The rumen microbiome: balancing food security and environmental impacts

Investigating temporal microbial dynamics in the rumen of beef calves raised on two farms during early life

(2020) Eóin O'Hara et al.   FEMS MICROBIOLOGY ECOLOGY

Stochasticity constrained by deterministic effects of diet and age drive rumen microbiome assembly dynamics

(2020) Ori Furman et al.   Nature Communications

Metabolic Hydrogen Flows in Rumen Fermentation: Principles and Possibilities of Interventions

(2020) Emilio M. Ungerfeld   Frontiers in Microbiology

A Meta-analysis Describing the Effects of the Essential oils Blend Agolin Ruminant on Performance, Rumen Fermentation and Methane Emissions in Dairy Cows

(2020) Alejandro Belanche et al.   Animals

Trophic Interactions and the Drivers of Microbial Community Assembly

(2020) Matti Gralka et al.   CURRENT BIOLOGY

The Road Not Taken: The Rumen Microbiome, Functional Groups, and Community States

(2019) Sarah Moraïs et al.   TRENDS IN MICROBIOLOGY

Comparative metagenomic and metatranscriptomic analyses reveal the breed effect on the rumen microbiome and its associations with feed efficiency in beef cattle

(2019) Fuyong Li et al.   Microbiome

Diverse hydrogen production and consumption pathways influence methane production in ruminants

(2019) Chris Greening et al.   ISME Journal

Host genetics influence the rumen microbiota and heritable rumen microbial features associate with feed efficiency in cattle

(2019) Fuyong Li et al.   Microbiome

Ruminal microbiome-host crosstalk stimulates the development of the ruminal epithelium in a lamb model

(2019) Limei Lin et al.   Microbiome

A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions

(2019) R. John Wallace et al.   Science Advances

Short communication: Heritability of methane production and genetic correlations with milk yield and body weight in Holstein-Friesian dairy cows

(2019) I.S. Breider et al.   JOURNAL OF DAIRY SCIENCE

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

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

Characterization of antibiotic resistance genes in the species of the rumen microbiota

(2019) Yasmin Neves Vieira Sabino et al.   Nature Communications

Unravelling plasmidome distribution and interaction with its hosting microbiome

(2019) Aya Brown Kav et al.   ENVIRONMENTAL MICROBIOLOGY

Temporal changes of the bacterial community colonizing wheat straw in the cow rumen

(2018) Wei Jin et al.   ANAEROBE

Microbiome niche modification drives diurnal rumen community assembly, overpowering individual variability and diet effects

(2018) Yoav Shaani et al.   ISME Journal

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

(2018) Rekha Seshadri et al.   NATURE BIOTECHNOLOGY

Asparagopsis taxiformis decreases enteric methane production from sheep

(2018) Xixi Li et al.   Animal Production Science

Comparative Analysis of the Microbiota Between Sheep Rumen and Rabbit Cecum Provides New Insight Into Their Differential Methane Production

(2018) Lan Mi et al.   Frontiers in Microbiology

Review: The compositional variation of the rumen microbiome and its effect on host performance and methane emission

(2018) I. Mizrahi et al.   Animal

Both air-sea components are crucial for El Niño forecast from boreal spring

(2018) Xiang-Hui Fang et al.   Scientific Reports

Insights Into Culturomics of the Rumen Microbiome

(2018) Tamar Zehavi et al.   Frontiers in Microbiology

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

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

Formate cross-feeding and cooperative metabolic interactions revealed by transcriptomics in co-cultures of acetogenic and amylolytic human colonic bacteria

(2018) Jenny A. Laverde Gomez et al.   ENVIRONMENTAL MICROBIOLOGY

Reducing enteric methane emissions from dairy cattle: Two ways to supplement 3-nitrooxypropanol

(2018) D. Van Wesemael et al.   JOURNAL OF DAIRY SCIENCE

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

(2018) Gareth Frank Difford et al.   PLoS Genetics

Exploring the Prokaryotic Community Associated With the Rumen Ciliate Protozoa Population

(2018) Bar Levy et al.   Frontiers in Microbiology

Analysis of the Rumen Microbiome and Metabolome to Study the Effect of an Antimethanogenic Treatment Applied in Early Life of Kid Goats

