Solid diet manipulates rumen epithelial microbiota and its interactions with host transcriptomic in young ruminants

IGFBP2: integrative hub of developmental and oncogenic signaling network

(2020) Tao Li et al.   ONCOGENE

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

(2019) Limei Lin et al.   Microbiome

Review of Strategies to Promote Rumen Development in Calves

(2019) Qiyu Diao et al.   Animals

Transcriptome Analysis Reveals That Alfalfa Promotes Rumen Development Through Enhanced Metabolic Processes and Calcium Transduction in Hu Lambs

(2019) Bin Yang et al.   Frontiers in Genetics

The Signature Microbiota Drive Rumen Function Shifts in Goat Kids Introduced to Solid Diet Regimes

(2019) Xiaokang Lv et al.   Microorganisms

Changes in the Rumen Epithelial Microbiota of Cattle and Host Gene Expression in Response to Alterations in Dietary Carbohydrate Composition

(2018) R. M. Petri et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A rapid shift to high-grain diet results in dynamic changes in rumen epimural microbiome in sheep

(2018) H. Seddik et al.   Animal

Linkages between Epithelial Microbiota and Host Transcriptome in the Ileum during High-Grain Challenges: Implications for Gut Homeostasis in Goats

(2018) Jinzhen Jiao et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Effects of dietary neutral detergent fiber and starch ratio on rumen epithelial cell morphological structure and gene expression in dairy cows

(2017) L. Ma et al.   JOURNAL OF DAIRY SCIENCE

Epimural bacterial community structure in the rumen of Holstein cows with different responses to a long-term subacute ruminal acidosis diet challenge

(2017) S.U. Wetzels et al.   JOURNAL OF DAIRY SCIENCE

Alterations in the Rumen Liquid-, Particle- and Epithelium-Associated Microbiota of Dairy Cows during the Transition from a Silage- and Concentrate-Based Ration to Pasture in Spring

(2017) Melanie Schären et al.   Frontiers in Microbiology

Transcriptome profiling of the rumen epithelium of beef cattle differing in residual feed intake

(2016) Rebecca S. G. Kong et al.   BMC GENOMICS

Comparative studies of the composition of bacterial microbiota associated with the ruminal content, ruminal epithelium and in the faeces of lactating dairy cows

(2016) Jun-hua Liu et al.   Microbial Biotechnology

Taxonomic Identification of Ruminal Epithelial Bacterial Diversity during Rumen Development in Goats

(2015) Jinzhen Jiao et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Pyrosequencing reveals shifts in the bacterial epimural community relative to dietary concentrate amount in goats

(2015) S.U. Wetzels et al.   JOURNAL OF DAIRY SCIENCE

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

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

(2015) Shengyong Mao et al.   Scientific Reports

Taxonomic Identification of Commensal Bacteria Associated with the Mucosa and Digesta throughout the Gastrointestinal Tracts of Preweaned Calves

(2014) Nilusha Malmuthuge et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A multivariate approach to the integration of multi-omics datasets

(2014) Chen Meng et al.   BMC BIOINFORMATICS

Agriculture: Steps to sustainable livestock

(2014) Mark C. Eisler et al.   NATURE

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

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

Gene expression in bovine rumen epithelium during weaning identifies molecular regulators of rumen development and growth

(2013) Erin E. Connor et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Variation of bacterial communities and expression of Toll-like receptor genes in the rumen of steers differing in susceptibility to subacute ruminal acidosis

(2012) Yanhong Chen et al.   VETERINARY MICROBIOLOGY

DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

(2009) Likun Wang et al.   BIOINFORMATICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH