RUMINANT NUTRITION SYMPOSIUM: How to use data on the rumen microbiome to improve our understanding of ruminant nutrition1,2

Fish Oil Increases the Duodenal Flow of Long Chain Polyunsaturated Fatty Acids and trans-11 18:1 and Decreases 18:0 in Steers via Changes in the Rumen Bacterial Community

(2018) Eun J. Kim et al.   JOURNAL OF NUTRITION

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

Biomass Utilization by Gut Microbiomes

(2014) Bryan A. White et al.   Annual Review of Microbiology

Nitrogen Utilization and Metabolism in Ruminococcus albus 8

(2014) Jong Nam Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evaluating Bias of Illumina-Based Bacterial 16S rRNA Gene Profiles

(2014) Katherine Kennedy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Design and Validation of Four New Primers for Next-Generation Sequencing To Target the 18S rRNA Genes of Gastrointestinal Ciliate Protozoa

(2014) Suzanne L. Ishaq et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Reconstructing a Thauera genome from a hydrogenotrophic-denitrifying consortium using metagenomic sequence data

(2014) Yanping Mao et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Dietary Transformation of Lipid in the Rumen Microbial Ecosystem

(2014) Eun J. Kim et al.   ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES

Combinations of nitrate, saponin, and sulfate additively reduce methane production by rumen cultures in vitro while not adversely affecting feed digestion, fermentation or microbial communities

(2014) Amlan Kumar Patra et al.   BIORESOURCE TECHNOLOGY

Anaerobic gut fungi: Advances in isolation, culture, and cellulolytic enzyme discovery for biofuel production

(2014) Charles H. Haitjema et al.   BIOTECHNOLOGY AND BIOENGINEERING

Metabolic pathways for the whole community

(2014) Niels W Hanson et al.   BMC GENOMICS

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

Conducting a Microbiome Study

(2014) Julia K. Goodrich et al.   CELL

Effect of Haylage and Monensin Supplementation on Ruminal Bacterial Communities of Feedlot Cattle

(2014) Minseok Kim et al.   CURRENT MICROBIOLOGY

The symbiotic intestinal ciliates and the evolution of their hosts

(2014) Seung Yeo Moon-van der Staay et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

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

Development of a phylogenetic microarray for comprehensive analysis of ruminal bacterial communities

(2014) M. Kim et al.   JOURNAL OF APPLIED MICROBIOLOGY

Eukaryotic inhibitors or activators elicit responses to chemosensory compounds by ruminal isotrichid and entodiniomorphid protozoa

(2014) H.L. Diaz et al.   JOURNAL OF DAIRY SCIENCE

The effect of rumen digesta inoculation on the time course of recovery from classical diet-induced milk fat depression in dairy cows

(2014) D.E. Rico et al.   JOURNAL OF DAIRY SCIENCE

Invited review: Enteric methane in dairy cattle production: Quantifying the opportunities and impact of reducing emissions

(2014) J.R. Knapp et al.   JOURNAL OF DAIRY SCIENCE

Ruminal bacterial community shifts in grain-, sugar-, and histidine-challenged dairy heifers

(2014) H.M. Golder et al.   JOURNAL OF DAIRY SCIENCE

Effects of partial mixed rations and supplement amounts on milk production and composition, ruminal fermentation, bacterial communities, and ruminal acidosis

(2014) H.M. Golder et al.   JOURNAL OF DAIRY SCIENCE

Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes

(2014) Carly P. Rosewarne et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Variations in 16S rRNA-based microbiome profiling between pyrosequencing runs and between pyrosequencing facilities

(2014) Minseok Kim et al.   JOURNAL OF MICROBIOLOGY

Metabolomics analysis reveals large effect of roughage types on rumen microbial metabolic profile in dairy cows

(2014) S. Zhao et al.   LETTERS IN APPLIED MICROBIOLOGY

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

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

(2014) Elie Jami et al.   PLoS One

Relationship between the Rumen Microbiome and Residual Feed Intake-Efficiency of Brahman Bulls Stocked on Bermudagrass Pastures