(2018) Leticia Abecia et al.   Frontiers in Microbiology

Inhibition of Rumen Methanogens by a Novel Archaeal Lytic Enzyme Displayed on Tailored Bionanoparticles

(2018) Eric Altermann et al.   Frontiers in Microbiology

Ruminal methane production: Associated microorganisms and the potential of applying hydrogen-utilizing bacteria for mitigation

(2018) Wei Lan et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Outer membrane vesicles from Fibrobacter succinogenes S85 contain an array of carbohydrate-active enzymes with versatile polysaccharide-degrading capacity

(2017) Magnus Ø. Arntzen et al.   ENVIRONMENTAL MICROBIOLOGY

Compositional and functional dynamics of the bovine rumen methanogenic community across different developmental stages

(2017) Nir Friedman et al.   ENVIRONMENTAL MICROBIOLOGY

Influence of Manure Application on the Environmental Resistome under Finnish Agricultural Practice with Restricted Antibiotic Use

(2017) Johanna Muurinen et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Impact of anthropogenic activities on the dissemination of antibiotic resistance across ecological boundaries

(2017) Vijay Tripathi et al.   Essays in Biochemistry

Rumen microbiota and dietary fat: a mutual shaping

(2017) F. Enjalbert et al.   JOURNAL OF APPLIED MICROBIOLOGY

Phylogenetic and Structural Comparisons of the Three Types of Methyl Coenzyme M Reductase from Methanococcales and Methanobacteriales

(2017) Tristan Wagner et al.   JOURNAL OF BACTERIOLOGY

Heritable Bovine Rumen Bacteria Are Phylogenetically Related and Correlated with the Cow’s Capacity To Harvest Energy from Its Feed

(2017) Goor Sasson et al.   mBio

Monensin and Nisin Affect Rumen Fermentation and Microbiota Differently In Vitro

(2017) Junshi Shen et al.   Frontiers in Microbiology

Rumen methanogens and mitigation of methane emission by anti-methanogenic compounds and substances

(2017) Amlan Patra et al.   Journal of Animal Science and Biotechnology

The ruminal microbiome associated with methane emissions from ruminant livestock

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

Nitrate decreases methane production also by increasing methane oxidation through stimulating NC10 population in ruminal culture

(2017) Lihui Liu et al.   AMB Express

The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle

(2017) Marc D. Auffret et al.   Microbiome

A Review of Antibiotic Use in Food Animals: Perspective, Policy, and Potential

(2017) Timothy F. Landers et al.   PUBLIC HEALTH REPORTS

Metagenomic characterization of the effect of feed additives on the gut microbiome and antibiotic resistome of feedlot cattle

(2017) Milton Thomas et al.   Scientific Reports

An adhesin from hydrogen-utilizing rumen methanogen M ethanobrevibacter ruminantium  M1 binds a broad range of hydrogen-producing microorganisms

(2016) Filomena Ng et al.   ENVIRONMENTAL MICROBIOLOGY

Diet-induced changes of redox potential underlie compositional shifts in the rumen archaeal community

(2016) Nir Friedman et al.   ENVIRONMENTAL MICROBIOLOGY

Formation of propionate and butyrate by the human colonic microbiota

(2016) Petra Louis et al.   ENVIRONMENTAL MICROBIOLOGY

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

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

Identification of bioactives from the red seaweed Asparagopsis taxiformis that promote antimethanogenic activity in vitro

(2016) Lorenna Machado et al.   JOURNAL OF APPLIED PHYCOLOGY

Characterization and comparison of the temporal dynamics of ruminal bacterial microbiota colonizing rice straw and alfalfa hay within ruminants

(2016) Junhua Liu et al.   JOURNAL OF DAIRY SCIENCE

Insights on Alterations to the Rumen Ecosystem by Nitrate and Nitrocompounds

(2016) Elizabeth A. Latham et al.   Frontiers in Microbiology

Antimicrobial usage and resistance in beef production

(2016) Andrew Cameron et al.   Journal of Animal Science and Biotechnology

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

Characterization of the resistome in manure, soil and wastewater from dairy and beef production systems

