Related references
Note: Only part of the references are listed.Patterns in Wetland Microbial Community Composition and Functional Gene Repertoire Associated with Methane Emissions
Shaomei He et al.
MBIO (2015)
Performance Comparison of Illumina and Ion Torrent Next-Generation Sequencing Platforms for 16S rRNA-Based Bacterial Community Profiling
Stephen J. Salipante et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2014)
Analysis, Optimization and Verification of Illumina-Generated 16S rRNA Gene Amplicon Surveys
Michael C. Nelson et al.
PLOS ONE (2014)
Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform
James J. Kozich et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)
Comparison of microbial diversity determined with the same variable tag sequence extracted from two different PCR amplicons
Yan He et al.
BMC MICROBIOLOGY (2013)
Practical innovations for high-throughput amplicon sequencing
Derek S. Lundberg et al.
NATURE METHODS (2013)
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
Anna Klindworth et al.
NUCLEIC ACIDS RESEARCH (2013)
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Christian Quast et al.
NUCLEIC ACIDS RESEARCH (2013)
Effects of GC Bias in Next-Generation-Sequencing Data on De Novo Genome Assembly
Yen-Chun Chen et al.
PLOS ONE (2013)
Diversity and heritability of the maize rhizosphere microbiome under field conditions
Jason A. Peiffer et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
The Long-Term Stability of the Human Gut Microbiota
Jeremiah J. Faith et al.
SCIENCE (2013)
Illumina-based analysis of microbial community diversity
Patrick H. Degnan et al.
ISME JOURNAL (2012)
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
J. Gregory Caporaso et al.
ISME JOURNAL (2012)
Defining the core Arabidopsis thaliana root microbiome
Derek S. Lundberg et al.
NATURE (2012)
Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota
Davide Bulgarelli et al.
NATURE (2012)
A framework for human microbiome research
Barbara A. Methe et al.
NATURE (2012)
Structure, function and diversity of the healthy human microbiome
Curtis Huttenhower et al.
NATURE (2012)
Performance comparison of benchtop high-throughput sequencing platforms
Nicholas J. Loman et al.
NATURE BIOTECHNOLOGY (2012)
Summarizing and correcting the GC content bias in high-throughput sequencing
Yuval Benjamini et al.
NUCLEIC ACIDS RESEARCH (2012)
Evaluation of 16S rDNA-Based Community Profiling for Human Microbiome Research
Doyle V. Ward et al.
PLOS ONE (2012)
Sequencing Intractable DNA to Close Microbial Genomes
Richard A. Hurt et al.
PLOS ONE (2012)
PCR Biases Distort Bacterial and Archaeal Community Structure in Pyrosequencing Datasets
Ameet J. Pinto et al.
PLOS ONE (2012)
Groundtruthing Next-Gen Sequencing for Microbial Ecology-Biases and Errors in Community Structure Estimates from PCR Amplicon Pyrosequencing
Charles K. Lee et al.
PLOS ONE (2012)
UCHIME improves sensitivity and speed of chimera detection
Robert C. Edgar et al.
BIOINFORMATICS (2011)
FLASH: fast length adjustment of short reads to improve genome assemblies
Tanja Magoc et al.
BIOINFORMATICS (2011)
Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes
Minseok Kim et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2011)
Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing
Purnima S. Kumar et al.
PLOS ONE (2011)
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
J. Gregory Caporaso et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)
Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria
Rodrigo Mendes et al.
SCIENCE (2011)
Meeting Report: The Terabase Metagenomics Workshop and the Vision of an Earth Microbiome Project
Jack A. Gilbert et al.
Standards in Genomic Sciences (2011)
Search and clustering orders of magnitude faster than BLAST
Robert C. Edgar
BIOINFORMATICS (2010)
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
Victor Kunin et al.
ENVIRONMENTAL MICROBIOLOGY (2010)
Experimental factors affecting PCR-based estimates of microbial species richness and evenness
Anna Engelbrektson et al.
ISME JOURNAL (2010)
QIIME allows analysis of high-throughput community sequencing data
J. Gregory Caporaso et al.
NATURE METHODS (2010)
Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions
Marcus J. Claesson et al.
NUCLEIC ACIDS RESEARCH (2010)
FastTree 2-Approximately Maximum-Likelihood Trees for Large Alignments
Morgan N. Price et al.
PLOS ONE (2010)
The Effects of Alignment Quality, Distance Calculation Method, Sequence Filtering, and Region on the Analysis of 16S rRNA Gene-Based Studies
Patrick D. Schloss
PLOS COMPUTATIONAL BIOLOGY (2010)
Polymerase chain reaction primers miss half of rRNA microbial diversity
SunHee Hong et al.
ISME JOURNAL (2009)
Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes
Jeremy A. Frank et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2008)
A renaissance for the pioneering 16S rRNA gene
Susannah G. Tringe et al.
CURRENT OPINION IN MICROBIOLOGY (2008)
A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing
Poornima Parameswaran et al.
NUCLEIC ACIDS RESEARCH (2007)
Specificity and sensitivity of eubacterial primers utilized for molecular profiling of bacteria within complex microbial ecosystems
S. A. Huws et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2007)
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
Qiong Wang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2007)
Effect of primer mismatch, annealing temperature and PCR cycle number on 16S rRNA gene-targetting bacterial community analysis
Rita Sipos et al.
FEMS MICROBIOLOGY ECOLOGY (2007)
RNAmmer:: consistent and rapid annotation of ribosomal RNA genes
Karin Lagesen et al.
NUCLEIC ACIDS RESEARCH (2007)
Accuracy and quality of massively parallel DNA pyrosequencing
Susan M. Huse et al.
GENOME BIOLOGY (2007)
Microbial diversity in the deep sea and the underexplored rare biosphere
Mitchell L. Sogin et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
T. Z. DeSantis et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)
UniFrac: a new phylogenetic method for comparing microbial communities
C Lozupone et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)
PCR-induced sequence artifacts and bias: Insights from comparison of two 16S rRNA clone libraries constructed from the same sample
SG Acinas et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)
Genome sequencing in microfabricated high-density picolitre reactors
M Margulies et al.
NATURE (2005)
MUSCLE: multiple sequence alignment with high accuracy and high throughput
RC Edgar
NUCLEIC ACIDS RESEARCH (2004)
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
RC Edgar
BMC BIOINFORMATICS (2004)
Reevaluation and reduction of a PCR bias caused by reannealing of templates
S Kurata et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)
Review and re-analysis of domain-specific 16S primers
GC Baker et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2003)
Heteroduplexes in mixed-template amplifications: formation, consequence and elimination by 'reconditioning PCR'
JR Thompson et al.
NUCLEIC ACIDS RESEARCH (2002)
Evaluation of PCR-generated chimeras: Mutations, and heteroduplexes with 16S rRNA gene-based cloning
XY Qiu et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)