(2014) Joshua C. McCann et al.   PLoS One

Development of HuMiChip for Functional Profiling of Human Microbiomes

(2014) Qichao Tu et al.   PLoS One

Analysis, Optimization and Verification of Illumina-Generated 16S rRNA Gene Amplicon Surveys

(2014) Michael C. Nelson et al.   PLoS One

Subcutaneous Adipose Fatty Acid Profiles and Related Rumen Bacterial Populations of Steers Fed Red Clover or Grass Hay Diets Containing Flax or Sunflower-Seed

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

Rumen Cellulosomics: Divergent Fiber-Degrading Strategies Revealed by Comparative Genome-Wide Analysis of Six Ruminococcal Strains

(2014) Bareket Dassa 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

Determining the culturability of the rumen bacterial microbiome

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

Impact of subacute ruminal acidosis (SARA) adaptation on rumen microbiota in dairy cattle using pyrosequencing

(2013) S.Y. Mao et al.   ANAEROBE

Effects of nitrate adaptation by rumen inocula donors and substrate fiber proportion on in vitro nitrate disappearance, methanogenesis, and rumen fermentation acid

(2013) M. Lin et al.   Animal

Changes in the Rumen Epimural Bacterial Diversity of Beef Cattle as Affected by Diet and Induced Ruminal Acidosis

(2013) R. M. Petri et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Rumen Methanogenic Genotypes Differ in Abundance According to Host Residual Feed Intake Phenotype and Diet Type

(2013) CIara A. Carberry et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Genome of the Anaerobic Fungus Orpinomyces sp. Strain C1A Reveals the Unique Evolutionary History of a Remarkable Plant Biomass Degrader

(2013) Noha H. Youssef et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Investigation of ruminal bacterial diversity in dairy cattle fed supplementary monensin alone and in combination with fat, using pyrosequencing analysis

(2013) M. Kim et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Diet Alters Both the Structure and Taxonomy of the Ovine Gut Microbial Ecosystem

(2013) M. J. Ellison et al.   DNA RESEARCH

The challenge of constructing, classifying, and representing metabolic pathways

(2013) Ron Caspi et al.   FEMS MICROBIOLOGY LETTERS

Exploring the bovine rumen bacterial community from birth to adulthood

(2013) Elie Jami et al.   ISME Journal

Board-invited review: Rumen microbiology: Leading the way in microbial ecology1,2

(2013) D. O. Krause et al.   JOURNAL OF ANIMAL SCIENCE

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

Establishment of ruminal bacterial community in dairy calves from birth to weaning is sequential

(2013) M. Rey et al.   JOURNAL OF APPLIED MICROBIOLOGY

Effect of chemical form, heating, and oxidation products of linoleic acid on rumen bacterial population and activities of biohydrogenating enzymes

(2013) A. Kaleem et al.   JOURNAL OF DAIRY SCIENCE

Short communication: Comparison of pH, volatile fatty acids, and microbiome of rumen samples from preweaned calves obtained via cannula or stomach tube

(2013) M. Terré et al.   JOURNAL OF DAIRY SCIENCE

Analysis of rumen microbial populations in lactating dairy cattle fed diets varying in carbohydrate profiles and Saccharomyces cerevisiae fermentation product

(2013) C.R. Mullins et al.   JOURNAL OF DAIRY SCIENCE

Increased papillae growth and enhanced short-chain fatty acid absorption in the rumen of goats are associated with transient increases in cyclin D1 expression after ruminal butyrate infusion

(2013) Moolchand Malhi et al.   JOURNAL OF DAIRY SCIENCE

A Diet High in Resistant Starch Modulates Microbiota Composition, SCFA Concentrations, and Gene Expression in Pig Intestine

(2013) Daniëlle Haenen et al.   JOURNAL OF NUTRITION

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

(2013) Ron Caspi et al.   NUCLEIC ACIDS RESEARCH

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

Influence of Sire Breed on the Interplay among Rumen Microbial Populations Inhabiting the Rumen Liquid of the Progeny in Beef Cattle