(2016) Noelle R. Noyes et al.   Scientific Reports

Gene network analysis identifies rumen epithelial cell proliferation, differentiation and metabolic pathways perturbed by diet and correlated with methane production

(2016) Ruidong Xiang et al.   Scientific Reports

Biomass hydrolysis inhibition at high hydrogen partial pressure in solid-state anaerobic digestion

(2015) E.A. Cazier et al.   BIORESOURCE TECHNOLOGY

The rumen microbial metagenome associated with high methane production in cattle

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

The animal gut as a melting pot for horizontal gene transfer

(2015) N. Shterzer et al.   CANADIAN JOURNAL OF MICROBIOLOGY

RUMINANT NUTRITION SYMPOSIUM: Use of genomics and transcriptomics to identify strategies to lower ruminal methanogenesis1,2,3

(2015) T. A. McAllister et al.   JOURNAL OF ANIMAL SCIENCE

Global trends in antimicrobial use in food animals

(2015) Thomas P. Van Boeckel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An inhibitor persistently decreased enteric methane emission from dairy cows with no negative effect on milk production

(2015) Alexander N. Hristov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Manipulating rumen microbiome and fermentation through interventions during early life: a review

(2015) David R. Yáñez-Ruiz et al.   Frontiers in Microbiology

Redundancy, resilience, and host specificity of the ruminal microbiota: implications for engineering improved ruminal fermentations

(2015) Paul J. Weimer   Frontiers in Microbiology

Presence of Selected Methanogens, Fibrolytic Bacteria, and Proteobacteria in the Gastrointestinal Tract of Neonatal Dairy Calves from Birth to 72 Hours

(2015) Cesar E. Guzman et al.   PLoS One

Metagenomic Analysis of Antibiotic Resistance Genes in Dairy Cow Feces following Therapeutic Administration of Third Generation Cephalosporin

(2015) Lindsey Chambers et al.   PLoS One

The complete genome sequence of the rumen methanogen Methanobacterium formicicum BRM9

(2015) William J Kelly et al.   Standards in Genomic Sciences

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

(2014) J. Guyader et al.   Animal

Prepartum and Postpartum Rumen Fluid Microbiomes: Characterization and Correlation with Production Traits in Dairy Cows

(2014) Fabio S. Lima et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

(2014) Weibing Shi et al.   GENOME RESEARCH

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

(2014) Nicole Reichardt et al.   ISME Journal

Measures of methane production and their phenotypic relationships with dry matter intake, growth, and body composition traits in beef cattle1,2

(2014) R. M. Herd et al.   JOURNAL OF ANIMAL SCIENCE

Characterization of the Core Rumen Microbiome in Cattle during Transition from Forage to Concentrate as Well as during and after an Acidotic Challenge

(2014) Renee M. Petri et al.   PLoS One

Effects of Marine and Freshwater Macroalgae on In Vitro Total Gas and Methane Production

(2014) Lorenna Machado 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

Land, irrigation water, greenhouse gas, and reactive nitrogen burdens of meat, eggs, and dairy production in the United States

(2014) G. Eshel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Feeding management in early life influences microbial colonisation and fermentation in the rumen of newborn goat kids

(2014) L. Abecia et al.   Animal Production Science

Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling

(2014) Hailan Piao et al.   Frontiers in Microbiology

Determining the culturability of the rumen bacterial microbiome

(2014) Christopher J. Creevey et al.   Microbial Biotechnology

New aspects and strategies for methane mitigation from ruminants

(2013) Sanjay Kumar et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Low-methane yield sheep have smaller rumens and shorter rumen retention time

(2013) John P. Goopy et al.   BRITISH JOURNAL OF NUTRITION

Exploring the bovine rumen bacterial community from birth to adulthood

(2013) Elie Jami et al.   ISME Journal

SPECIAL TOPICS — Mitigation of methane and nitrous oxide emissions from animal operations: I. A review of enteric methane mitigation options1

(2013) A. N. Hristov et al.   JOURNAL OF ANIMAL SCIENCE

Nutritional intervention in early life to manipulate rumen microbial colonization and methane output by kid goats postweaning1

