Publications

• 2024

  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.
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  PATÁKOVÁ, P.; VASYLKIVSKA, M.; SEDLÁŘ, K.; JUREČKOVÁ, K.; BEZDÍČEK, M.; LOVECKÁ, P.; BRANSKÁ, B.; KAŠTÁNEK, P.; KROFTA, K. Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.). Frontiers in Microbiology, 2024, vol. 15, no. Neuvedeno, p. 1-15. ISSN: 1664-302X.
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  JUREČKOVÁ, K.; NYKRÝNOVÁ, M.; SLANINOVÁ, E.; FLEURIOT-BLITMAN, H.; AMSTUTZ, V.; HEŘMÁNKOVÁ, K.; BEZDÍČEK, M.; MRÁZOVÁ, K.; HRUBANOVÁ, K.; ZINN, M.; OBRUČA, S.; SEDLÁŘ, K. Cultivation driven transcriptomic changes in the wild-type and mutant strains of Rhodospirillum rubrum. Computational and Structural Biotechnology Journal, 2024, vol. 23, no. December 2024, p. 2681-2694. ISSN: 2001-0370.
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• 2023

  NYKRÝNOVÁ, M.; JUREČKOVÁ, K.; MUSILOVÁ, J.; SLANINOVÁ, E.; OBRUČA, S.; FLEURIOT-BLITMAN, H.; ZINN, M.; SEDLÁŘ, K. Transcriptome Analysis of Rhodospirillum rubrum - Wild Type and Mutant Strains. 11th European Symposium on Biopolymer (ESBP). 2023.
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  JUREČKOVÁ, K. Výuka Pythonu na ÚBMI FEKT VUT. Trendy v biomedicínském inženýrství 2023. 2023. p. 125-129. ISBN: 978-80-214-6173-4.
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  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.
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  NYKRÝNOVÁ, M.; JUREČKOVÁ, K.; MUSILOVÁ, J.; SLANINOVÁ, E.; OBRUČA, S.; HANSLIKOVA, J.; FLEURIOT-BLITMAN, H.; ZINN, M.; SEDLÁŘ, K. Genomic and phenotypic analysis of Rhodospirillum rubrum – wild type and mutant strain. 10th International Chemical-Technological Conference (ICCT), Mikulov, Czechia. 2023.
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  JUREČKOVÁ, K.; SLANINOVÁ, E.; OBRUČA, S.; FLEURIOT-BLITMAN, H.; ZINN, M.; SEDLÁŘ, K. Differential expression analysis of RNA-Seq data for identification of housekeeping genes in Rhodospirillum rubrum DSM 467. 11th European Symposium on Biopolymer (ESBP). 2023.
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• 2022

  NYKRÝNOVÁ, M.; JUREČKOVÁ, K.; ŠKUTKOVÁ, H.; SLANINOVÁ, E.; OBRUČA, S.; FLEURIOT-BLITMAN, H.; ZINN, M.; SEDLÁŘ, K. Gene expression profiling in Rhodospirillum rubrum. 18th International Symposium on Biopolymers (ISBP). 2022.
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  POMYKALOVÁ, B.; POLZEROVÁ, N.; NEJEZCHLEBOVÁ, J.; SCHWARZEROVÁ, J.; JUREČKOVÁ, K.; SEDLÁŘ, K. Advanced annotation related to gene regulation in Clostridium beijerinckii NRRL B-598. The Biomania Student Scientific Meeting 2022 - Book of Abstracts. Brno: Masaryk University Press, 2022. p. 136-136. ISBN: 978-80-280-0040-0.
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  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.
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  SEDLÁŘ, K.; MUSILOVÁ, J.; ŠKUTKOVÁ, H.; NYKRÝNOVÁ, M.; JUREČKOVÁ, K.; PERNICOVÁ, I.; SLANINOVÁ, E.; FLEURIOT-BLITMAN, H.; ZINN, M.; OBRUČA, S. Improving structural annotation of Rhodospirillum rubrum DSM 467 with RNA-Seq. 18th International Symposium on Biopolymers (ISBP). 2022.
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  JUREČKOVÁ, K.; NYKRÝNOVÁ, M.; SLANINOVÁ, E.; BEZDÍČEK, M.; OBRUČA, S.; ŠKUTKOVÁ, H.; SEDLÁŘ, K. Genomic and functional analysis of polyhydroxyalkanoates producer Rhodospirillum rubrum DSM 467. In Proceedings of the 9th International Conference on Chemical Technology. Prague: Czech Society of Industrial Chemistry, 2022. p. 367-372. ISBN: 978-80-88307-11-2.
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• 2021

  PATÁKOVÁ, P.; BRANSKÁ, B.; VASYLKIVSKA, M.; JUREČKOVÁ, K.; MUSILOVÁ, J.; PROVAZNÍK, I.; SEDLÁŘ, K. Transcriptomic studies of solventogenic clostridia, Clostridium acetobutylicum and Clostridium beijerinckii. BIOTECHNOLOGY ADVANCES, 2021, vol. 58, no. 1, p. 1-18. ISSN: 1873-1899.
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  BRANSKÁ, B.; VASYLKIVSKA, M.; RASCHMANOVÁ, H.; JUREČKOVÁ, K.; SEDLÁŘ, K.; PROVAZNÍK, I.; PATÁKOVÁ, P. Changes in efflux pump activity of Clostridium beijerinckii throughout ABE fermentation. Applied Microbiology and Biotechnology, 2021, vol. 105, no. 1, p. 1-13. ISSN: 1432-0614.
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  SCHWARZEROVÁ, J.; MUSILOVÁ, J.; JUREČKOVÁ, K.; BRANSKÁ, B.; PROVAZNÍK, I.; PATÁKOVÁ, P.; SEDLÁŘ, K. Operon Structure Inference in Clostridium beijerinckii NRRL B-589 using RNA-Seq. In 8th International Conference on Chemical Technology. 2021. p. 284-289. ISBN: 978-80-88307-08-2.
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  JUREČKOVÁ, K.; RASCHMANOVÁ, H.; KOLEK, J.; VASYLKIVSKA, M.; BRANSKÁ, B.; PATÁKOVÁ, P.; PROVAZNÍK, I.; SEDLÁŘ, K. Identification and validation of reference genes in Clostridium beijerinckii NRRL B-598 for RT-qPCR using RNA-Seq data. Frontiers in Microbiology, 2021, vol. 12, no. 1, p. 1-10. ISSN: 1664-302X.
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• 2020