(2013) Emma Hernandez-Sanabria et al.   PLoS One

Diet-Induced Alterations in Total and Metabolically Active Microbes within the Rumen of Dairy Cows

(2013) Abderzak Lettat et al.   PLoS One

The Effects of a Probiotic Yeast on the Bacterial Diversity and Population Structure in the Rumen of Cattle

(2013) Eric Pinloche et al.   PLoS One

Metagenomic Insights into the Carbohydrate-Active Enzymes Carried by the Microorganisms Adhering to Solid Digesta in the Rumen of Cows

(2013) Lingling Wang et al.   PLoS One

Comparative Metabolite Fingerprinting of the Rumen System during Colonisation of Three Forage Grass (Lolium perenne L.) Varieties

(2013) Alison H. Kingston-Smith et al.   PLoS One

Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules

(2013) R. Levy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A phylogenetic analysis of the phylum Fibrobacteres

(2013) Kelsea A. Jewell et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

The Effect of Saturated Fatty Acids on Methanogenesis and Cell Viability ofMethanobrevibacter ruminantium

(2013) Xuan Zhou et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

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

(2012) D. P. Morgavi et al.   Animal

Comparative Quantitative Analysis of Gene Expression Profiles of Glycoside Hydrolase Family 10 Xylanases in the Sheep Rumen during a Feeding Cycle

(2012) Zhongyuan Li et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Simple Absolute Quantification Method Correcting for Quantitative PCR Efficiency Variations for Microbial Community Samples

(2012) Robert Brankatschk et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Correlation between Composition of the Bacterial Community and Concentration of Volatile Fatty Acids in the Rumen during the Transition Period and Ketosis in Dairy Cows

(2012) Xiaoxu Wang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

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

Community Structure Analysis of Methanogens Associated with Rumen Protozoa Reveals Bias in Universal Archaeal Primers

(2012) Lisa D. Tymensen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Methanogens and Methanogenesis in the Rumens and Ceca of Lambs Fed Two Different High-Grain-Content Diets

(2012) M. Popova et al.   APPLIED AND ENVIRONMENTAL 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

High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing

(2012) Elizabeth M Ross et al.   BMC GENETICS

Microbial ecology of the rumen evaluated by 454 GS FLX pyrosequencing is affected by starch and oil supplementation of diets

(2012) Asma Zened et al.   FEMS MICROBIOLOGY ECOLOGY

Quantifying the effect of monensin dose on the rumen volatile fatty acid profile in high-grain-fed beef cattle1

(2012) J. L. Ellis et al.   JOURNAL OF ANIMAL SCIENCE

Rumen bacterial, archaeal, and fungal diversity of dairy cows in response to ingestion of lauric or myristic acid1

(2012) A. N. Hristov et al.   JOURNAL OF ANIMAL SCIENCE

In vivo determination of rumen undegradable protein of dried distillers grains with solubles and evaluation of duodenal microbial crude protein flow

(2012) E. Castillo-Lopez et al.   JOURNAL OF ANIMAL SCIENCE

Genome Sequence of Oscillibacter ruminantium Strain GH1, Isolated from Rumen of Korean Native Cattle

(2012) G.-H. Lee et al.   JOURNAL OF BACTERIOLOGY

Interaction of unsaturated fat or coconut oil with monensin in lactating dairy cows fed 12 times daily. I. Protozoal abundance, nutrient digestibility, and microbial protein flow to the omasum1

(2012) C. Reveneau et al.   JOURNAL OF DAIRY SCIENCE

Interaction of unsaturated fat or coconut oil with monensin in lactating dairy cows fed 12 times daily. II. Fatty acid flow to the omasum and milk fatty acid profile1

(2012) C. Reveneau et al.   JOURNAL OF DAIRY SCIENCE

Individual animal variability in ruminal bacterial communities and ruminal acidosis in primiparous Holstein cows during the periparturient period

(2012) R. Mohammed et al.   JOURNAL OF DAIRY SCIENCE

A model of ruminal volatile fatty acid absorption kinetics and rumen epithelial blood flow in lactating Holstein cows

