ArticleApplied and environmental microbiology2019
Farm Stage, Bird Age, and Body Site Dominantly Affect the Quantity, Taxonomic Composition, and Dynamics of Respiratory and Gut Microbiota of Commercial Layer Chickens.
Article in Applied and environmental microbiology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers, 1 of them a synthesis that pooled it.
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Who cites it
58 citing papers in PubMed, 1 synthesis or guideline pooled it, 102 citations in OpenAlex.
- Exploring the chicken respiratory microbiome: a comprehensive meta-analysis of factors shaping chicken respiratory microbiota.Scientific reports · 2026Pooled it
- Age, strain, and gut section shape the microbiome of commercial laying hens.Poultry science · 2026Article
- Platycodon grandiflorum and Glycyrrhiza uralensis extract attenuates cyclophosphamide-induced tracheal mucosal barrier injury in broilers by modulating gut microbiota and short-chain fatty acids.Poultry science · 2026Article
- Mechanisms of probiotic action in poultry gut: Colonization resistance, bioactive metabolites, quorum sensing activity, and immunomodulation.Poultry science · 2026Review
- Dietary thyme essential oil supplementation improves production performance, egg quality, antioxidant status, and intestinal health in late-phase laying hens.Poultry science · 2026Article
- Respiratory microbiota maturation enables machine learning based age prediction in chickens.BMC microbiology · 2026Article
- Impact ofFrontiers in veterinary science · 2026Article
- Microbial Aerosols in Livestock Farming Environment: A Threat That Cannot Be Ignored.Veterinary sciences · 2025Review
- Metagenomic analysis of vitamins B and KBMC microbiology · 2025Article
- Molecular Mechanisms and Regulatory Factors Governing Feed Utilization Efficiency in Laying Hens: Insights for Sustainable Poultry Production and Breeding Optimization.International journal of molecular sciences · 2025Review
- Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research?Poultry science · 2025Review
- Exploring the Potential of Novel Animal-Origin Probiotics as Key Players in One Health: Opportunities and Challenges.International journal of molecular sciences · 2025Review
- Phylogenetic and ecological drivers of the avian lung mycobiome and its potentially pathogenic component.Communications biology · 2025Article
- Gut bacteriome dynamics in high altitude-adapted chicken lines: a key to future poultry therapeutics.Scientific reports · 2025Article
- Changes in the intestinal microbiota of broiler chicken induced by dietary supplementation of the diatomite-bentonite mixture.BMC veterinary research · 2025Article
- Influenza a virus subtype H9N2 infection induces respiratory microbiota dysbiosis in chickens via type-I interferon-mediated mechanisms.FEMS microbes · 2025Article
- The forecasting power of the mucin-microbiome interplay in livestock respiratory diseases.The veterinary quarterly · 2024Article
- Microbiomes in Birds: A Review of Links to Health and Reproduction.Reproduction & fertility · 2024Article
- A metagenomic investigation of the faecal RNA virome structure of asymptomatic chickens obtained from a commercial farm in Durban, KwaZulu-Natal province, South Africa.BMC genomics · 2024Article
- Exploring the complexities of poultry respiratory microbiota: colonization, composition, and impact on health.Animal microbiome · 2024Review
Corrections and comments
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Authors and funding
11 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The digestive and respiratory tracts of chickens are colonized by bacteria that are believed to play important roles in the overall health and performance of the birds. Most of the current research on the commensal bacteria (microbiota) of chickens has focused on broilers and gut microbiota, and less attention has been given to layers and respiratory microbiota. This research bias has left significant gaps in our knowledge of the layer microbiome. This study was conducted to define the core microbiota colonizing the upper respiratory tract (URT) and lower intestinal tract (LIT) in commercial layers under field conditions. One hundred eighty-one chickens were sampled from a flock of >80,000 birds at nine times to collect samples for 16S rRNA gene-based bacterial metabarcoding. Generally, the body site and age/farm stage had very dominant effects on the quantity, taxonomic composition, and dynamics of core bacteria. Remarkably, ileal and URT microbiota were compositionally more related to each other than to that from the cecum. Unique taxa dominated in each body site yet some taxa overlapped between URT and LIT sites, demonstrating a common core. The overlapping bacteria also contained various levels of several genera with well-recognized avian pathogens. Our findings suggest that significant interaction exists between gut and respiratory microbiota, including potential pathogens, in all stages of the farm sequence. The baseline data generated in this study can be useful for the development of effective microbiome-based interventions to enhance production performance and to prevent and control disease in commercial chicken layers.
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