R. Roehe
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View article: Metabolic capabilities of key rumen microbiota drive methane emissions in cattle
Metabolic capabilities of key rumen microbiota drive methane emissions in cattle Open
The rumen microbiome plays a critical role in determining feed conversion and methane emissions in cattle, with significant implications for both agricultural productivity and environmental sustainability. In this study, we applied a hiera…
View article: Protozoal populations drive system-wide variation in the rumen microbiome
Protozoal populations drive system-wide variation in the rumen microbiome Open
While rapid progress has been made to characterize the bacterial and archaeal populations of the rumen microbiome, insight into how they interact with keystone protozoal species remains elusive. Here, we reveal two distinct system-wide rum…
View article: Predicting Beef Diet Nutritional Composition and Intake from Rumen Metagenomic Profiles
Predicting Beef Diet Nutritional Composition and Intake from Rumen Metagenomic Profiles Open
View article: Protozoal populations drive system-wide variation in the rumen microbiome
Protozoal populations drive system-wide variation in the rumen microbiome Open
While rapid progress has been made to characterize the bacterial and archaeal populations of the rumen microbiome, insight into how they interact with keystone protozoal species remains elusive. Here, we reveal two distinct rumen community…
View article: Temporal stability of the rumen microbiome and its longitudinal associations with performance traits in beef cattle
Temporal stability of the rumen microbiome and its longitudinal associations with performance traits in beef cattle Open
View article: Including microbiome information in a multi-trait genomic evaluation: a case study on longitudinal growth performance in beef cattle
Including microbiome information in a multi-trait genomic evaluation: a case study on longitudinal growth performance in beef cattle Open
View article: Estimating Microbial Protein Synthesis in the Rumen—Can ‘Omics’ Methods Provide New Insights into a Long-Standing Question?
Estimating Microbial Protein Synthesis in the Rumen—Can ‘Omics’ Methods Provide New Insights into a Long-Standing Question? Open
Rumen microbial protein synthesis (MPS) provides at least half of the amino acids for the synthesis of milk and meat protein in ruminants. As such, it is fundamental to global food protein security. Estimating microbial protein is central …
View article: Identification of intestinal and fecal microbial biomarkers using a porcine social stress model
Identification of intestinal and fecal microbial biomarkers using a porcine social stress model Open
Understanding the relationships between social stress and the gastrointestinal microbiota, and how they influence host health and performance is expected to have many scientific and commercial implementations in different species, includin…
View article: 184 Genetic Parameters for Human-Directed Behavior and Intraspecific Social Aggression Traits in Growing Pigs
184 Genetic Parameters for Human-Directed Behavior and Intraspecific Social Aggression Traits in Growing Pigs Open
This study aimed to estimate heritabilities and genetic and phenotypic correlations for human-directed behavior and intraspecific social aggression traits in growing pigs, and to explore genetic and phenotypic correlations among them. Pigs…
View article: KOunt: a reproducible KEGG orthologue abundance workflow
KOunt: a reproducible KEGG orthologue abundance workflow Open
Summary Accurate gene prediction is essential for successful metagenome analysis. We present KOunt, a Snakemake pipeline, that precisely quantifies KEGG orthologue abundance. Availability and implementation KOunt is available on GitHub: ht…
View article: KOunt – A reproducible KEGG orthologue abundance workflow
KOunt – A reproducible KEGG orthologue abundance workflow Open
Summary Accurate gene prediction is essential for successful metagenome analysis. We present KOunt, a Snake-make pipeline, that precisely quantifies KEGG orthologue abundance. Availability and implementation KOunt is available on GitHub: h…
View article: Different microbial genera drive methane emissions in beef cattle fed with two extreme diets
Different microbial genera drive methane emissions in beef cattle fed with two extreme diets Open
The ratio of forage to concentrate in cattle feeding has a major influence on the composition of the microbiota in the rumen and on the mass of methane produced. Using methane measurements and microbiota data from 26 cattle we aimed to inv…
View article: Invited review: Novel methods and perspectives for modulating the rumen microbiome through selective breeding as a means to improve complex traits: Implications for methane emissions in cattle
Invited review: Novel methods and perspectives for modulating the rumen microbiome through selective breeding as a means to improve complex traits: Implications for methane emissions in cattle Open
The rumen microbiome is responsible for methane emission in ruminants. The study of microbes in the rumen has attracted great interest in the last decade. High-throughput sequencing technologies have been key in expanding the knowledge of …
View article: GREENHOUSE GAS AND AMMONIA EMISSION MITIGATION PRIORITIES FOR UK POLICY TARGETS
GREENHOUSE GAS AND AMMONIA EMISSION MITIGATION PRIORITIES FOR UK POLICY TARGETS Open
Agriculture is essential for providing food and maintaining food security while concurrently delivering multiple other ecosystem services. However, agricultural systems are generally a net source of greenhouse gases and ammonia. They, ther…
View article: Genetic associations between human-directed behavior and intraspecific social aggression in growing pigs