(2012) A.C. Storm et al.   JOURNAL OF DAIRY SCIENCE

A metabolomics approach to uncover the effects of grain diets on rumen health in dairy cows

(2012) F. Saleem et al.   JOURNAL OF DAIRY SCIENCE

Starch plus sunflower oil addition to the diet of dry dairy cows results in a trans-11 to trans-10 shift of biohydrogenation

(2012) A. Zened et al.   JOURNAL OF DAIRY SCIENCE

The Fibrobacteres: an Important Phylum of Cellulose-Degrading Bacteria

(2012) Emma Ransom-Jones et al.   MICROBIAL ECOLOGY

Composition and Similarity of Bovine Rumen Microbiota across Individual Animals

(2012) Elie Jami et al.   PLoS One

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

(2012) Sandra Kittelmann et al.   PLoS One

Metagenomics of the Svalbard Reindeer Rumen Microbiome Reveals Abundance of Polysaccharide Utilization Loci

(2012) Phillip B. Pope 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

Quantification of the relative roles of niche and neutral processes in structuring gastrointestinal microbiomes

(2012) P. Jeraldo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantitative comparisons of select cultured and uncultured microbial populations in the rumen of cattle fed different diets

(2012) Minseok Kim et al.   Journal of Animal Science and Biotechnology

Exploring rumen methanogen genomes to identify targets for methane mitigation strategies

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

Ruminal acidosis in feedlot cattle: Interplay between feed ingredients, rumen function and feeding behavior (a review)

(2011) L.A. González et al.   ANIMAL FEED SCIENCE AND TECHNOLOGY

Effects of Methanogenic Inhibitors on Methane Production and Abundances of Methanogens and Cellulolytic Bacteria inIn VitroRuminal Cultures

(2011) Zhenming Zhou et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Changes in Bacterial Diversity Associated with Epithelial Tissue in the Beef Cow Rumen during the Transition to a High-Grain Diet

(2011) Yanhong Chen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Differences in the Rumen Methanogen Populations of Lactating Jersey and Holstein Dairy Cows under the Same Diet Regimen

(2011) Erin E. King et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Strategy for Modular Tagged High-Throughput Amplicon Sequencing

(2011) Daniel Aguirre de Cárcer et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Impact of Feed Efficiency and Diet on Adaptive Variations in the Bacterial Community in the Rumen Fluid of Cattle

(2011) Emma Hernandez-Sanabria et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evaluation of Subsampling-Based Normalization Strategies for Tagged High-Throughput Sequencing Data Sets from Gut Microbiomes

(2011) Daniel Aguirre de Cárcer et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Characterization of the rumen microbiota of pre-ruminant calves using metagenomic tools

(2011) Robert W. Li et al.   ENVIRONMENTAL MICROBIOLOGY

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

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

Complete Genome of the Cellulolytic Ruminal Bacterium Ruminococcus albus 7

(2011) G. Suen et al.   JOURNAL OF BACTERIOLOGY

Genome Sequence of the Ruminal Bacterium Megasphaera elsdenii

(2011) H. Marx et al.   JOURNAL OF BACTERIOLOGY

A1Ao-ATP Synthase ofMethanobrevibacter ruminantiumCouples Sodium Ions for ATP Synthesis under Physiological Conditions

(2011) Duncan G. G. McMillan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Dietary molasses increases ruminal pH and enhances ruminal biohydrogenation during milk fat depression

(2011) C.A. Martel et al.   JOURNAL OF DAIRY SCIENCE

Identification of enriched conjugated linoleic acid isomers in cultures of ruminal microorganisms after dosing with 1-13C-linoleic acid

(2011) Yong-Jae Lee et al.   JOURNAL OF MICROBIOLOGY

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

High Genetic Diversity and Different Distributions of Glycosyl Hydrolase Family 10 and 11 Xylanases in the Goat Rumen

(2011) Guozeng Wang et al.   PLoS One

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

(2011) Garret Suen et al.   PLoS One

Metagenomic Discovery of Biomass-Degrading Genes and Genomes from Cow Rumen

(2011) M. Hess et al.   SCIENCE

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

Detection and identification of rumen bacteria constituting a fibrolytic consortium dominated byFibrobacter succinogenes

