The structure of microbial populations in Nelore GIT reveals inter-dependency of methanogens in feces and rumen

Long-Term Encapsulated Nitrate Supplementation Modulates Rumen Microbial Diversity and Rumen Fermentation to Reduce Methane Emission in Grazing Steers

(2019) Yury Tatiana Granja-Salcedo et al.   Frontiers in Microbiology

Changes in the gut microbiome and fermentation products concurrent with enhanced longevity in acarbose-treated mice

(2019) Byron J Smith et al.   BMC MICROBIOLOGY

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Comparing the Microbial Community in Four Stomach of Dairy Cattle, Yellow Cattle and Three Yak Herds in Qinghai-Tibetan Plateau

(2019) Jinwei Xin et al.   Frontiers in Microbiology

Rumen and Fecal Microbial Community Structure of Holstein and Jersey Dairy Cows as Affected by Breed, Diet, and Residual Feed Intake

(2019) Samantha J. Noel et al.   Animals

FastSpar: rapid and scalable correlation estimation for compositional data

(2018) Stephen C Watts et al.   BIOINFORMATICS

Illumina Sequencing Approach to Characterize Thiamine Metabolism Related Bacteria and the Impacts of Thiamine Supplementation on Ruminal Microbiota in Dairy Cows Fed High-Grain Diets

(2017) Xiaohua Pan et al.   Frontiers in Microbiology

Metatranscriptomics Reveals the Active Bacterial and Eukaryotic Fibrolytic Communities in the Rumen of Dairy Cow Fed a Mixed Diet

(2017) Sophie Comtet-Marre et al.   Frontiers in Microbiology

The ruminal microbiome associated with methane emissions from ruminant livestock

(2017) Ilma Tapio et al.   Journal of Animal Science and Biotechnology

Microbial succession in the gastrointestinal tract of dairy cows from 2 weeks to first lactation

(2017) Kimberly A. Dill-McFarland et al.   Scientific Reports

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Oral Samples as Non-Invasive Proxies for Assessing the Composition of the Rumen Microbial Community

(2016) Ilma Tapio et al.   PLoS One

Phylogeny of Intestinal Ciliates, Including Charonina ventriculi, and Comparison of Microscopy and 18S rRNA Gene Pyrosequencing for Rumen Ciliate Community Structure Analysis

(2015) Sandra Kittelmann et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range

(2015) Gemma Henderson et al.   Scientific Reports

The Role of Ciliate Protozoa in the Rumen

(2015) Charles J. Newbold et al.   Frontiers in Microbiology

Microbial community profiles of the colon from steers differing in feed efficiency

(2015) Phillip R Myer et al.   SpringerPlus

Rumen Microbiome from Steers Differing in Feed Efficiency

(2015) Phillip R. Myer et al.   PLoS One

Influence of rumen protozoa on methane emission in ruminants: a meta-analysis approach

(2014) J. Guyader et al.   Animal

Bacteria from Diverse Habitats Colonize and Compete in the Mouse Gut

(2014) Henning Seedorf et al.   CELL

Bozasella gracilis n. sp. (Ciliophora, Entodiniomorphida) from Asian elephant and phylogenetic analysis of entodiniomorphids and vestibuliferids

(2014) Akira Ito et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome

(2014) Weibing Shi et al.   GENOME RESEARCH

Potential Role of the Bovine Rumen Microbiome in Modulating Milk Composition and Feed Efficiency

(2014) Elie Jami et al.   PLoS One

Two Different Bacterial Community Types Are Linked with the Low-Methane Emission Trait in Sheep

(2014) Sandra Kittelmann et al.   PLoS One

RIM-DB: a taxonomic framework for community structure analysis of methanogenic archaea from the rumen and other intestinal environments

(2014) Henning Seedorf et al.   PeerJ

Genome sequencing of rumen bacteria and archaea and its application to methane mitigation strategies

(2013) S. C. Leahy et al.   Animal

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

Characterizing the microbiota across the gastrointestinal tract of a Brazilian Nelore steer

(2013) Marcelo Nagem Valério de Oliveira et al.   VETERINARY MICROBIOLOGY

Effect of Phenotypic Residual Feed Intake and Dietary Forage Content on the Rumen Microbial Community of Beef Cattle

(2012) Ciara A. Carberry et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

Diversity and abundance of the rumen and fecal methanogens in Altay sheep native to Xinjiang and the influence of diversity on methane emissions

(2011) C. Liu et al.   ARCHIVES OF MICROBIOLOGY

The Genome Sequence of the Rumen Methanogen Methanobrevibacter ruminantium Reveals New Possibilities for Controlling Ruminant Methane Emissions

(2010) Sinead C. Leahy et al.   PLoS One

Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis

(2008) Harry J. Flint et al.   NATURE REVIEWS MICROBIOLOGY