Comparison of Two Sampling Techniques for Evaluating Ruminal Fermentation and Microbiota in the Planktonic Phase of Rumen Digesta in Dairy Cows

Extending Burk Dehority’s Perspectives on the Role of Ciliate Protozoa in the Rumen

(2020) Jeffrey L. Firkins et al.   Frontiers in Microbiology

Sample Processing Methods Impacts on Rumen Microbiome

(2019) Gonzalo Martinez-Fernandez et al.   Frontiers in Microbiology

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Technical note: Evaluation of the ororuminal FLORA sampling device for rumen fluid sampling in intact cattle

(2019) Mogens Larsen et al.   JOURNAL OF DAIRY SCIENCE

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

(2018) Yoav Shaani et al.   ISME Journal

Short communication: Variability in fermentation end-products and methanogen communities in different rumen sites of dairy cows

(2018) ZhiYuan Ma et al.   JOURNAL OF DAIRY SCIENCE

Alterations in ruminal bacterial populations at induction and recovery from diet-induced milk fat depression in dairy cows

(2018) D.W. Pitta et al.   JOURNAL OF DAIRY SCIENCE

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

(2018) Nicholas A. Bokulich et al.   Microbiome

The Planktonic Core Microbiome and Core Functions in the Cattle Rumen by Next Generation Sequencing

(2018) Roland Wirth et al.   Frontiers in Microbiology

A Structural and Functional Elucidation of the Rumen Microbiome Influenced by Various Diets and Microenvironments

(2017) Simon Deusch et al.   Frontiers in Microbiology

Comparison of rumen bacteria distribution in original rumen digesta, rumen liquid and solid fractions in lactating Holstein cows

(2017) Shoukun Ji et al.   Journal of Animal Science and Biotechnology

Effects of corn silage and grass silage in ruminant rations on diurnal changes of microbial populations in the rumen of dairy cows

(2016) Melanie B. Lengowski et al.   ANAEROBE

Sampling procedure for the measurement of dissolved hydrogen and volatile fatty acids in the rumen of dairy cows1

(2016) M. Wang et al.   JOURNAL OF ANIMAL SCIENCE

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Rumen Bacterial Community Composition in Holstein and Jersey Cows Is Different under Same Dietary Condition and Is Not Affected by Sampling Method

(2016) Henry A. Paz et al.   Frontiers in Microbiology

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

(2015) J. L. Firkins et al.   JOURNAL OF ANIMAL SCIENCE

Responses of methane production and fermentation pathways to the increased dissolved hydrogen concentration generated by eight substrates in in vitro ruminal cultures

(2014) M. Wang et al.   ANIMAL FEED SCIENCE AND TECHNOLOGY

Use of stomach tubing as an alternative to rumen cannulation to study ruminal fermentation and microbiota in sheep and goats

(2014) E. Ramos-Morales et al.   ANIMAL FEED SCIENCE AND TECHNOLOGY

Temporal dynamics in the ruminal microbiome of dairy cows during the transition period

(2014) D. W. Pitta et al.   JOURNAL OF ANIMAL SCIENCE

The effects of feeding time on milk production, total-tract digestibility, and daily rhythms of feeding behavior and plasma metabolites and hormones in dairy cows

(2014) M. Niu 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

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

Effect of DNA Extraction Methods and Sampling Techniques on the Apparent Structure of Cow and Sheep Rumen Microbial Communities

(2013) Gemma Henderson et al.   PLoS One

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

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

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

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

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

Rumen Bacterial Diversity Dynamics Associated with Changing from Bermudagrass Hay to Grazed Winter Wheat Diets

(2009) Dipti W. Pitta et al.   MICROBIAL ECOLOGY