Identification of Complex Rumen Microbiome Interaction Within Diverse Functional Niches as Mechanisms Affecting the Variation of Methane Emissions in Bovine

Diverse hydrogen production and consumption pathways influence methane production in ruminants

(2019) Chris Greening et al.   ISME Journal

Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery

(2019) Robert D. Stewart et al.   NATURE BIOTECHNOLOGY

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

(2018) Rekha Seshadri et al.   NATURE BIOTECHNOLOGY

Microbiota composition, gene pool and its expression in Gir cattle ( Bos indicus ) rumen under different forage diets using metagenomic and metatranscriptomic approaches

(2018) Ramesh J. Pandit et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen

(2018) Robert D. Stewart et al.   Nature Communications

Metatranscriptome Sequencing Reveals Insights into the Gene Expression and Functional Potential of Rumen Wall Bacteria

(2018) Evelyne Mann et al.   Frontiers in Microbiology

Identification, Comparison, and Validation of Robust Rumen Microbial Biomarkers for Methane Emissions Using Diverse Bos Taurus Breeds and Basal Diets

(2018) Marc D. Auffret et al.   Frontiers in Microbiology

A pathway for biological methane production using bacterial iron-only nitrogenase

(2018) Yanning Zheng et al.   Nature Microbiology

Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future

(2018) Sharon A. Huws et al.   Frontiers in Microbiology

Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows

(2018) Gareth Frank Difford et al.   PLoS Genetics

Competition between Methanogens and Acetogens in Biocathodes: A Comparison between Potentiostatic and Galvanostatic Control

(2017) Sam Molenaar et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation

(2017) Olov Svartström et al.   ISME Journal

Mapping the ecological networks of microbial communities

(2017) Yandong Xiao et al.   Nature Communications

Global metabolic interaction network of the human gut microbiota for context-specific community-scale analysis

(2017) Jaeyun Sung et al.   Nature Communications

Rumen anaerobic fungi create new opportunities for enhanced methane production from microalgae biomass

(2017) Sevcan Aydin et al.   Algal Research-Biomass Biofuels and Bioproducts

Contribution of Ruminal Fungi, Archaea, Protozoa, and Bacteria to the Methane Suppression Caused by Oilseed Supplemented Diets

(2017) Shaopu Wang et al.   Frontiers in Microbiology

Methane Production in Dairy Cows Correlates with Rumen Methanogenic and Bacterial Community Structure

(2017) Rebecca Danielsson 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

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

(2017) Donovan H. Parks et al.   Nature Microbiology

The effect of rumen ciliates on chitinolytic activity, chitin content and the number of fungal zoospores in the rumen fluid of sheep

(2016) Renata Miltko et al.   ARCHIVES OF ANIMAL NUTRITION

Specific microbiome-dependent mechanisms underlie the energy harvest efficiency of ruminants

(2016) Sheerli Kruger Ben Shabat et al.   ISME Journal

Effect of dietary nitrate level on enteric methane production, hydrogen emission, rumen fermentation, and nutrient digestibility in dairy cows

(2016) D.W. Olijhoek et al.   JOURNAL OF DAIRY SCIENCE

The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible

(2016) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Bovine Host Genetic Variation Influences Rumen Microbial Methane Production with Best Selection Criterion for Low Methane Emitting and Efficiently Feed Converting Hosts Based on Metagenomic Gene Abundance

(2016) Rainer Roehe et al.   PLoS Genetics

Rumen metagenome and metatranscriptome analyses of low methane yield sheep reveals a Sharpea-enriched microbiome characterised by lactic acid formation and utilisation

(2016) Janine Kamke et al.   Microbiome

Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota

(2016) Inka Vanwonterghem et al.   Nature Microbiology

Inhibition of methane and natural gas hydrate formation by altering the structure of water with amino acids

(2016) Jeong-Hoon Sa et al.   Scientific Reports

The rumen microbial metagenome associated with high methane production in cattle

(2015) R. John Wallace et al.   BMC GENOMICS

The players may change but the game remains: network analyses of ruminal microbiomes suggest taxonomic differences mask functional similarity

(2015) Tasia M. Taxis et al.   NUCLEIC ACIDS RESEARCH

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

Associative patterns among anaerobic fungi, methanogenic archaea, and bacterial communities in response to changes in diet and age in the rumen of dairy cows

(2015) Sanjay Kumar et al.   Frontiers in Microbiology

Niche distribution and influence of environmental parameters in marine microbial communities: a systematic review

(2015) Felipe H. Coutinho et al.   PeerJ

Hydrogen and methane emissions from beef cattle and their rumen microbial community vary with diet, time after feeding and genotype

(2014) John A. Rooke et al.   BRITISH JOURNAL OF NUTRITION

Anaerobic fungi (phylumNeocallimastigomycota): advances in understanding their taxonomy, life cycle, ecology, role and biotechnological potential

(2014) Robert J. Gruninger et al.   FEMS MICROBIOLOGY ECOLOGY

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

(2014) Weibing Shi et al.   GENOME RESEARCH

Archaeal abundance in post-mortem ruminal digesta may help predict methane emissions from beef cattle

(2014) R. John Wallace et al.   Scientific Reports

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

Phylogenomic Data Support a Seventh Order of Methylotrophic Methanogens and Provide Insights into the Evolution of Methanogenesis

(2013) Guillaume Borrel et al.   Genome Biology and Evolution

Effects of GC Bias in Next-Generation-Sequencing Data on De Novo Genome Assembly

(2013) Yen-Chun Chen et al.   PLoS One

Methylotrophic methanogenic Thermoplasmata implicated in reduced methane emissions from bovine rumen

(2013) Morten Poulsen et al.   Nature Communications

Methanogenic Population and CH4Production in Swedish Dairy Cows Fed Different Levels of Forage

(2012) R. Danielsson et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

Rumen protozoa and methanogenesis: not a simple cause–effect relationship

(2011) Diego P. Morgavi et al.   BRITISH JOURNAL OF NUTRITION

Using network analysis to explore co-occurrence patterns in soil microbial communities

(2011) Albert Barberán et al.   ISME Journal

Long-term defaunation increases the abundance of cellulolytic ruminococci and methanogens but does not affect the bacterial and methanogen diversity in the rumen of sheep1

(2011) P. Mosoni et al.   JOURNAL OF ANIMAL SCIENCE

Relationship between rumen methanogens and methane production in dairy cows fed diets supplemented with a feed enzyme additive

(2011) M. Zhou et al.   JOURNAL OF APPLIED MICROBIOLOGY

Ruminant enteric methane mitigation: a review

(2011) D. J. Cottle et al.   Animal Production Science

Microbial ecosystem and methanogenesis in ruminants

(2010) D. P. Morgavi et al.   Animal

Influence of hydrogen on rumen methane formation and fermentation balances through microbial growth kinetics and fermentation thermodynamics

(2010) Peter H. Janssen   ANIMAL FEED SCIENCE AND TECHNOLOGY

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

Structure of the Archaeal Community of the Rumen

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

Methanogenic archaea: ecologically relevant differences in energy conservation

(2008) Rudolf K. Thauer et al.   NATURE REVIEWS MICROBIOLOGY