ArticlePloS one2013
The poultry-associated microbiome: network analysis and farm-to-fork characterizations.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
62 citing papers in PubMed, 127 citations in OpenAlex.
- AcceleratingProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Effects of Aspergillus sp. supplementation with or without xylanase on growth performance, nutrient digestibility, and the gastrointestinal microbiome of broilers.Poultry science · 2026Article
- Pooled Shotgun Metagenomics Reveals Cloacal Microbiota Composition and Resistome Patterns in Chickens from Kazakhstan.Microorganisms · 2026Article
- Competitive exclusion modulates broiler microbiota structure and microbial interaction networks.Poultry science · 2026Article
- Extension of Sous Vide Preservation of Wild Turkey (Meleagris gallopavo L.) Meat With Rosmarinus officinalis Essential Oil: A Study on Chemical Composition and Antibacterial Effectiveness Against Listeria monocytogenes and Other Population of Isolated Microbiota.Environmental microbiology reports · 2026Article
- Comparative Variation and Associations Among Seminal Microbiota, Oxidative Status, and Semen Quality in Different Rooster Types.Animals : an open access journal from MDPI · 2026Article
- Reducing Antimicrobial Resistance in Poultry Carcasses Extends Beyond Farm-Level Interventions.Foods (Basel, Switzerland) · 2026Article
- Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research?Poultry science · 2025Review
- Detection and characterization of Campylobacter in air samples from poultry houses using shot-gun metagenomics - a pilot study.BMC microbiology · 2024Article
- Microbial contamination pathways in a poultry abattoir provided clues on the distribution and persistence ofApplied and environmental microbiology · 2024Article
- Research advancements on the diversity and host interaction of gut microbiota in chickens.Frontiers in veterinary science · 2024Review
- Characterizing the gut microbiome of broilers raised under conventional and no antibiotics ever practices.Poultry science · 2023Article
- Deciphering the Association betweenMicroorganisms · 2023Article
- Microbiological Quality and Safety of Fresh Turkey Meat at Retail Level, Including the Presence of ESBL-ProducingFoods (Basel, Switzerland) · 2023Article
- A database of animal metagenomes.Scientific data · 2022Article
- Practical opportunities for microbiome analyses and bioinformatics in poultry processing.Poultry science · 2022Article
- Cecal Microbial Hydrogen Cycling Potential Is Linked to Feed Efficiency Phenotypes in Chickens.Frontiers in veterinary science · 2022Article
- Ileal and cecal microbiota response toFrontiers in physiology · 2022Article
- Centennial Review: Factors affecting the chicken gastrointestinal microbial composition and their association with gut health and productive performance.Poultry science · 2022Review
- Impact of Soil Microbes and Oxygen Availability on Bacterial Community Structure of Decomposing Poultry Carcasses.Animals : an open access journal from MDPI · 2021Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microbial communities associated with agricultural animals are important for animal health, food safety, and public health. Here we combine high-throughput sequencing (HTS), quantitative-PCR assays, and network analysis to profile the poultry-associated microbiome and important pathogens at various stages of commercial poultry production from the farm to the consumer. Analysis of longitudinal data following two flocks from the farm through processing showed a core microbiome containing multiple sequence types most closely related to genera known to be pathogenic for animals and/or humans, including Campylobacter, Clostridium, and Shigella. After the final stage of commercial poultry processing, taxonomic richness was ca. 2-4 times lower than the richness of fecal samples from the same flocks and Campylobacter abundance was significantly reduced. Interestingly, however, carcasses sampled at 48 hr after processing harboured the greatest proportion of unique taxa (those not encountered in other samples), significantly more than expected by chance. Among these were anaerobes such as Prevotella, Veillonella, Leptrotrichia, and multiple Campylobacter sequence types. Retail products were dominated by Pseudomonas, but also contained 27 other genera, most of which were potentially metabolically active and encountered in on-farm samples. Network analysis was focused on the foodborne pathogen Campylobacter and revealed a majority of sequence types with no significant interactions with other taxa, perhaps explaining the limited efficacy of previous attempts at competitive exclusion of Campylobacter. These data represent the first use of HTS to characterize the poultry microbiome across a series of farm-to-fork samples and demonstrate the utility of HTS in monitoring the food supply chain and identifying sources of potential zoonoses and interactions among taxa in complex communities.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.