Farm dust resistomes and bacterial microbiomes in European poultry and pig farms

Environment International

Liese Van Gompel¹  Dick J.J. Heederik²  Philip Joosten³  Patrick Munk⁴  Alex Bossers⁴  Heike Schmitt⁴  Roosmarijn E.C. Luiken⁴  Silvia García-Cobos⁵  Jeroen Dewulf⁶  Rasmus Borup Hansen⁶  Lidwien A.M. Smit⁶  Frank M. Aarestrup⁷  Berith E. Knudsen⁸  Jaap A. Wagenaar⁸  Dik J. Mevius⁹ 

[1] Corresponding author.;Dept. Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Yalelaan 1, 3584 CL Utrecht, the Netherlands;Wageningen Bioveterinary Research, Houtribweg 39, 8221 RA Lelystad, the Netherlands;Institute for Risk Assessment Sciences, Utrecht University, Yalelaan 2, 3584 CM Utrecht, the Netherlands;Intomics A/S, Lottenborgvej 26, 2800 Kongens Lyngby, Denmark;Section for Genomic Epidemiology, National Food Institute, Technical University of Denmark, Kemitorvet 204, 2800 Kongens Lyngby, Denmark;University of Groningen, University Medical Center Groningen, Department of Medical Microbiology and Infection Prevention, PO Box 30.001, 9700 RB Groningen, the Netherlands;Veterinary Epidemiology Unit, Faculty of Veterinary Medicine, Ghent University, Salisburylaan 133, Merelbeke, Belgium;Wageningen Bioveterinary Research, Houtribweg 39, 8221 RA Lelystad, the Netherlands;

关键词: Air;    Metagenomics;    Resistome;    Microbiome;    Farm;    One health;   

DOI  :  

来源: DOAJ

【 摘 要 】

Background: Livestock farms are a reservoir of antimicrobial resistant bacteria from feces. Airborne dust-bound bacteria can spread across the barn and to the outdoor environment. Therefore, exposure to farm dust may be of concern for animals, farmers and neighboring residents. Although dust is a potential route of transmission, little is known about the resistome and bacterial microbiome of farm dust. Objectives: We describe the resistome and bacterial microbiome of pig and poultry farm dust and their relation with animal feces resistomes and bacterial microbiomes, and on-farm antimicrobial usage (AMU). In addition, the relation between dust and farmers’ stool resistomes was explored. Methods: In the EFFORT-study, resistomes and bacterial microbiomes of indoor farm dust collected on Electrostatic Dust fall Collectors (EDCs), and animal feces of 35 conventional broiler and 44 farrow-to-finish pig farms from nine European countries were determined by shotgun metagenomic analysis. The analysis also included 79 stool samples from farmers working or living at 12 broiler and 19 pig farms and 46 human controls. Relative abundance of and variation in resistome and bacterial composition of farm dust was described and compared to animal feces and farmers’ stool. Results: The farm dust resistome contained a large variety of antimicrobial resistance genes (ARGs); more than the animal fecal resistome. For both poultry and pigs, composition of dust resistomes finds (partly) its origin in animal feces as dust resistomes correlated significantly with fecal resistomes. The dust bacterial microbiome also correlated significantly with the dust resistome composition. A positive association between AMU in animals on the farm and the total abundance of the dust resistome was found. Occupational exposure to pig farm dust or animal feces may contribute to farmers’ resistomes, however no major shifts in farmers resistome towards feces or dust resistomes were found in this study. Conclusion: Poultry and pig farm dust resistomes are rich and abundant and associated with the fecal resistome of the animals and the dust bacterial microbiome.

【 授权许可】

Unknown