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References from Species-specific rumen microbial responses to dietary inhibition of methanogenesis in cows and goats. Local targets link to admitted publications; unresolved targets remain external evidence.
Metabolic influence of core ciliates within the rumen microbiome
10.1038/s41396-023-01407-y · 2023 · External reference
Unresolved reference
2010 · External reference
Comparison of sequencing utility programs
10.2174/1875036201307010001 · 2013 · External reference
Identification, comparison, and validation of robust rumen microbial biomarkers for methane emissions using diverse Bos taurus breeds and basal diets
10.3389/fmicb.2017.02642 · 2017 · External reference
Methanogens: reevaluation of a unique biological group
10.1128/mr.43.2.260-296.1979 · 1979 · External reference
Controlling the false discovery rate: a practical and powerful approach to multiple testing
10.1111/j.2517-6161.1995.tb02031.x · 1995 · External reference
Effects of carbohydrate type or bicarbonate addition to grass silage-based diets on enteric methane emissions and milk fatty acid composition in dairy cows
10.3168/jds.2017-14041 · 2018 · External reference
Search and clustering orders of magnitude faster than BLAST
10.1093/bioinformatics/btq461 · 2010 · External reference
Diets supplemented with starch and corn oil, marine algae, or hydrogenated palm oil differentially modulate milk fat secretion and composition in cows and goats: a comparative study
10.3168/jds.2018-14483 · 2018 · External reference
Inferring correlation networks from genomic survey data
10.1371/journal.pcbi.1002687 · 2012 · External reference
CD-HIT: accelerated for clustering the next-generation sequencing data
10.1093/bioinformatics/bts565 · 2012 · External reference
Unresolved reference
2013 · External reference
Long-term effect of linseed plus nitrate fed to dairy cows on enteric methane emission and nitrate and nitrite residuals in milk
10.1017/s1751731115002852 · 2016 · External reference
Effects of dietary starch content and rate of fermentation on methane production in lactating dairy cows
10.3168/jds.2014-8427 · 2015 · External reference
The effects of fatty acids on pure cultures of rumen bacteria
10.1017/s0021859600058378 · 1973 · External reference
Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range
10.1038/srep14567 · 2015 · External reference
Addressing global ruminant agricultural challenges through understanding the rumen microbiome: past, present, and future
10.3389/fmicb.2018.02161 · 2018 · External reference
Effects of dietary corn oil and fish oil concentrate on lipid composition of calf tissues
10.3168/jds.s0022-0302(90)78983-7 · 1990 · External reference
KEGG for taxonomy-based analysis of pathways and genomes
10.1093/nar/gkac963 · 2023 · External reference
KEGG mapper for inferring cellular functions from protein sequences
10.1002/pro.3711 · 2020 · External reference
Occurrence and expression of genes encoding methyl-compound production in rumen bacteria
10.1186/s42523-019-0016-0 · 2019 · External reference
SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
10.1093/bioinformatics/bts611 · 2012 · External reference
integrOmics: an R package to unravel relationships between two omics datasets
10.1093/bioinformatics/btp515 · 2009 · External reference
SOAP2: an improved ultrafast tool for short read alignment
10.1093/bioinformatics/btp336 · 2009 · External reference
A catalog of microbial genes from the bovine rumen unveils a specialized and diverse biomass-degrading environment
10.1093/gigascience/giaa057 · 2020 · External reference
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
10.1186/s13059-014-0550-8 · 2014 · External reference
Effects of agroindustrial by-product supplementation on dairy goat milk characteristics, nutrient utilization, ruminal fermentation, and methane production
10.3168/jds.2019-17386 · 2020 · External reference
Diets supplemented with corn oil and wheat starch, marine algae, or hydrogenated palm oil modulate methane emissions similarly in dairy goats and cows, but not feeding behavior
10.1016/j.anifeedsci.2020.114783 · 2021 · External reference
MetaTrans: an open-source pipeline for metatranscriptomics
10.1038/srep26447 · 2016 · External reference
Identification of complex rumen microbiome interaction within diverse functional niches as mechanisms affecting the variation of methane emissions in bovine
10.3389/fmicb.2020.00659 · 2020 · External reference
Food, livestock production, energy, climate change, and health
10.1016/s0140-6736(07)61256-2 · 2007 · External reference
Current status of global dairy goat production: an overview
10.5713/ajas.19.0253 · 2019 · External reference
Review: reducing enteric methane emissions improves energy metabolism in livestock: is the tenet right?
10.1016/j.animal.2023.100830 · 2023 · External reference
Microbial ecosystem and methanogenesis in ruminants
10.1017/s1751731110000546 · 2010 · External reference
Changes in methane emission and rumen fermentation parameters induced by refaunation in sheep
10.1071/ea07236 · 2008 · External reference
Rumen microbial communities influence metabolic phenotypes in lambs
10.3389/fmicb.2015.01060 · 2015 · External reference
Ruminant microbiome data are skewed and unFAIR, undermining their usefulness for sustainable production improvement
10.1186/s42523-024-00348-x · 2024 · External reference
Unresolved reference
2016 · External reference
The effect of dietary fats on methane emissions, and its other effects on digestibility, rumen fermentation and lactation performance in cattle: a meta-analysis
10.1016/j.livsci.2013.05.023 · 2013 · External reference
Alterations in ruminal bacterial populations at induction and recovery from diet-induced milk fat depression in dairy cows
10.3168/jds.2016-12514 · 2018 · External reference
The structural and functional capacity of ruminal and Cecal microbiota in growing cattle was unaffected by dietary supplementation of linseed oil and nitrate
10.3389/fmicb.2017.00937 · 2017 · External reference
Climate change and goat production: enteric methane emission and its mitigation
10.3390/ani8120235 · 2018 · External reference
R: A language and environment for statistical computing
2024 · External reference
Identification of rumen microbial biomarkers linked to methane emission in Holstein dairy cows
10.1111/jbg.12427 · 2020 · External reference
FragGeneScan: predicting genes in short and error-prone reads
10.1093/nar/gkq747 · 2010 · External reference
Bovine host genetic variation influences rumen microbial methane production with best selection criterion for low methane emitting and efficiently feed converting hosts based on metagenomic gene abundance
10.1371/journal.pgen.1005846 · 2016 · External reference
Recent advances in enteric methane mitigation and the long road to sustainable ruminant production
10.1146/annurev-animal-021022-024931 · 2024 · External reference
CCREPE: Compositionality Corrected by PErmutation and REnormalization
2014 · External reference
Cytoscape: a software environment for integrated models of biomolecular interaction networks
10.1101/gr.1239303 · 2003 · External reference
KEGGREST: Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG) (R package version 1.32.0)
2021 · External reference
Metabolic hydrogen flows in rumen fermentation: principles and possibilities of interventions
10.3389/fmicb.2020.00589 · 2020 · External reference
Effects of supplemental plant oils on rumen bacterial community profile and digesta fatty acid composition in a continuous culture system (RUSITEC)
10.1016/j.anaerobe.2019.102143 · 2020 · External reference
The rumen microbial metagenome associated with high methane production in cattle
10.1186/s12864-015-2032-0 · 2015 · External reference
10.1007/978-94-009-1453-7_3
10.1007/978-94-009-1453-7_3 · 1997 · External reference
Kraken: ultrafast metagenomic sequence classification using exact alignments
10.1186/gb-2014-15-3-r46 · 2014 · External reference
Effects of urea plus nitrate pretreated rice straw and corn oil supplementation on fiber digestibility, nitrogen balance, rumen fermentation, microbiota and methane emissions in goats
10.1186/s40104-019-0312-2 · 2019 · External reference