Bovine milk microbiota: Evaluation of different DNA extraction protocols for challenging samples

Aquabacterium pictum sp. nov., the first aerobic bacteriochlorophyll a-containing fresh water bacterium in the genus Aquabacterium of the class Betaproteobacteria

(2019) Setsuko Hirose et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Mammary microbiome of lactating organic dairy cows varies by time, tissue site, and infection status

(2019) Tucker Andrews et al.   PLoS One

Characterization and remediation of sample index swaps by non-redundant dual indexing on massively parallel sequencing platforms

(2018) Maura Costello et al.   BMC GENOMICS

Influence of sampling technique and bedding type on the milk microbiota: Results of a pilot study

(2018) S.A. Metzger et al.   JOURNAL OF DAIRY SCIENCE

Optimal extraction methods for the simultaneous analysis of DNA from diverse organisms and sample types

(2018) Syrie M. Hermans et al.   Molecular Ecology Resources

Evaluation of milk sample fractions for characterization of milk microbiota from healthy and clinical mastitis cows

(2018) Svetlana Ferreira Lima et al.   PLoS One

Rapid and sensitive detection of Escherichia coli O157:H7 using coaxial channel-based DNA extraction and microfluidic PCR

(2018) Huilin Zhang et al.   JOURNAL OF DAIRY SCIENCE

Milk microbiome diversity and bacterial group prevalence in a comparison between healthy Holstein Friesian and Rendena cows

(2018) Paola Cremonesi et al.   PLoS One

Understanding the Milk Microbiota

(2018) Stephanie A. Metzger et al.   VETERINARY CLINICS OF NORTH AMERICA-FOOD ANIMAL PRACTICE

Characteristics of Aerococcus viridans isolated from bovine subclinical mastitis and its effect on milk SCC, yield, and composition

(2017) Meng Sun et al.   TROPICAL ANIMAL HEALTH AND PRODUCTION

Milk microbiome and bacterial load following dry cow therapy without antibiotics in dairy cows with healthy mammary gland

(2017) Erika C. R. Bonsaglia et al.   Scientific Reports

Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform

(2017) Chongqing Wen et al.   PLoS One

The bovine milk microbiota: insights and perspectives from -omics studies

(2016) M. F. Addis et al.   Molecular BioSystems

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

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

Human milk microbiota profiles in relation to birthing method, gestation and infant gender

(2016) Camilla Urbaniak 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

Improved rapid and efficient method for Staphylococcus aureus DNA extraction from milk for identification of mastitis pathogens

(2015) Hirotaka UNNO et al.   JOURNAL OF VETERINARY MEDICAL SCIENCE

Evaluation of DNA extraction kits and phylogenetic diversity of the porcine gastrointestinal tract based on Illumina sequencing of two hypervariable regions

(2015) Katharina Burbach et al.   MicrobiologyOpen

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

(2014) Susannah J Salter et al.   BMC BIOLOGY

Microbiota of Cow’s Milk; Distinguishing Healthy, Sub-Clinically and Clinically Diseased Quarters

(2014) Georgios Oikonomou et al.   PLoS One

Enzymatic Treatment of Specimens before DNA Extraction Directly Influences Molecular Detection of Infectious Agents

(2014) Pablo Goldschmidt et al.   PLoS One

Bacterial Community Profiling of Milk Samples as a Means to Understand Culture-Negative Bovine Clinical Mastitis

(2013) Joanna S. Kuehn et al.   PLoS One

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

(2012) J Gregory Caporaso et al.   ISME Journal

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

PCR inhibitors - occurrence, properties and removal

(2012) C. Schrader et al.   JOURNAL OF APPLIED MICROBIOLOGY

Implications of Pyrosequencing Error Correction for Biological Data Interpretation

(2012) Matthew G. Bakker et al.   PLoS One

Microbial Diversity of Bovine Mastitic Milk as Described by Pyrosequencing of Metagenomic 16s rDNA

(2012) Georgios Oikonomou et al.   PLoS One

Characterization of the bacterial community structure of Sydney Tar Ponds sediment

(2011) C. William Yeung et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Propionibacterium acnes: infection beyond the skin

(2011) Alexandra Perry et al.   Expert Review of Anti-Infective Therapy

Characterization of the Diversity and Temporal Stability of Bacterial Communities in Human Milk

(2011) Katherine M. Hunt et al.   PLoS One

Proteomics of corynebacteria: From biotechnology workhorses to pathogens

(2011) Ansgar Poetsch et al.   PROTEOMICS

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates

(2009) Victor Kunin et al.   ENVIRONMENTAL MICROBIOLOGY

Yield and amplificability of different DNA extraction procedures for traceability in the dairy food chain

(2009) Andrea Pirondini et al.   FOOD CONTROL

Systematic artifacts in metagenomes from complex microbial communities

(2009) Vicente Gomez-Alvarez et al.   ISME Journal

Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex

(2008) Micah Hamady et al.   NATURE METHODS

Coagulase-negative staphylococci as cause of bovine mastitis—Not so different from Staphylococcus aureus?

(2008) S TAPONEN et al.   VETERINARY MICROBIOLOGY