title: Characterization of egg laying hen and broiler fecal microbiota in poultry farms in Croatia, Czech Republic, Hungary and Slovenia.
abstract: Poultry meat is the most common protein source of animal origin for humans. However, intensive breeding of animals in confined spaces has led to poultry colonisation by microbiota with a zoonotic potential or encoding antibiotic resistances. In this study we were therefore interested in the prevalence of selected antibiotic resistance genes and microbiota composition in feces of egg laying hens and broilers originating from 4 different Central European countries determined by real-time PCR and 16S rRNA gene pyrosequencing, respectively. strA gene was present in 1 out of 10,000 bacteria. The prevalence of sul1, sul2 and tet(B) in poultry microbiota was approx. 6 times lower than that of the strA gene. tet(A) and cat were the least prevalent being present in around 3 out of 10,000,000 bacteria forming fecal microbiome. The core chicken fecal microbiota was formed by 26 different families. Rather unexpectedly, representatives of Desulfovibrionaceae and Campylobacteraceae, both capable of hydrogen utilisation in complex microbial communities, belonged among core microbiota families. Understanding the roles of individual population members in the total metabolism of the complex community may allow for interventions which might result in the replacement of Campylobacteraceae with Desulfovibrionaceae and a reduction of Campylobacter colonisation in broilers, carcasses, and consequently poultry meat products.
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Petra
authors.initials: P
authors.lastname: Videnska
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Md Masudur
authors.initials: MM
authors.lastname: Rahman
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Marcela
authors.initials: M
authors.lastname: Faldynova
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Vladimir
authors.initials: V
authors.lastname: Babak
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Marta Elsheimer
authors.initials: ME
authors.lastname: Matulova
authors.affiliation: Faculty of Veterinary Medicine, University of Zagreb, Zagreb, Croatia.
authors.forename: Estella
authors.initials: E
authors.lastname: Prukner-Radovcic
authors.affiliation: Faculty of Veterinary Medicine, University of Zagreb, Zagreb, Croatia.
authors.forename: Ivan
authors.initials: I
authors.lastname: Krizek
authors.affiliation: Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia.
authors.forename: Sonja
authors.initials: S
authors.lastname: Smole-Mozina
authors.affiliation: Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia.
authors.forename: Jasna
authors.initials: J
authors.lastname: Kovac
authors.affiliation: Institute for Veterinary Medical Research, Hungarian Academy of Sciences, Budapest, Hungary.
authors.forename: Ama
authors.initials: A
authors.lastname: Szmolka
authors.affiliation: Institute for Veterinary Medical Research, Hungarian Academy of Sciences, Budapest, Hungary.
authors.forename: Bela
authors.initials: B
authors.lastname: Nagy
authors.affiliation: Department of Biomedical Engineering, Brno University of Technology, Brno, Czech Republic.
authors.forename: Karel
authors.initials: K
authors.lastname: Sedlar
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Darina
authors.initials: D
authors.lastname: Cejkova
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Ivan
authors.initials: I
authors.lastname: Rychlik
mesh_terms: D000818:Animals; D000900:Anti-Bacterial Agents / Q000494:pharmacology; D002645:Chickens / Q000382:microbiology* / Q000502:physiology*; D017523:Croatia; D018153:Czech Republic; D024881:Drug Resistance, Bacterial / Q000235:genetics; D005243:Feces / Q000382:microbiology*; D005260:Female; D006814:Hungary; D064307:Microbiota; D010058:Oviposition; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017423:Sequence Analysis, RNA; D017524:Slovenia
chemical_list: D000900:Anti-Bacterial Agents; D012336:RNA, Ribosomal, 16S