  PATÁKOVÁ, P.; KOLEK, J.; JUREČKOVÁ, K.; BRANSKÁ, B.; SEDLÁŘ, K.; VASYLKIVSKA, M.; PROVAZNÍK, I. Deeper below the surface – transcriptional changes of selected Clostridium beijerinckii NRRL B-598 genes induced by butanol shock. MicrobiologyOpen, 2020, vol. 00, no. 0, p. 1-14. ISSN: 2045-8827.
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  VASYLKIVSKA, M.; BRANSKÁ, B.; SEDLÁŘ, K.; JUREČKOVÁ, K.; PROVAZNÍK, I.; PATÁKOVÁ, P. Phenotypic and genomic analysis of Clostridium beijerinckii NRRL B-598 mutants with increased butanol tolerance. Frontiers in Bioengineering and Biotechnology, 2020, vol. 8, no. 1, p. 1-18. ISSN: 2296-4185.
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• 2019

  JUREČKOVÁ, K.; SEDLÁŘ, K.; PROVAZNÍK, I. Identification of housekeeping genes in Clostridium beijerinckii NRRL B-598 RNA-Seq transcriptome. In Proceedings of the 7th International Conference on Chemical Technology. Czech Society of Industrial Chemistry, 2019. p. 67-71. ISBN: 978-80-88307-00-6.
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  BRANSKÁ, B.; VASYLKIVSKA, M.; SEDLÁŘ, K.; JUREČKOVÁ, K.; PATÁKOVÁ, P. Flow cytometry for better insight into the physiology of sporulating bacteria. 4th International Symposium on the Genetics of Industrial Microorganisms - Abstracts. 2019. p. 212-212.
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  JUREČKOVÁ, K.; SEDLÁŘ, K.; PROVAZNÍK, I. Pipeline for visualization of gene expression profiles of Clostridium beijerinckii NRRL B-598. In Proceedings of IEEE Student Branch Conference Mikulov 2019. Brno: Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií, 2019. p. 10-12. ISBN: 978-80-214-5781-2.
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  MUSILOVÁ, J.; JUREČKOVÁ, K.; KOLEK, J.; PROVAZNÍK, I.; PATÁKOVÁ, P.; SEDLÁŘ, K. Signaling Pathway for Butanol Production in Clostridium beijerinckii NRRL B-598. In Proceedings of the 7th International Conference on Chemical Technology. Czech Society of Industrial Chemistry, 2019. p. 46-52. ISBN: 978-80-88307-00-6.
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  PATÁKOVÁ, P.; BRANSKÁ, B.; SEDLÁŘ, K.; VASYLKIVSKA, M.; JUREČKOVÁ, K.; KOLEK, J.; CICKOVÁ, P.; PROVAZNÍK, I. Acidogenesis, solventogenesis, metabolic stress response and life cycle changes in Clostridium beijerinckii NRRL B-598 at the transcriptomic level. Scientific Reports, 2019, vol. 9, no. 1, p. 1-21. ISSN: 2045-2322.
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  PATÁKOVÁ, P.; VASYLKIVSKA, M.; JUREČKOVÁ, K.; MUSILOVÁ, J.; KOLEK, J.; BRANSKÁ, B.; SEDLÁŘ, K. Stress response to butyric acid and butanol formation in Clostridium beijerinckii at transcriptional level. 14th International Symposium on the Genetics of Industrial Microorganisms - Abstracts. 2019. p. 209-209.
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  SEDLÁŘ, K.; KOLEK, J.; GRUBER, M.; JUREČKOVÁ, K.; BRANSKÁ, B.; CSABA, G.; VASYLKIVSKA, M.; ZIMMER, R.; PATÁKOVÁ, P.; PROVAZNÍK, I. A transcriptional response of Clostridium beijerinckii NRRL B-598 to a butanol shock. BIOTECHNOL BIOFUELS, 2019, vol. 12, no. 1, p. 1-16. ISSN: 1754-6834.
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  VASYLKIVSKA, M.; JUREČKOVÁ, K.; BRANSKÁ, B.; SEDLÁŘ, K.; KOLEK, J.; PROVAZNÍK, I.; PATÁKOVÁ, P. Transcriptional analysis of amino acid, metal ion, vitamin and carbohydrate uptake in butanol-producing Clostridium beijerinckii NRRL B-598. PLOS ONE, 2019, vol. 14, no. 11, p. 1-19. ISSN: 1932-6203.
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• 2018

  JUREČKOVÁ, K.; KOŠČOVÁ, P.; SEDLÁŘ, K.; KOLEK, J.; PATÁKOVÁ, P.; PROVAZNÍK, I. In Silico Prediction of Genes Coding Efflux Pumps in Clostridium Beijerinckii NRRL B-598. In Proceedings of the 6th International Conference on Chemical Technology (ICCT). 2018. p. 86-90. ISBN: 978-80-86238-77-7.
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