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2025
Susceptibility of Lactobacillaceae Strains to Aminoglycoside Antibiotics in the Light of EFSA Guidelines
Life
2025
Decoding the chicken gastrointestinal microbiome
BMC Microbiology
2025
Cultivation of anaerobic bacteria: Foundations and principles
Anaerobe
2025
Complete genome sequences of Sellimonas intestinalis JCM 30749 T , Sellimonas caecigallum JCM 35759 T , and Sellimonas catena JCM 35622 T and JCM 35623
Microbiology Resource Announcements
2025
Comparative genomics of Elusimicrobiaceae (phylum Elusimicrobiota) and description of the isolates Elusimicrobium simillimum sp. nov., Elusimicrobium posterum sp. nov., and Parelusimicrobium proximum gen. nov. sp. nov.
Systematic and Applied Microbiology
2025
Genome-guided development of a bacterial two-strain system for low-temperature soil biocementation
Applied Microbiology and Biotechnology
2025
Bergey's Manual of Systematics of Archaea and Bacteria
2025
Deep culturing the fecal microbiota of healthy laying hens
Animal Microbiome
2025
Bergey's Manual of Systematics of Archaea and Bacteria
2025
Gut bacteria degrade purines via the 2,8-dioxopurine pathway
Nature Microbiology
2025
Yeast culture improves growth, antioxidant status, immunity, and gut microbiota homeostasis in preweaning Holstein calves
Frontiers in Veterinary Science
2025
Isolation, genomic characterization and biotechnological evaluation of lactobacilli strains from chicken gastrointestinal tract
Microbial Pathogenesis
2025
Akkermansia muciniphila: biology, microbial ecology, host interactions and therapeutic potential
Nature Reviews Microbiology
2025
The microbiota-derived bile acid taurodeoxycholic acid improves hepatic cholesterol levels in mice with cancer cachexia
Gut Microbes
2025
Extensive novel diversity and phenotypic associations in the dromedary camel microbiome are revealed through deep metagenomics and machine learning
PLOS One
2025
The inclusion of insect meal from Hermetia illucens larvae in the diet of laying hens (Hy-line Brown) affects the caecal diversity of methanogenic archaea
Poultry Science
2025
Bergey's Manual of Systematics of Archaea and Bacteria
2025
Bergey's Manual of Systematics of Archaea and Bacteria
2025
Culture performance of Fastidious Anaerobe Agar for frequently-encountered anaerobic bacteria, and potential application in EUCAST antimicrobial susceptibility testing
Anaerobe
2025
Advances in Genomics and Postgenomics in Poultry Science: Current Achievements and Future Directions
International Journal of Molecular Sciences
2025
Genomic Features of E. ruysiae Associated with the Ecological Origin: Implications for the Environmental Hypothesis
Current Microbiology
2025
Microbial Contamination in Urban Marine Sediments: Source Identification Using Microbial Community Analysis and Fecal Indicator Bacteria
Microorganisms
2025
Expanding the human gut microbiome atlas of Africa
Nature
2025
Candidatus List No. 7
International Journal of Systematic and Evolutionary Microbiology
2025
Unveiling host-genetic drivers of caecal microbial communities in chickens through genome-wide association studies
Frontiers in Microbiomes
2025
Gut Microbial Signatures of Broiler Lines Divergently Selected for Inosine Monophosphate and Intramuscular Fat Content
Animals
2025
Metagenomics reveals fibre fermentation and AMR pathways in red grouse (Lagopus scotica) microbiota
BMC Microbiology
2025
Novel lineages of bacteria with reduced genomes from the gut of farm animals
mSphere
2025
Faecal metagenomes of great tits and blue tits provide insights into host, diet, pathogens and microbial biodiversity
Access Microbiology
2025
Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research?
