Effect of Dietary Forage to Concentrate Ratios on Dynamic Profile Changes and Interactions of Ruminal Microbiota and Metabolites in Holstein Heifers

Changes in Microbiota in Rumen Digesta and Feces Due to a Grain-Based Subacute Ruminal Acidosis (SARA) Challenge

(2017) Jan C. Plaizier et al.   MICROBIAL ECOLOGY

Feeding a High Concentration Diet Induces Unhealthy Alterations in the Composition and Metabolism of Ruminal Microbiota and Host Response in a Goat Model

(2017) Canfeng Hua 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

Assessment of Ruminal Bacterial and Archaeal Community Structure in Yak (Bos grunniens)

(2017) Zhenming Zhou et al.   Frontiers in Microbiology

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

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

Efficiency and rumen responses in younger and older Holstein heifers limit-fed diets of differing energy density 1

(2016) G.I. Zanton et al.   JOURNAL OF DAIRY SCIENCE

Insights into Abundant Rumen Ureolytic Bacterial Community Using Rumen Simulation System

(2016) Di Jin et al.   Frontiers in Microbiology

The Contribution of Mathematical Modeling to Understanding Dynamic Aspects of Rumen Metabolism

(2016) André Bannink et al.   Frontiers in Microbiology

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

Grain-rich diets altered the colonic fermentation and mucosa-associated bacterial communities and induced mucosal injuries in goats

(2016) Huimin Ye et al.   Scientific Reports

Integrated Metabolomics Study of the Milk of Heat-stressed Lactating Dairy Cows

(2016) He Tian et al.   Scientific Reports

Microbiome-metabolome analysis reveals unhealthy alterations in the composition and metabolism of ruminal microbiota with increasing dietary grain in a goat model

(2015) Sheng-Yong Mao et al.   ENVIRONMENTAL MICROBIOLOGY

Classification of marine Ascomycota, Basidiomycota, Blastocladiomycota and Chytridiomycota

(2015) E. B. Gareth Jones et al.   FUNGAL DIVERSITY

Metabolomics of Four Biofluids from Dairy Cows: Potential Biomarkers for Milk Production and Quality

(2015) Hui-Zeng Sun et al.   JOURNAL OF PROTEOME 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

Characterising the bacterial microbiota across the gastrointestinal tracts of dairy cattle: membership and potential function

(2015) Shengyong Mao et al.   Scientific Reports

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

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

Discovery of a novel rumen methanogen in the anaerobic fungal culture and its distribution in the rumen as revealed by real-time PCR

(2014) Wei Jin et al.   BMC MICROBIOLOGY

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

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

Assessment of a biogas-generating microbial community in a pilot-scale anaerobic reactor

(2014) Elvira E. Ziganshina et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

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

Internal Transcribed Spacer 1 Secondary Structure Analysis Reveals a Common Core throughout the Anaerobic Fungi (Neocallimastigomycota)

(2014) Christian Koetschan et al.   PLoS One

Microbial community structure and diversity in deep-sea hydrothermal vent sediments along the Eastern Lau Spreading Centre

(2013) Manman Wei et al.   ACTA OCEANOLOGICA SINICA

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

(2013) S.Y. Mao et al.   ANAEROBE

Newly Cultured Bacteria with Broad Diversity Isolated from Eight-Week Continuous Culture Enrichments of Cow Feces on Complex Polysaccharides

(2013) Cherie J. Ziemer   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

Exploring the bovine rumen bacterial community from birth to adulthood

(2013) Elie Jami et al.   ISME Journal

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

Microbial butyrate and its role for barrier function in the gastrointestinal tract

(2012) Svenja Plöger et al.   Annals of the New York Academy of Sciences

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

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

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

Effect of Origanum vulgare L. leaves on rumen fermentation, production, and milk fatty acid composition in lactating dairy cows

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

The Bovine Ruminal Fluid Metabolome

(2012) Fozia Saleem et al.   Metabolomics

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

Interplay between rumen digestive disorders and diet-induced inflammation in dairy cattle

(2012) Q. Zebeli et al.   RESEARCH IN VETERINARY SCIENCE

Functional characterization of cellulases identified from the cow rumen fungus Neocallimastix patriciarum W5 by transcriptomic and secretomic analyses

(2011) Tzi-Yuan Wang et al.   Biotechnology for Biofuels

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

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

Impact of subacute ruminal acidosis (SARA) adaptation and recovery on the density and diversity of bacteria in the rumen of dairy cows

(2011) Sarah E. Hook 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

Proline and hydroxyproline metabolism: implications for animal and human nutrition

(2010) Guoyao Wu et al.   AMINO ACIDS

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

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

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Phylogenetic diversity and community structure of anaerobic gut fungi (phylum Neocallimastigomycota) in ruminant and non-ruminant herbivores

(2010) Audra S Liggenstoffer et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FiehnLib: Mass Spectral and Retention Index Libraries for Metabolomics Based on Quadrupole and Time-of-Flight Gas Chromatography/Mass Spectrometry

(2009) Tobias Kind et al.   ANALYTICAL CHEMISTRY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Digestion and nitrogen utilization in dairy heifers limit-fed a low or high forage ration at four levels of nitrogen intake

(2009) G.I. Zanton et al.   JOURNAL OF DAIRY SCIENCE

Cloning of a rumen fungal xylanase gene and purification of the recombinant enzyme via artificial oil bodies

(2008) Je-Ruei Liu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Effects of maize grain and lucerne particle size on ruminal fermentation, digestibility and performance of cows in midlactation

(2007) Z. J. Cao et al.   JOURNAL OF ANIMAL PHYSIOLOGY AND ANIMAL NUTRITION