrine Lenchi (425064)
Özgül İnceoğlu (208805)
Salima Kebbouche-Gana (425065)
Mohamed Lamine Gana (425066)
Marc Llirós (425067)
Pierre Servais (425068)
Tamara García-Armisen (425069)

June 2013

<p>Taxonomic classification of bacterial reads retrieved from different wells at phylum (A) and genu...

Z-values previously described for microorganisms, 99% or 95% represent the taxonomic resolution applied for definition of the OTUs (sequence similarity).

Davi Pedroni Barreto (647356)
Ralf Conrad (219296)
Melanie Klose (647357)
Peter Claus (183761)
Alex Enrich-Prast (312251)

October 2014

<p>*not significant different from zero.</p><p>Z-values previously described for microorganisms, 99%...

Taxonomic composition of bacterial communities at the genus level for the sequences retrieved from each sample.

Jing Yi (81891)
Bin Dong (147019)
Jingwei Jin (602217)
Xiaohu Dai (602218)

July 2014

<p>Taxonomic composition of bacterial communities at the genus level for the sequences retrieved fro...