Poultry Science
2025
Gut Microbiota of Ruminants and Monogastric Livestock: An Overview
Animals
2025
Nitraria tangutorum fruit extract modulates rumen fermentation and microbiota in Hu sheep
Journal of Agriculture and Food Research
2025
Effect of monobutyrate on growth performance, intestinal development, and cecum microbiota in broilers
Italian Journal of Animal Science
2025
Isolation and genomic characterization of Psychrobacillus isolate L3 and bacteriophage Spoks: a new phage-host pair from Antarctic soil
BMC Genomics
2025
Bergey's Manual of Systematics of Archaea and Bacteria
2025
Association of Microbiome in Oral Cancer Patients and Healthy Individuals: A Metagenomic Study
Journal of Pure and Applied Microbiology
2025
Age‐Related Differences in Gut Microbiome and Fecal Metabolome of Captive African Penguins (Spheniscus demersus)
Zoo Biology
2024
Genomics and physiology of Catenibacillus, human gut bacteria capable of polyphenol C-deglycosylation and flavonoid degradation
Microbial Genomics
2024
Comparative genomics of carbohydrates utilization in bacteria of the family <i>Sphaerochaetaceae</i>: evolutionary origin of the genes encoding galacturonidase and unsaturated rhamnogalacturonyl hydrolase
Microbiology
2024
The effect of feed additives of domestic production on the intestinal health of laying hens
Agrarian science
2024
A genomic analysis reveals the diversity of cellulosome displaying bacteria
Frontiers in Microbiology
2024
The fecal microbiota of the mouse-eared bat (Myotis velifer) with new records of microbial taxa for bats
PLOS ONE
2024
Infectious bronchitis virus vaccination, but not the presence of XCR1, is correlated with large differences in chicken caecal microbiota
Microbial Genomics
2024
Impact of land-use and fecal contamination on Escherichia populations in environmental samples
Scientific Reports
2024
Notification of bacterial strains made available by the United Kingdom National Collection of Type Cultures in 2022
Access Microbiology
2024
Metagenome-assembled genome reveals species and functional composition of Jianghan chicken gut microbiota and isolation of Pediococcus acidilactic with probiotic properties
Microbiome
2024
Routes of dispersion of antibiotic resistance genes from the poultry farm system
Science of The Total Environment
2024
The multi-kingdom microbiome catalog of the chicken gastrointestinal tract
Biosafety and Health
2024
Proposal of Allocatenococcus gen. nov., Allocoenonia gen. nov. and Allofournierella gen. nov. as replacement names for the illegitimate prokaryotic generic names Catenococcus Sorokin 1994, Coenonia Vandamme et al. 1999 and Fournierella Togo et al. 2017, respectively
International Journal of Systematic and Evolutionary Microbiology
2024
Draft genome sequences of Escherichia spp. isolates from New Zealand environmental sources
Microbiology Resource Announcements
2024
Exploration of the Muribaculaceae Family in the Gut Microbiota: Diversity, Metabolism, and Function
Nutrients
2024
Revised taxonomic classification of the Stenotrophomonas genomes, providing new insights into the genus Stenotrophomonas
Frontiers in Microbiology
2024
New Campylobacter Lineages in New Zealand Freshwater: Pathogenesis and Public Health Implications
Environmental Microbiology
2024
Valid publication of names for bacterial species from the chicken gut
International Journal of Systematic and Evolutionary Microbiology
2024
Metagenomic insights into the impact of litter from poultry Concentrated Animal Feeding Operations (CAFOs) to adjacent soil and water microbial communities
Science of The Total Environment
2024
Genome and pan-genome analysis of a new exopolysaccharide-producing bacterium Pyschrobacillus sp. isolated from iron ores deposit and insights into iron uptake
Frontiers in Microbiology
2024
Characterizing the Effect of Campylobacter jejuni Challenge on Growth Performance, Cecal Microbiota, and Cecal Short-Chain Fatty Acid Concentrations in Broilers
Animals
2024
Novel taxonomic and functional diversity of eight bacteria from the upper digestive tract of chicken
International Journal of Systematic and Evolutionary Microbiology
2024
Improving broiler health through cecal microbiota transplantation: a comprehensive study on growth, immunity, and microbial diversity
Journal of Animal Science
2024
High-resolution genomic analysis to investigate the impact of the invasive brushtail possum (Trichosurus vulpecula) and other wildlife on microbial water quality assessments
PLOS ONE
2024
Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia
Microbiome
2024
The influence of Akkermansia muciniphila on intestinal barrier function
