Publications

2023

Mori, M., Kadlcik, S., Lyu,S. , Kamenik, Z., Sakurada,K. , Mazumdar, A., Wang, H., Janata, J., & Abe, I. (2023) Molecular basis for carrier proteindependent amide bond formation in the biosynthesis of lincosamide antibiotics. Nature Catalysis, 6, 531–542 (2023). https://doi.org/10.1038/s41929-023-00971-y

Mori, T., Sun, X., Kadlcik, S., Janata, J., & Abe, I. (2023). Structure‐Function Analysis of the S‐Glycosylation Reaction in Lincosamide Antibiotics Biosynthesis. Angewandte Chemie International Edition, e202304989. https://doi.org/10.1002/anie.202304989

2022

Vimberg, V., Buriánková, K., Mazumdar, A., Branny, P., & Novotná, G. B. (2022). Role of membrane proteins in bacterial resistance to antimicrobial peptides. Medicinal Research Reviews, 42(3), 1023-1036. https://doi.org/10.1002/med.21869
Sur, V. P., Simonik, O., Novotna, M., Mazumdar, A., Liska, F., Vimberg, V., & Komrskova, K. (2022). Dynamic study of small toxic hydrophobic proteins PepA1 and PepG1 of Staphylococcus aureus. International Journal of Biological Macromolecules. https://doi.org/10.1016/j.ijbiomac.2022.07.192
Vimberg, V., Cavanagh, J.P., Novotná, M., Lenart, J., Nguyen Thi Ngoc, B., Veselá, J., Pain, M., Koběrská, M., and Balíková Novotná, G. (2020). Ribosome-mediated attenuation of vga(A) expression is shaped by the antibiotic resistance specificity of Vga(A) protein variants. Antimicrob. Agents Chemother. 64, e00666-20.
Vobruba, S., Kadlcik, S., Janata, J, and Kamenik, Z. (2022). TldD/TldE peptidases and N-deacetylases: A structurally unique yet ubiquitous protein family in the microbial metabolism. Microbiological Research, 265, 127186.

2021

Vimberg V. (2021).Teicoplanin—A New Use for an Old Drug in the COVID-19 Era? Pharmaceuticals, 14(12), 1227. https://doi.org/10.3390/ph14121227
Koběrská M., Veselá L.,Vimberg V., Lenart J., Veselá J., Kameník Z., Janata J.,  Balíkova Novotná G. (2021). Beyond Self-Resistance: ABCF ATPase LmrC Is a Signal-Transducing Component of an Antibiotic-Driven Signaling Cascade Accelerating the Onset of Lincomycin Biosynthesis. mBio 12(5): e0173121. doi: 10.1128/mBio.01731-21.
Vimberg V., Zieglerová L., Mazumdar A., Szűcs Z., Borbás A., Herczegh P., Baliková Novotná G. (2021). Pharmaceuticals, 14(11), 1182; https://doi.org/10.3390/ph14111182
Schmid R., Petras D., Nothias L-F., Wang M., Aron AT, Jagels A., Tsugawa H., Rainer J., Garcia-Aloy M., Dűhrkop K., Korf A., Pluskal T., Kameník Z. et al. (2021). Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment. Nature Communications, 12(3832).
Najmanová L., Sabová L., Lenartová M., Janatová T., Myšák J., Větrovský T. Těšínská B., Balíková Novotná G., Koběrská M., Broukal Z., Dušková J., Podzimek Š., Janata J. (2021). R/G Value—A Numeric Index of Individual Periodontal Health and Oral Microbiome Dynamics. Frontiers in Cellular and Infection Microbiology, 11: 602643. https://doi.org/10.3389/fcimb.2021.602643
Lenartová M., Těšínská B., Janatová T., Hřebíček O., Myšák J., Janata J., Najmanová L. (2021). The Oral Microbiome in Periodontal Health. Frontiers in Cellular and Infection Microbiology, 11: 629723. https://doi.org/10.3389/fcimb.2021.629723

