The Characterization of Novel Tissue Microbiota Using an Optimized 16S Metagenomic Sequencing Pipeline (Q36257713)

13 August 2017

The Characterization of Novel Tissue Microbiota Using an Optimized 16S Metagenomic Sequencing Pipeline (English)

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13 August 2017

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Jérôme Lluch

1

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13 August 2017

Florence Servant

2

1 reference

13 August 2017

Sandrine Païssé

3

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13 August 2017

Carine Valle

4

1 reference

13 August 2017

Sophie Valière

5

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13 August 2017

Claire Kuchly

6

1 reference

13 August 2017

Gaëlle Vilchez

7

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13 August 2017

Cécile Donnadieu

8

1 reference

13 August 2017

Michael Courtney

9

1 reference

13 August 2017

Rémy Burcelin

10

1 reference

13 August 2017

Jacques Amar

11

1 reference

13 August 2017

Olivier Bouchez

12

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13 August 2017

Benjamin Lelouvier

13

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13 August 2017

language of work or name

English

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publication date

6 November 2015

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13 August 2017

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13 August 2017

10

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13 August 2017

11

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13 August 2017

e0142334

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Creative Commons Attribution 4.0 International

13 August 2017

start time

6 November 2015

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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30 September 2017

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Microbiome of prebiotic-treated mice reveals novel targets involved in host response during obesity

30 September 2017

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Comparison of three next-generation sequencing platforms for metagenomic sequencing and identification of pathogens in blood.

30 September 2017

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A brave new world: the lung microbiota in an era of change

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The role of microbiome in central nervous system disorders

30 September 2017

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Streptococcus pneumoniae invades erythrocytes and utilizes them to evade human innate immunity

30 September 2017

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30 September 2017

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Metabolic endotoxemia directly increases the proliferation of adipocyte precursors at the onset of metabolic diseases through a CD14-dependent mechanism

30 September 2017

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The phenomenon of microbial uncultivability

30 September 2017

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30 September 2017

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30 September 2017

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30 September 2017

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30 September 2017

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30 September 2017

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30 September 2017

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30 September 2017

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Gut microbiota composition and activity in relation to host metabolic phenotype and disease risk

30 September 2017

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30 September 2017

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PCR biases distort bacterial and archaeal community structure in pyrosequencing datasets

30 September 2017

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Evaluation of 16S rDNA-based community profiling for human microbiome research

30 September 2017

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Associating microbiome composition with environmental covariates using generalized UniFrac distances

30 September 2017

1 reference

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Host-gut microbiota metabolic interactions

30 September 2017

1 reference

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Bacterial translocation and changes in the intestinal microbiome associated with alcoholic liver disease

30 September 2017

1 reference

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Performance comparison of benchtop high-throughput sequencing platforms

30 September 2017

1 reference

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Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

30 September 2017

1 reference

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Selection of primers for optimal taxonomic classification of environmental 16S rRNA gene sequences

30 September 2017

1 reference

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Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Neisseria meningitidis and Escherichia coli are protected from leukocyte phagocytosis by binding to erythrocyte complement receptor 1 in human blood

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Geofilum rubicundum gen. nov., sp. nov., isolated from deep subseafloor sediment

30 September 2017

1 reference

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UCHIME improves sensitivity and speed of chimera detection

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Invasion of erythrocytes by Francisella tularensis

30 September 2017

1 reference

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Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes.

30 September 2017

1 reference

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Human oral, gut, and plaque microbiota in patients with atherosclerosis

30 September 2017

1 reference

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A study of PCR inhibition mechanisms using real time PCR.

30 September 2017

1 reference

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Bacterial community variation in human body habitats across space and time

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Optimizing Taq polymerase concentration for improved signal-to-noise in the broad range detection of low abundance bacteria

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Genomics, environmental genomics and the issue of microbial species.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

An obesity-associated gut microbiome with increased capacity for energy harvest

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Obesity alters gut microbial ecology

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Comparative genomic structure of prokaryotes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Infiltration of the brain by pathogens causes Alzheimer's disease

30 September 2017

1 reference

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What are bacterial species?

30 September 2017

1 reference

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Activation of the immune system by bacterial CpG-DNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Exploring prokaryotic diversity in the genomic era

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Genome of the extremely radiation-resistant bacterium Deinococcus radiodurans viewed from the perspective of comparative genomics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Bacterial DNA as immune cell activator

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Bias in template-to-product ratios in multitemplate PCR

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

16S ribosomal DNA amplification for phylogenetic study

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Involvement of tissue bacteria in the onset of diabetes in humans: evidence for a concept

30 September 2017

1 reference

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Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities

29 June 2018

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Genome DNA Sequence Variation, Evolution, and Function in Bacteria and Archaea.

22 September 2018

1 reference

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Experimental factors affecting PCR-based estimates of microbial species richness and evenness.

22 September 2018

1 reference

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Detection of microbial DNA in the blood of surgical patients for diagnosing bacterial translocation.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Inhibition of real-time RT-PCR quantification due to tissue-specific contaminants.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4636327

Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set

22 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26544955

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Electron microscopical evidence of the evolution of corynebacteria-like microorganisms within human erythrocytes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26544955

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Reproducibility of pyrosequencing data for biodiversity assessment in complex communities

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24 May 2022

https://opencitations.net/index/coci/api/v1/citations/10.1111/2041-210X.12230

Identifiers

DOI

10.1371/JOURNAL.PONE.0142334

1 reference

13 August 2017

0 references

1 reference

13 August 2017

PubMed publication ID

26544955

1 reference