(2013) L. Abecia et al.   JOURNAL OF ANIMAL SCIENCE

Correlation between veterinary antimicrobial use and antimicrobial resistance in food-producing animals: a report on seven countries

(2013) I. Chantziaras et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The effect of dietary fats on methane emissions, and its other effects on digestibility, rumen fermentation and lactation performance in cattle: A meta-analysis

(2013) Amlan Kumar Patra   Livestock Science

Restrictions on antimicrobial use in food animal production: an international regulatory and economic survey

(2013) Dina Maron et al.   Globalization and Health

A theoretical comparison between two ruminal electron sinks

(2013) Emilio M. Ungerfeld   Frontiers in Microbiology

Rumen microbial (meta)genomics and its application to ruminant production

(2012) D. P. Morgavi et al.   Animal

Lactate and Acrylate Metabolism by Megasphaera elsdenii under Batch and Steady-State Conditions

(2012) Rupal Prabhu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Methanogen Colonisation Does Not Significantly Alter Acetogen Diversity in Lambs Isolated 17 h After Birth and Raised Aseptically

(2012) Emma J. Gagen et al.   MICROBIAL ECOLOGY

Bacteriocins — a viable alternative to antibiotics?

(2012) Paul D. Cotter et al.   NATURE REVIEWS MICROBIOLOGY

Composition and Similarity of Bovine Rumen Microbiota across Individual Animals

(2012) Elie Jami et al.   PLoS One

Insights into the bovine rumen plasmidome

(2012) A. B. Kav et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Can enteric methane emissions from ruminants be lowered without lowering their production?

(2011) C. Grainger et al.   ANIMAL FEED SCIENCE AND TECHNOLOGY

Chloroform decreases rumen methanogenesis and methanogen populations without altering rumen function in cattle

(2011) T. Knight et al.   ANIMAL FEED SCIENCE AND TECHNOLOGY

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

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

Meta-analysis on the effects of lipid supplementation on methane production in lactating dairy cows

(2011) M. Eugène et al.   CANADIAN JOURNAL OF ANIMAL SCIENCE

Status of the phylogenetic diversity census of ruminal microbiomes

(2011) Minseok Kim et al.   FEMS MICROBIOLOGY ECOLOGY

The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist

(2011) Garret Suen et al.   PLoS One

Isolation of Succinivibrionaceae Implicated in Low Methane Emissions from Tammar Wallabies

(2011) P. B. Pope et al.   SCIENCE

The role of microbes in rumen lipolysis and biohydrogenation and their manipulation

(2010) M. Lourenço et al.   Animal

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

Nitrate and sulfate: Effective alternative hydrogen sinks for mitigation of ruminal methane production in sheep

(2010) S.M. van Zijderveld et al.   JOURNAL OF DAIRY SCIENCE

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

Methanogens: Methane Producers of the Rumen and Mitigation Strategies

(2010) Sarah E. Hook et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Methane mitigation in ruminants: from microbe to the farm scale

(2009) C. Martin et al.   Animal

A Vaccine against Rumen Methanogens Can Alter the Composition of Archaeal Populations

(2009) Y. J. Williams et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Assessment of the Microbial Ecology of Ruminal Methanogens in Cattle with Different Feed Efficiencies

(2009) M. Zhou et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Electron transfer in syntrophic communities of anaerobic bacteria and archaea

(2009) Alfons J. M. Stams et al.   NATURE REVIEWS MICROBIOLOGY

Structure of the Archaeal Community of the Rumen

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

Changes in methane emission and rumen fermentation parameters induced by refaunation in sheep

(2008) D. P. Morgavi et al.   Australian journal of experimental agriculture

Effects of the absence of protozoa from birth or from weaning on the growth and methane production of lambs

(2008) R. S. Hegarty et al.   BRITISH JOURNAL OF NUTRITION

Effect of DL-malic acid supplementation on feed intake, methane emission, and rumen fermentation in beef cattle

(2008) P. A. Foley et al.   JOURNAL OF ANIMAL SCIENCE

Worlds within worlds: evolution of the vertebrate gut microbiota

(2008) Ruth E. Ley et al.   NATURE REVIEWS MICROBIOLOGY