Project detail

Horizontal gene transfer network in chicken gut microbiome: detection and prediction of antibiotic resistome and mobilome

Duration: 01.01.2022 — 31.12.2024

Funding resources

Czech Science Foundation - Standardní projekty

- whole funder

On the project

Projekt se zabývá analýzou genomů bakteriálních společenstev, tzv mikrobiomu s cílem detekce genů antibiotické rezistence a souvisejících mobilních genetických elementů za použití běžných přístupů i nových experimentálních postupů. Závěrem bude navržen nový postup bioninformatické analýzy dat.

Description in English
The project focuses on the analysis of bacterial community genomes, i.e. microbiome, with the aim to detect antibiotic resistance genes and associated mobile genetic elements using both, common and novel experimental approaches. F`inally, a new computational workflow on the analysis will be proposed.

Keywords
střevní mikrobiom kuřat, kuřecí farmy, horizontální přenos genů, rezistom, metagenomika, mobilom

Key words in English
chicken gut microbiome, chicken farms, horizontal gene transfer, rezistome, metagenomics, mobilome

Mark

22-16786S

Default language

Czech

People responsible

Jakubíčková Markéta, Ing., Ph.D. - fellow researcher
Petrovičová Gabriela, Ing. - fellow researcher
Rajasekaran Laxmipriya - fellow researcher
Schwarzerová Jana, Ing. et Ing., MSc - fellow researcher
Šabatová Kateřina, Ing. - fellow researcher
Čejková Darina, Mgr. Bc., Ph.D. - principal person responsible

Units

Department of Biomedical Engineering
- beneficiary (2021-03-28 - not assigned)

Results

SCHWARZEROVÁ, J.; ČEJKOVÁ, D. Identification of horizontal genes transfer elements across strains inhabiting the same niche using pan-genome analysis. In Proceedings I of the 28th Conference STUDENT EEICT 2022 General Papers. Brno: Brno University of Technology, Faculty of Electrical Engineering and Communication, 2022. p. 416-420. ISBN: 978-80-214-6029-4.
Detail

SCHWARZEROVÁ, J.; ZEMAN, M.; RYCHLÍK, I.; WECKWERTH, W.; PROVAZNÍK, I.; DOLEJSKÁ, M.; ČEJKOVÁ, D. Systems biology approach for analysis of mobile genetic elements in chicken gut microbiome. In 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE Computer Society, 2022. p. 2865-2870. ISBN: 978-1-4577-1799-4.
Detail

SCHWARZEROVÁ, J.; ZEMAN, M.; WECKWERTH, W.; PROVAZNÍK, I.; RYCHLÍK, I.; ČEJKOVÁ, D. Comprehensive analysis of mobile genetic elements in chicken gut microbiome using a novel in-silico approach. 14th Host Pathogen Interaction Forum 2022. Hradec Kralove: 2022. ISBN: 978-80-906723-2-1.
Detail

ČEJKOVÁ, D.; STREĎANSKÁ, K.; JUREČKOVÁ, K.; NYKRÝNOVÁ, M.; SCHWARZEROVÁ, J.; DOLEJSKÁ, M. Horizontal gene transfer network in chicken gut microbiome. 14th Host Pathogen Interaction Forum 2022. Hradec Kralove: 2022. ISBN: 978-80-906723-2-1.
Detail

NEJEZCHLEBOVÁ, J.; SCHWARZEROVÁ, J.; ČEJKOVÁ, D. An insight into horizontal gene transfer in Bacteroidetes spp. using in-silico analysisof operon structures. Proceedings I of the 29th Conference STUDENT EEICT 2023 General papers. 1. Brno: Brno University of Technology, Faculty of Electrical Engineering and Communication, 2023. p. 210-213. ISBN: 978-80-214-6153-6.
Detail

XXIII. meeting of Biochemist and Molecular Bilogists. 2024.
Detail

SCHWARZEROVÁ, J.; ZEMAN, M.; BABÁK, V.; JUREČKOVÁ, K.; NYKRÝNOVÁ, M.; VARGA, M.; WECKWERTH, W.; DOLEJSKÁ, M.; PROVAZNÍK, V.; RYCHLÍK, I.; ČEJKOVÁ, D. Detecting horizontal gene transfer among microbiota: an innovative pipeline for identifying co-shared genes within the mobilome through advanced comparative analysis. Microbiology spectrum, 2023, vol. 12, no. 1, ISSN: 2165-0497.
Detail

SCHWARZEROVÁ, J.; RAJASEKARAN, L.; JUREČKOVÁ, K.; NEJEZCHLEBOVÁ, J.; VARGA, M.; PROVAZNÍK, V.; WECKWERTH, W.; ČEJKOVÁ, D. Visualizing Horizontal Gene Transfer Detection in Phylogenetically Divergent Bacteria. In Lecture Notes in Bioinformatics. Lecture Notes in Computer Science. 14849. Springer Nature, 2024. p. 267-277. ISBN: 978-3-031-64636-2. ISSN: 1611-3349.
Detail

SCHWARZEROVÁ, J.; VARGA, M.; NEJEZCHLEBOVÁ, J.; WECKWERTH, W.; RYCHLÍK, I.; ČEJKOVÁ, D. Exploring Mobile Genetic Elements: A Novel In-Silico Approach to Analyzing the Microbiome. Germany: 2024.
Detail

VARGA, M.; JOLLEY, K.; SCHWARZEROVÁ, J.; ČEJKOVÁ, D.; MAIDEN, M. Using visual analytics to make sense of genomics data. Oxford UK: Oxford hub, 2024.
Detail

SCHWARZEROVÁ, J.; LABANAVA, A.; RYCHLÍK, I.; VARGA, M.; ČEJKOVÁ, D. A minireview on the bioinformatics analysis of mobile gene elements in microbiome research. Frontiers in Bacteriology, 2023, vol. 2, no. 1, ISSN: 2813-6144.
Detail

Responsibility: Čejková Darina, Mgr. Bc., Ph.D.