(2010) Takumi SHINKAI et al.   ANIMAL SCIENCE JOURNAL

Molecular Monitoring and Isolation of Previously Uncultured Bacterial Strains from the Sheep Rumen

(2010) S. Koike et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Development of an Environmental Functional Gene Microarray for Soil Microbial Communities

(2010) K. C. McGrath et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Characterization of Variation in Rumen Methanogenic Communities under Different Dietary and Host Feed Efficiency Conditions, as Determined by PCR-Denaturing Gradient Gel Electrophoresis Analysis

(2010) M. Zhou et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Rumen Microbial Population Dynamics during Adaptation to a High-Grain Diet

(2010) S. C. Fernando et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Toxicity of unsaturated fatty acids to the biohydrogenating ruminal bacterium, Butyrivibrio fibrisolvens

(2010) Margarida RG Maia et al.   BMC MICROBIOLOGY

Physiological characteristics of several rumen protozoa grown in vitro with observations on within and among species variation

(2010) Burk A. Dehority   EUROPEAN JOURNAL OF PROTISTOLOGY

The persistence of bacterial and methanogenic archaeal communities residing in the rumen of young lambs

(2010) David R. Yáñez-Ruiz et al.   FEMS MICROBIOLOGY ECOLOGY

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

Genetic diversity and diet specificity of ruminal Prevotella revealed by 16S rRNA gene-based analysis

(2010) Aschalew Z. Bekele et al.   FEMS MICROBIOLOGY LETTERS

Evaluation of bacterial diversity in the rumen and feces of cattle fed different levels of dried distillers grains plus solubles using bacterial tag-encoded FLX amplicon pyrosequencing1

(2010) T. R. Callaway et al.   JOURNAL OF ANIMAL SCIENCE

pH dynamics and bacterial community composition in the rumen of lactating dairy cows

(2010) A. Palmonari et al.   JOURNAL OF DAIRY SCIENCE

Host specificity of the ruminal bacterial community in the dairy cow following near-total exchange of ruminal contents1

(2010) P.J. Weimer et al.   JOURNAL OF DAIRY SCIENCE

Effects of lauric and myristic acids on ruminal fermentation, production, and milk fatty acid composition in lactating dairy cows

(2010) A.N. Hristov et al.   JOURNAL OF DAIRY SCIENCE

Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes

(2010) Minseok Kim et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Comparative Genome Analysis of Prevotella ruminicola and Prevotella bryantii: Insights into Their Environmental Niche

(2010) Janaki Purushe et al.   MICROBIAL ECOLOGY

Quantifying microbial communities with 454 pyrosequencing: does read abundance count?

(2010) ANTHONY S. AMEND et al.   MOLECULAR ECOLOGY

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

The Glycobiome of the Rumen Bacterium Butyrivibrio proteoclasticus B316T Highlights Adaptation to a Polysaccharide-Rich Environment

(2010) William J. Kelly et al.   PLoS One

Reconsidering rumen microbial consortia to enhance feed efficiency and reduce environmental impact of ruminant livestock production systems

(2010) Jeffrey Lynn Firkins   REVISTA BRASILEIRA DE ZOOTECNIA-BRAZILIAN JOURNAL OF ANIMAL SCIENCE

Comparing microarrays and next-generation sequencing technologies for microbial ecology research

(2010) Seong Woon Roh et al.   TRENDS IN BIOTECHNOLOGY

Methanogens: Methane Producers of the Rumen and Mitigation Strategies

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

The Effects of Alignment Quality, Distance Calculation Method, Sequence Filtering, and Region on the Analysis of 16S rRNA Gene-Based Studies

(2010) Patrick D. Schloss   PLoS Computational Biology

Dietary phytochemicals as rumen modifiers: a review of the effects on microbial populations

(2009) Amlan K. Patra et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

High-Throughput Quantitative Analysis of the Human Intestinal Microbiota with a Phylogenetic Microarray

