Detail publikačního výsledku

Systems biology approach for analysis of mobile genetic elements in chicken gut microbiome

SCHWARZEROVÁ, J.; ZEMAN, M.; RYCHLÍK, I.; WECKWERTH, W.; PROVAZNÍK, I.; DOLEJSKÁ, M.; ČEJKOVÁ, D.

Original Title

Systems biology approach for analysis of mobile genetic elements in chicken gut microbiome

English Title

Systems biology approach for analysis of mobile genetic elements in chicken gut microbiome

Type

Paper in proceedings (conference paper)

Original Abstract

Antibiotic use in farming for decades has led to the selection pressure on chicken commensal bacteria which adapted to those changes by the acquisition of antibiotic resistance genes via horizontal gene transfer. Extensive gene transfer between gut bacteria is mediated by mobile genetic elements such as plasmids, integrative conjugative elements and temperate phages. Therefore, chicken gut commensal bacteria are considered reservoirs of antibiotic resistance genes. Recently, we initiated a systemic cultivation of chicken gut anaerobes followed by subsequent whole genome sequencing and analysis. In this study, we implemented a novel in silico approach using systems biology methods to detect horizontal gene traits and mobile genetic elements associated with it in the genomes of chicken gut commensals. In total, we identified 1,427 genes envisaged to drive horizontal gene transfer between individual chicken gut microbiota members across different families. Except for genes known to be vertically transferred, we also revealed hypothetical genes which may represent important, yet unknown section of mobilome

English abstract

Antibiotic use in farming for decades has led to the selection pressure on chicken commensal bacteria which adapted to those changes by the acquisition of antibiotic resistance genes via horizontal gene transfer. Extensive gene transfer between gut bacteria is mediated by mobile genetic elements such as plasmids, integrative conjugative elements and temperate phages. Therefore, chicken gut commensal bacteria are considered reservoirs of antibiotic resistance genes. Recently, we initiated a systemic cultivation of chicken gut anaerobes followed by subsequent whole genome sequencing and analysis. In this study, we implemented a novel in silico approach using systems biology methods to detect horizontal gene traits and mobile genetic elements associated with it in the genomes of chicken gut commensals. In total, we identified 1,427 genes envisaged to drive horizontal gene transfer between individual chicken gut microbiota members across different families. Except for genes known to be vertically transferred, we also revealed hypothetical genes which may represent important, yet unknown section of mobilome

Keywords

Antibiotic resistance genes, Horizontal gene transfer, Mobilome, Microbiome, Systems biology

Key words in English

Antibiotic resistance genes, Horizontal gene transfer, Mobilome, Microbiome, Systems biology

Authors

SCHWARZEROVÁ, J.; ZEMAN, M.; RYCHLÍK, I.; WECKWERTH, W.; PROVAZNÍK, I.; DOLEJSKÁ, M.; ČEJKOVÁ, D.

RIV year

2023

Released

01.12.2022

Publisher

IEEE Computer Society

ISBN

978-1-4577-1799-4

Book

2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

Pages from

2865

Pages to

2870

Pages count

6

URL

https://doi.ieeecomputersociety.org/10.1109/BIBM55620.2022.9995414

Full text in the Digital Library

http://hdl.handle.net/

BibTex

@inproceedings{BUT180013,
  author="Jana {Schwarzerová} and Michal {Zeman} and Ivan {Rychlík} and Wolfram {Weckwerth} and Valentýna {Provazník} and Monika {Dolejská} and Darina {Čejková}",
  title="Systems biology approach for analysis of mobile genetic elements in chicken gut microbiome",
  booktitle="2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)",
  year="2022",
  pages="2865--2870",
  publisher="IEEE Computer Society",
  doi="10.1109/BIBM55620.2022.9995414",
  isbn="978-1-4577-1799-4",
  url="https://doi.ieeecomputersociety.org/10.1109/BIBM55620.2022.9995414"
}