Project detail
Horizontal gene transfer network in chicken gut microbiome: detection and prediction of antibiotic resistome and mobilome
Duration: 1.1.2022 — 31.12.2024
Funding resources
Grantová agentura České republiky - Standardní projekty
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
Čejková Darina, Mgr. Bc., Ph.D. - principal person 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
Units
Department of Biomedical Engineering
- responsible department (28.3.2021 - not assigned)
Department of Biomedical Engineering
- beneficiary (28.3.2021 - not assigned)
Results
XXIII. meeting of Biochemist and Molecular Bilogists. 2024.
Detail
PARTOVI NASR, M.; SCHWARZEROVÁ, J.; ČEJKOVÁ, D.; ŠABATOVÁ, K.; JAKUBÍČKOVÁ, M. Detection of antimicrobial resistance genes in chicken feces from metagenomic samples: a comparative study on bioinformatics tools. 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.; 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
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.; 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.; 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
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
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
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
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.; 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
Responsibility: Čejková Darina, Mgr. Bc., Ph.D.