Gut Pathogens
2024
Advancing Source Tracking: Systematic Review and Source-Specific Genome Database Curation of Fecally Shed Prokaryotes
Environmental Science & Technology Letters
2024
Broiler Chicken Cecal Microbiome and Poultry Farming Productivity: A Meta-Analysis
Microorganisms
2024
Harmonious naming across nomenclature codes exemplified by the description of bacterial isolates from the mammalian gut
Systematic and Applied Microbiology
2024
Three new species, Xanthomonas hawaiiensis sp. nov., Stenotrophomonas aracearum sp. nov., and Stenotrophomonas oahuensis sp. nov., isolated from the Araceae family
Frontiers in Microbiology
2024
Population structure and pathogen interaction of Escherichia coli in freshwater: Implications of land‐use for water quality and public health in Aotearoa New Zealand
Environmental Microbiology Reports
2024
Impact of Forage Sources on Ruminal Bacteriome and Carcass Traits in Hanwoo Steers During the Late Fattening Stages
Microorganisms
2024
Luteimonas flava sp. nov. and Aquilutibacter rugosus gen. nov., sp. nov., isolated from freshwater environments in China and re-examining the taxonomic status of genera Luteimonas and Lysobacter
International Journal of Systematic and Evolutionary Microbiology
2024
Tryptamine Microbiota-Deregulated Aminoacyl-tRNA Biosynthesis
2024
Modern Taxonomy of Bacteria and Archaea
2024
Phylogenomics studies and molecular markers reliably demarcate genus Pseudomonas sensu stricto and twelve other Pseudomonadaceae species clades representing novel and emended genera
Frontiers in Microbiology
2024
Identification of an epilepsy-linked gut microbiota signature in a pediatric rat model of acquired epilepsy
Neurobiology of Disease
2024
Time series of chicken stool metagenomics and egg metabolomics in changing production systems: preliminary insights from a proof-of-concept
One Health Outlook
2024
Development of a multiplex droplet digital PCR assay for simultaneous detection and quantification of Escherichia coli, E. marmotae, and E. ruysiae in water samples
Journal of Microbiological Methods
2024
Akkermansia beyond muciniphila - emergence of new species Akkermansia massiliensis sp. nov.
Microbiome Research Reports
2024
Comparative Genomics of Carbohydrate Utilization in Bacteria of the Family Sphaerochaetaceae: Evolutionary Origin of the Genes Encoding Galacturonidase and Unsaturated Rhamnogalacturonyl Hydrolase
Microbiology
2023
Metagenomic Sequencing Revealed Differences in the Composition of Cecal Microbes in Different Breeds of Chickens
Animals
2023
Phylogenomic Analysis Supports the Transfer of 20 Pathovars from Xanthomonas campestris into Xanthomonas euvesicatoria
Taxonomy
2023
Novel complete methanogenic pathways in longitudinal genomic study of monogastric age-associated archaea
Animal Microbiome
2023
Naming new taxa of prokaryotes in the 21st century
Canadian Journal of Microbiology
2023
Candidatus Enterousia, Bacteria with Reduced Genomes from the Intestines of Farm Animals
Microbiology
2023
Modulation of Caecal Microbiota and Metabolome Profile in Salmonella-Infected Broilers by Phage Therapy
International Journal of Molecular Sciences
2023
Chicken caecal enterotypes in indigenous Kadaknath and commercial Cobb chicken lines are associated with Campylobacter abundance and influenced by farming practices
Frontiers in Microbiomes
2023
Trait biases in microbial reference genomes
Scientific Data
2023
Psychrobacillus antarcticus sp. nov., a psychrotolerant bioemulsifier producer isolated from King George Island, Antarctica
International Journal of Systematic and Evolutionary Microbiology
2023
The multi-kingdom microbiome of the goat gastrointestinal tract
Microbiome
2023
Isolation and characterisation of novel Methanocorpusculum species indicates the genus is ancestrally host-associated
BMC Biology
2023
An initial genomic blueprint of the healthy human oesophageal microbiome
Access Microbiology
2023
Clinical significance of Nosocomiicoccus ampullae isolated from blood cultures
Microbiology Spectrum
2023
Characterisation of an Escherichia coli line that completely lacks ribonucleotide reduction yields insights into the evolution of parasitism and endosymbiosis
eLife
2023
Next-Generation Sequencing for the Detection of Microbial Agents in Avian Clinical Samples
Veterinary Sciences
2023
Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods
Frontiers in Microbiology
2023
Sellimonas catena sp. nov., isolated from human faeces
International Journal of Systematic and Evolutionary Microbiology
2023
Ligilactobacillus cholophilus sp. nov., isolated from pickled potherb mustard (Brassica juncea Coss.)
