Microbiota data from low biomass milk samples is markedly affected by laboratory and reagent contamination
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Title
Microbiota data from low biomass milk samples is markedly affected by laboratory and reagent contamination
Authors
Keywords
Milk, Bacteria, Microbiome, Methylobacterium, DNA extraction, Contaminants, Ribosomal RNA, Corynebacteria
Journal
PLoS One
Volume 14, Issue 6, Pages e0218257
Publisher
Public Library of Science (PLoS)
Online
2019-06-14
DOI
10.1371/journal.pone.0218257
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Note: Only part of the references are listed.- The Madness of Microbiome: Attempting To Find Consensus “Best Practice” for 16S Microbiome Studies
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- (2017) Erika K. Ganda et al. Microbiome
- Impacts of Seasonal Housing and Teat Preparation on Raw Milk Microbiota: a High-Throughput Sequencing Study
- (2016) Conor J. Doyle et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Bacterial community composition and fhs profiles of low- and high-ammonia biogas digesters reveal novel syntrophic acetate-oxidising bacteria
- (2016) Bettina Müller et al. Biotechnology for Biofuels
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- (2016) Angela Glassing et al. Gut Pathogens
- Bovine Teat Microbiome Analysis Revealed Reduced Alpha Diversity and Significant Changes in Taxonomic Profiles in Quarters with a History of Mastitis
- (2016) Hélène Falentin et al. Frontiers in Microbiology
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- (2016) Abigail P. Lauder et al. Microbiome
- Longitudinal metagenomic profiling of bovine milk to assess the impact of intramammary treatment using a third-generation cephalosporin
- (2016) Erika K. Ganda et al. Scientific Reports
- The truth about metagenomics: quantifying and counteracting bias in 16S rRNA studies
- (2015) J Paul Brooks et al. BMC MICROBIOLOGY
- The Placental Microbiome Varies in Association with Low Birth Weight in Full-Term Neonates
- (2015) Jia Zheng et al. Nutrients
- The Lung Microbiome: New Principles for Respiratory Bacteriology in Health and Disease
- (2015) Robert P. Dickson et al. PLoS Pathogens
- DegePrime, a Program for Degenerate Primer Design for Broad-Taxonomic-Range PCR in Microbial Ecology Studies
- (2014) Luisa W. Hugerth et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Reagent and laboratory contamination can critically impact sequence-based microbiome analyses
- (2014) Susannah J Salter et al. BMC BIOLOGY
- Methylobacterium and Its Role in Health Care-Associated Infection
- (2014) J. Kovaleva et al. JOURNAL OF CLINICAL MICROBIOLOGY
- Microbiota of Cow’s Milk; Distinguishing Healthy, Sub-Clinically and Clinically Diseased Quarters
- (2014) Georgios Oikonomou et al. PLoS One
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- (2014) K. Aagaard et al. Science Translational Medicine
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- (2014) Jai Ram Rideout et al. PeerJ
- Influence of DNA extraction on oral microbial profiles obtained via 16S rRNA gene sequencing
- (2014) Loreto Abusleme et al. Journal of Oral Microbiology
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- (2013) Joanna S. Kuehn et al. PLoS One
- Enrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammation
- (2013) Leopoldo N Segal et al. Microbiome
- A comparison of methods used to extract bacterial DNA from raw milk and raw milk cheese
- (2012) L. Quigley et al. JOURNAL OF APPLIED MICROBIOLOGY
- Microbial Diversity of Bovine Mastitic Milk as Described by Pyrosequencing of Metagenomic 16s rDNA
- (2012) Georgios Oikonomou et al. PLoS One
- Human milk: a source of more life than we imagine
- (2012) P.V. Jeurink et al. Beneficial Microbes
- Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
- (2011) B. J. Haas et al. GENOME RESEARCH
- Characterization of the Diversity and Temporal Stability of Bacterial Communities in Human Milk
- (2011) Katherine M. Hunt et al. PLoS One
- Search and clustering orders of magnitude faster than BLAST
- (2010) Robert C. Edgar BIOINFORMATICS
- QIIME allows analysis of high-throughput community sequencing data
- (2010) J Gregory Caporaso et al. NATURE METHODS
- PyNAST: a flexible tool for aligning sequences to a template alignment
- (2009) J. G. Caporaso et al. BIOINFORMATICS
- Microbial aetiology of acute clinical mastitis and agent-specific risk factors
- (2008) H. Ericsson Unnerstad et al. VETERINARY MICROBIOLOGY
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