Effect of DNA Extraction Methods and Sampling Techniques on the Apparent Structure of Cow and Sheep Rumen Microbial Communities

Simultaneous Amplicon Sequencing to Explore Co-Occurrence Patterns of Bacterial, Archaeal and Eukaryotic Microorganisms in Rumen Microbial Communities

(2013) Sandra Kittelmann et al.   PLoS One

“Methanoplasmatales,” Thermoplasmatales-Related Archaea in Termite Guts and Other Environments, Are the Seventh Order of Methanogens

(2012) Kristina Paul et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Nitrogen metabolism and rumen microbial enumeration in lactating cows with divergent residual feed intake fed high-digestibility pasture

(2012) A.G. Rius et al.   JOURNAL OF DAIRY SCIENCE

Insertion depth of oral stomach tubes may affect the fermentation parameters of ruminal fluid collected in dairy cows1

(2012) J.S. Shen et al.   JOURNAL OF DAIRY SCIENCE

A Proposed Taxonomy of Anaerobic Fungi (Class Neocallimastigomycetes) Suitable for Large-Scale Sequence-Based Community Structure Analysis

(2012) Sandra Kittelmann et al.   PLoS One

Comparison of DNA Extraction Methods for Microbial Community Profiling with an Application to Pediatric Bronchoalveolar Lavage Samples

(2012) Dana Willner et al.   PLoS One

Next Generation Sequencing to Define Prokaryotic and Fungal Diversity in the Bovine Rumen

(2012) Derrick E. Fouts et al.   PLoS One

Phage-bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome

(2011) Margret E. Berg Miller et al.   ENVIRONMENTAL MICROBIOLOGY

Microbiome analysis of dairy cows fed pasture or total mixed ration diets

(2011) Alexandre B. de Menezes et al.   FEMS MICROBIOLOGY ECOLOGY

Status of the phylogenetic diversity census of ruminal microbiomes

(2011) Minseok Kim et al.   FEMS MICROBIOLOGY ECOLOGY

Methanogen community structure in the rumens of farmed sheep, cattle and red deer fed different diets

(2011) Jeyamalar Jeyanathan et al.   FEMS MICROBIOLOGY ECOLOGY

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Characterization of rumen ciliate community composition in domestic sheep, deer, and cattle, feeding on varying diets, by means of PCR-DGGE and clone libraries

(2010) Sandra Kittelmann et al.   FEMS MICROBIOLOGY ECOLOGY

Comparative analysis of fecal DNA extraction methods with phylogenetic microarray: Effective recovery of bacterial and archaeal DNA using mechanical cell lysis

(2010) Anne Salonen et al.   JOURNAL OF MICROBIOLOGICAL METHODS

The Effects from DNA Extraction Methods on the Evaluation of Microbial Diversity Associated with Human Colonic Tissue

(2010) Páraic Ó Cuív et al.   MICROBIAL ECOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Comparison of DNA extraction kits for PCR-DGGE analysis of human intestinal microbial communities from fecal specimens

(2010) Merlin W Ariefdjohan et al.   Nutrition Journal

Influence of DNA isolation on Q-PCR-based quantification of methanogenic Archaea in biogas fermenters

(2010) I. Bergmann et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Technical note: Bacterial diversity and fermentation end products in rumen fluid samples collected via oral lavage or rumen cannula

(2009) S. L. Lodge-Ivey et al.   JOURNAL OF ANIMAL SCIENCE

Rumen Bacterial Diversity Dynamics Associated with Changing from Bermudagrass Hay to Grazed Winter Wheat Diets

(2009) Dipti W. Pitta et al.   MICROBIAL ECOLOGY

High Prevalence of Methanobrevibacter smithii and Methanosphaera stadtmanae Detected in the Human Gut Using an Improved DNA Detection Protocol

(2009) Bédis Dridi et al.   PLoS One

Structure of the Archaeal Community of the Rumen

(2008) P. H. Janssen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY