ArticleEnvironmental microbiome2020
The distribution of microbiomes and resistomes across farm environments in conventional and organic dairy herds in Pennsylvania.
Article in Environmental microbiome, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers, 1 of them a synthesis that pooled it.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
17 citing papers in PubMed, 1 synthesis or guideline pooled it, 31 citations in OpenAlex.
- Pooled it
- Comprehensive Shotgun Metagenomic Profiling of Antibiotic Resistance Genes in Sheep and Goat Farming Environments.Antibiotics (Basel, Switzerland) · 2026Article
- Occurrence and antimicrobial resistance profiles of bacteria from dairy farm environments in Addis Ababa, Ethiopia.BMC microbiology · 2026Article
- Insights into spatial dynamics of the microbiome and resistome across the conventional and organic dairy farms.PloS one · 2026Article
- Temporal dynamics of the resistome in gilts raised in an organic operation in which semen used for artificial insemination is the primary source of antimicrobial exposure.Scientific reports · 2025Article
- Assessing the Impacts of Dairy Farm Antimicrobial Use on the Bovine Fecal Microbiome.Animals : an open access journal from MDPI · 2025Article
- Environmental fate of antibiotic resistance genes in livestock farming.Archives of microbiology · 2025Review
- Retrospective analysis of antimicrobial resistance associated with bovine respiratory disease.Applied and environmental microbiology · 2025Article
- Genome Analysis of 6222 Bacterial Isolates from Livestock and Food Environments in Spain to Decipher the Antibiotic Resistome.Antibiotics (Basel, Switzerland) · 2025Article
- Characterization of antibiotic resistance genes in soils from agroecosystems of the Brazilian Amazon.Frontiers in microbiology · 2025Article
- Assessing antimicrobial resistance in pasture-based dairy farms: a 15-month surveillance study in New Zealand.Applied and environmental microbiology · 2024Article
- Longitudinal dynamics of farmer and livestock nasal and faecal microbiomes and resistomes.Nature microbiology · 2024Article
- Microbiota and Resistome Analysis of Colostrum and Milk from Dairy Cows Treated with and without Dry Cow Therapies.Antibiotics (Basel, Switzerland) · 2023Article
- Microbial Risks Caused by Livestock Excrement: Current Research Status and Prospects.Microorganisms · 2023Review
- Variations in the Physical Properties and Microbial Community of Dairy Cow Manure-Implications for Testing and Efficacy of Footbathing Products.Animals : an open access journal from MDPI · 2023Article
- Nitrogen transformation processes catalyzed by manure microbiomes in earthen pit and concrete storages on commercial dairy farms.Environmental microbiome · 2023Article
- Metagenomic insights into the antibiotic resistomes of typical Chinese dairy farm environments.Frontiers in microbiology · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundAntimicrobial resistance is a serious concern. Although the widespread use of antimicrobials in livestock has exacerbated the emergence and dissemination of antimicrobial resistance genes (ARG) in farm environments, little is known about whether antimicrobial use affects distribution of ARG in livestock systems. This study compared the distribution of microbiomes and resistomes (collections of ARG) across different farm sectors in dairy herds that differed in their use of antimicrobials. Feces from heifers, non-lactating, and lactating cows, manure storage, and soil from three conventional (antimicrobials used to treat cows) and three organic (no antimicrobials used for at least four years) farms in Pennsylvania were sampled. Samples were extracted for genomic DNA, processed, sequenced on the Illumina NextSeq platform, and analyzed for microbial community and resistome profiles using established procedures.
resultsMicrobial communities and resistome profiles clustered by sample type across all farms. Overall, abundance and diversity of ARG in feces was significantly higher in conventional herds compared to organic herds. The ARG conferring resistance to betalactams, macrolide-lincosamide-streptogramin (MLS), and tetracyclines were significantly higher in fecal samples of dairy cows from conventional herds compared to organic herds. Regardless of farm type, all manure storage samples had greater diversity (albeit low abundance) of ARG conferring resistance to aminoglycosides, tetracyclines, MLS, multidrug resistance, and phenicol. All soil samples had lower abundance of ARG compared to feces, manure, and lagoon samples and were comprised of ARG conferring resistance to aminoglycosides, glycopeptides, and multi-drug resistance. The distribution of ARG is likely driven by the composition of microbiota in the respective sample types.
conclusionsAntimicrobial use on farms significantly influenced specific groups of ARG in feces but not in manure storage or soil samples.
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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.