Genetic associations between human-directed behavior and intraspecific social aggression in growing pigs Open
This study estimated the genetic parameters for human-directed behavior and intraspecific social aggression traits in growing pigs, and explored the phenotypic correlations among them. Data on 2,413 growing pigs were available. Pigs were m…
View article: Correction: Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions
Correction: Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions Open
View article: Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions
Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions Open
View article: Genetic Associations of Novel Behaviour Traits Derived from Social Network Analysis with Growth, Feed Efficiency, and Carcass Characteristics in Pigs
Genetic Associations of Novel Behaviour Traits Derived from Social Network Analysis with Growth, Feed Efficiency, and Carcass Characteristics in Pigs Open
Reducing harmful aggressive behaviour remains a major challenge in pig production. Social network analysis (SNA) showed the potential in providing novel behavioural traits that describe the direct and indirect role of individual pigs in pe…
View article: Bovine host genome acts on rumen microbiome function linked to methane emissions
Bovine host genome acts on rumen microbiome function linked to methane emissions Open
View article: Genetic Analysis of Novel Behaviour Traits in Pigs Derived from Social Network Analysis
Genetic Analysis of Novel Behaviour Traits in Pigs Derived from Social Network Analysis Open
Social network analysis (SNA) has provided novel traits that describe the role of individual pigs in aggression. The objectives were to (1) estimate the genetic parameters for these SNA traits, (2) quantify the genetic association between …
View article: Identifying Hub Nodes and Sub-networks from Cattle Rumen Microbiome Multilayer Networks
Identifying Hub Nodes and Sub-networks from Cattle Rumen Microbiome Multilayer Networks Open
View article: Additional file 2 of Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions
Additional file 2 of Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions Open
Additional file 2: Table S1. Microbial gene abundances in rumen microbiome (analyzed after an additive log-ratio transformation) with significant host genomic effects referred to as host-specific functional core microbiome (HGFC). Table S2…
View article: Concepts and Consequences of a Core Gut Microbiota for Animal Growth and Development
Concepts and Consequences of a Core Gut Microbiota for Animal Growth and Development Open
Animal microbiomes are occasionally considered as an extension of host anatomy, physiology, and even their genomic architecture. Their compositions encompass variable and constant portions when examined across multiple hosts. The latter, t…
View article: Comparison of HPLC and NMR for quantification of the main volatile fatty acids in rumen digesta
Comparison of HPLC and NMR for quantification of the main volatile fatty acids in rumen digesta Open
Accurate quantification of volatile fatty acid (VFA) concentrations in rumen fluid are essential for research on rumen metabolism. The study comprehensively investigated the pros and cons of High-performance liquid chromatography (HPLC) an…
View article: Comparison of HPLC and NMR for Quantification of the Main Volatile Fatty Acids in Rumen Digesta
Comparison of HPLC and NMR for Quantification of the Main Volatile Fatty Acids in Rumen Digesta Open
Accurate quantification of volatile fatty acid (VFA) concentrations in rumen fluid are essential for research on rumen metabolism. This study comprehensively investigated the pros and cons of High-performance liquid chromatography (HPLC) a…
View article: Comparison of HPLC and NMR for Quantification of The Main Volatile Fatty Acids in Rumen Digesta
Comparison of HPLC and NMR for Quantification of The Main Volatile Fatty Acids in Rumen Digesta Open
Background Accurate quantification of volatile fatty acid (VFA) concentrations in rumen fluid are essential for research on rumen metabolism. HPLC analysis of VFAs has the advantages of relatively simple sample preparation, no derivatizati…
View article: Bovine host genome acts on specific metabolism, communication and genetic processes of rumen microbes host-genomically linked to methane emissions
Bovine host genome acts on specific metabolism, communication and genetic processes of rumen microbes host-genomically linked to methane emissions Open
Whereas recent studies in different species showed that the host genome shapes the microbial community profile, our new research strategy revealed substantial host genomic control of comprehensive functional microbial processes in the rume…
View article: Evaluation of direct and maternal responses in reproduction traits based on different selection strategies for postnatal piglet survival in a selection experiment
Evaluation of direct and maternal responses in reproduction traits based on different selection strategies for postnatal piglet survival in a selection experiment Open
View article: Unravelling the Role of Rumen Microbial Communities, Genes, and Activities on Milk Fatty Acid Profile Using a Combination of Omics Approaches
Unravelling the Role of Rumen Microbial Communities, Genes, and Activities on Milk Fatty Acid Profile Using a Combination of Omics Approaches Open
Milk products are an important component of human diets, with beneficial effects for human health, but also one of the major sources of nutritionally undesirable saturated fatty acids (SFA). Recent discoveries showing the importance of the…
View article: A heat diffusion multilayer network approach for the identification of functional biomarkers in rumen methane emissions
A heat diffusion multilayer network approach for the identification of functional biomarkers in rumen methane emissions Open