(2009) O. Paliy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Development and application of the human intestinal tract chip, a phylogenetic microarray: analysis of universally conserved phylotypes in the abundant microbiota of young and elderly adults

(2009) Mirjana Rajilić-Stojanović et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2009) Victor Kunin et al.   ENVIRONMENTAL MICROBIOLOGY

Tools for stools: the challenge of assessing human intestinal microbiota using molecular diagnostics

(2009) Jean-François Brugère et al.   EXPERT REVIEW OF MOLECULAR DIAGNOSTICS

Bovicin HC5 inhibits wasteful amino acid degradation by mixed ruminal bacteriain vitro

(2009) Janaína R. Lima et al.   FEMS MICROBIOLOGY LETTERS

Systematic artifacts in metagenomes from complex microbial communities

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

Applying technology with newer feed ingredients in feedlot diets: Do the old paradigms apply?1

(2009) N. DiLorenzo et al.   JOURNAL OF ANIMAL SCIENCE

Effects of sampling location and time, and host animal on assessment of bacterial diversity and fermentation parameters in the bovine rumen

(2009) M. Li et al.   JOURNAL OF APPLIED MICROBIOLOGY

Biochemical Analysis of a  -D-Xylosidase and a Bifunctional Xylanase-Ferulic Acid Esterase from a Xylanolytic Gene Cluster in Prevotella ruminicola 23

(2009) D. Dodd et al.   JOURNAL OF BACTERIOLOGY

Investigating unsaturated fat, monensin, or bromoethanesulfonate in continuous cultures retaining ruminal protozoa. II. Interaction of treatment and presence of protozoa on prokaryotic communities

(2009) S.K.R. Karnati et al.   JOURNAL OF DAIRY SCIENCE

Development of a RT-qPCR method for the quantification of Fibrobacter succinogenes S85 glycoside hydrolase transcripts in the rumen content of gnotobiotic and conventional sheep

(2009) Christel Béra-Maillet et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Metabolism of conjugated linoleic acids and 18 : 1 fatty acids by ruminal bacteria: products and mechanisms

(2009) N. McKain et al.   MICROBIOLOGY-SGM

Accurate determination of microbial diversity from 454 pyrosequencing data

(2009) Christopher Quince et al.   NATURE METHODS

Diversity and Strain Specificity of Plant Cell Wall Degrading Enzymes Revealed by the Draft Genome of Ruminococcus flavefaciens FD-1

(2009) Margret E. Berg Miller et al.   PLoS One

Comparative Analysis of Pyrosequencing and a Phylogenetic Microarray for Exploring Microbial Community Structures in the Human Distal Intestine

(2009) Marcus J. Claesson et al.   PLoS One

Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases

(2009) Jennifer M. Brulc et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent

(2009) F. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of the Archaeal Community of the Rumen

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

Linking rumen function to animal response by application of metagenomics techniques

(2008) J. L. Firkins et al.   Australian journal of experimental agriculture

Nutritional management for enteric methane abatement: a review

(2008) K. A. Beauchemin et al.   Australian journal of experimental agriculture

Quantitative analysis of cellulose degradation and growth of cellulolytic bacteria in the rumen

(2008) James B. Russell et al.   FEMS MICROBIOLOGY ECOLOGY

Advantages and limitations of quantitative PCR (Q-PCR)-based approaches in microbial ecology

(2008) Cindy J. Smith et al.   FEMS MICROBIOLOGY ECOLOGY

Rumen ciliated protozoa decrease generation time and adjust 18S ribosomal DNA copies to adapt to decreased transfer interval, starvation, and monensin

(2008) J.T. Sylvester et al.   JOURNAL OF DAIRY SCIENCE

Analyzing real-time PCR data by the comparative CT method

(2008) Thomas D Schmittgen et al.   Nature Protocols

BOARD-INVITED REVIEW: Recent advances in biohydrogenation of unsaturated fatty acids within the rumen microbial ecosystem1

(2007) T. C. Jenkins et al.   JOURNAL OF ANIMAL SCIENCE