International Journal of Systematic and Evolutionary Microbiology
2023
Bergey's Manual of Systematics of Archaea and Bacteria
2023
Household environment and animal fecal contamination are critical modifiers of the gut microbiome and resistome in young children from rural Nicaragua
Microbiome
2023
Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance
Access Microbiology
2023
Escherichia cryptic clade I is an emerging source of human intestinal pathogens
BMC Biology
2023
Microorganisms Involved in Hydrogen Sink in the Gastrointestinal Tract of Chickens
International Journal of Molecular Sciences
2022
Metagenomic investigation of the equine faecal microbiome reveals extensive taxonomic diversity
PeerJ
2022
Deciphering discriminative antibiotic resistance genes and pathogens in agricultural soil following chemical and organic fertilizer
Journal of Environmental Management
2022
Improved microbial genomes and gene catalog of the chicken gut from metagenomic sequencing of high-fidelity long reads
GigaScience
2022
Escherichia marmotae—a Human Pathogen Easily Misidentified as Escherichia coli
Microbiology Spectrum
2022
The microbial ecology ofEscherichia coliin the vertebrate gut
FEMS Microbiology Reviews
2022
Adult Alphitobius diaperinus Microbial Community during Broiler Production and in Spent Litter after Stockpiling
Microorganisms
2022
Candidatus List No. 4: Lists of names of prokaryotic Candidatus taxa
International Journal of Systematic and Evolutionary Microbiology
2022
The microbiome of the buffalo digestive tract
Nature Communications
2022
Roles of intestinal Parabacteroides in human health and diseases
FEMS Microbiology Letters
2022
Gut Microbiome Studies in Livestock: Achievements, Challenges, and Perspectives
Animals
2022
A Catalog of over 5,000 Metagenome-Assembled Microbial Genomes from the Caprinae Gut Microbiota
Microbiology Spectrum
2022
Ruania suaedae sp. nov. and Ruania halotolerans sp. nov., two actinobacteria isolated from saline soil, and reclassification of Haloactinobacterium kanbiaonis as Occultella kanbiaonis comb. nov.
International Journal of Systematic and Evolutionary Microbiology
2022
Remarkable genomic diversity among Escherichia isolates recovered from healthy chickens
PeerJ
2022
Toward shotgun metagenomic approaches for microbial source tracking sewage spills based on laboratory mesocosms
Water Research
2022
Exploratory analysis on the genomic data of lactic acid bacteria in the public sequence database
Japanese Journal of Lactic Acid Bacteria
2022
Management Practices Affecting Lesser Mealworm Larvae (Alphitobius diaperinus) Associated Microbial Community in a Broiler House and After Relocating With the Litter Into Pastureland
Frontiers in Microbiology
2022
Effect of cecal microbiota transplantation between different broiler breeds on the chick flora in the first week of life
Poultry Science
2022
Recovering High‐Quality Host Genomes from Gut Metagenomic Data through Genotype Imputation
Advanced Genetics
2022
Mining the equine gut metagenome: poorly-characterized taxa associated with cardiovascular fitness in endurance athletes
Communications Biology
2022
Novel strategies to improve chicken performance and welfare by unveiling host-microbiota interactions through hologenomics
Frontiers in Physiology
2022
SeqCode: a nomenclatural code for prokaryotes described from sequence data
Nature Microbiology
2022
Reclassification of eight Akkermansia muciniphila strains and description of Akkermansia massiliensis sp. nov. and Candidatus Akkermansia timonensis, isolated from human feces
Scientific Reports
2022
Omics technologies in poultry health and productivity - part 1: current use in poultry research
Avian Pathology
2022
The active core microbiota of two high-yielding laying hen breeds fed with different levels of calcium and phosphorus
Frontiers in Physiology
2021
Nomenclature of prokaryotic ‘Candidatus’ taxa: establishing order in the current chaos
New Microbes and New Infections
2021
Ultra-resolution Metagenomics: When Enough Is Not Enough
mSystems
2021
Addressing the sublime scale of the microbial world: reconciling an appreciation of microbial diversity with the need to describe species
New Microbes and New Infections
2021
A review of the resistome within the digestive tract of livestock
Journal of Animal Science and Biotechnology
2021
The status Candidatus for uncultured taxa of Bacteria and Archaea: SWOT analysis
International Journal of Systematic and Evolutionary Microbiology
2021
Metagenome-assembled genomes and gene catalog from the chicken gut microbiome aid in deciphering antibiotic resistomes
Communications Biology
2021
Genome-Resolved Metagenomics of the Chicken Gut Microbiome
Frontiers in Microbiology
2021
Spotlight on the avian gut microbiome: fresh opportunities in discovery
Avian Pathology
2021
No-Antibiotic-Pectin-Based Treatment Differently Modified Cloaca Bacteriobiome of Male and Female Broiler Chickens
Agriculture
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