2020

Vobruba S., Kamenik Z., Kadlcik S., Janata J. (2020). N-Deacetylation in Lincosamide Biosynthesis Is Catalyzed by a TldD/PmbA Family Protein. ACS Chemical Biology, 15 (8), 2048-2054. doi: 10.1021/acschembio.0c00224. html
Steiningerova L., Kamenik Z., Gazak R., Kadlcik S., Bashiri G., Man P., Pavlikova M., Janata J. (2020). Different reaction specificities of F420H2-dependent reductases facilitate pyrrolobenzodiazepines and lincomycin to fit their biological targets. Journal of the American Chemical Society, 142 (7), 3440. PDF
Vimberg, V., Zieglerova, L., Buriankova, K., Branny, P., & Balikova Novotna, G. (2020). VanZ reduces the binding of lipoglycopeptide antibiotics to Staphylococcus aureus and Streptococcus pneumoniae cells. Frontiers in Microbiology. doi: 10.3389/fmicb.2020.00566. html

2019

Janata, J., Kamenik, Z., Kadlcik, S., Najmanova, L., Gazak, R. (2019). Lincosamide derivatives, preparation and use thereof as antimicrobial agent. International patent application, WO2018161979.
Castaño, L. F., Cuartasa, V., Bernal, A., Insuasty, A., Guzman, J., Vidale, O., Rubio, V., Puerto, G., Lukáč, P., Vimberg, V., Balíková Novotná, G., Vannucci, L., Janata, J., Quiroga, J., Abonia, R., Noguerash, M., Cobo, J., Insuasty, B. (2019). New chalcone-sulfonamide hybrids exhibiting anticancer and antituberculosis activity. European Journal of medicinal Chemistry, 176, 50-60.
Buresova, A., Kopecky, J., Hrdinkova, V., Kamenik, Z., Omelka, M., & Sagova-Mareckova, M. (2019). Succession of microbial decomposers is determined by litter type, but site conditions drive decomposition rates. Applied and environmental microbiology, 85 (24).
Bakal, T., Janata, J., Sabova, L., Grabic, R., Zlabek, V., & Najmanova, L. (2019). Suitability and setup of next-generation sequencing-based method for taxonomic characterization of aquatic microbial biofilm. Folia microbiologica, 64 (1), 9-17. html
Vimberg, V., Gazak, R., Szűcs, Z., Borbás, A., Herczegh, P., Cavanagh, J. P., Zieglerova, L., Zavora, J., Adamkova, V., & Balikova Novotna, G. (2019). Fluorescence assay to predict activity of the glycopeptide antibiotics. The Journal of antibiotics, 72 (2), 114. html
Vimberg, V., Zieglerova, L., Zavora, J., Semberová, L., Prasilova, J., Adamkova, V., & Balikova Novotna, G. (2019). Draft genome sequences of three clinical isolates of teicoplanin-resistant Staphylococcus epidermidis from patients without prior exposure to glycopeptide antibiotics. Journal of global antimicrobial resistance, 16, 251-253. html

2018

Kamenik, Z., Gazak, R., Kadlcik, S., Steiningerova, L., Rynd, V., & Janata, J. (2018). C-C bond cleavage in biosynthesis of 4-alkyl-L-proline precursors of lincomycin and anthramycin cannot precede C-methylation. Nature communications, 9(1), 3167. PDF 

Janata, J., Kamenik, Z., Gazak, R., Kadlcik, S., & Najmanova, L. (2018). Biosynthesis and incorporation of an alkylproline-derivative (APD) precursor into complex natural products. Natural product reports, 35(3), 257-289. PDF

Pavlíková, M., Kameník, Z., Janata, J., Kadlčík, S., Kuzma, M., Najmanová, L. (2018). Novel pathway of 3-hydroxyanthranilic acid formation in limazepine biosynthesis reveals evolutionary relation between phenazines and pyrrolobenzodiazepines. Scientific Reports 8, No.: 7810. html
Vimberg, V., Cavanagh, J. P., Benada, O., Kofroňová, O., Hjerde, E., Zieglerová, L., & Novotná, G. B. (2018). Teicoplanin resistance in Staphylococcus haemolyticus is associated with mutations in histidine kinases VraS and WalK. Diagnostic microbiology and infectious disease 90(3), 233-240. html
Vimberg, V., Zieglerova, L., Závora, J., Šemberová, L., Prásilová, J., Adámková, V., & Balikova-Novotna, G. (2018). Decreased glycopeptide susceptibility in Staphylococcus pasteuri associated with a mutation in uncharacterised conserved membrane protein STP1_1701. Journal of global antimicrobial resistance 13, 119. html
Vimberg, V., Gazak, R., Szűcs, Z., Borbás, A., Herczegh, P., Cavanagh, J. P., Zieglerova, L., Závora, J., Adámková, V., Balikova Novotna, G. (2018). Fluorescence assay to predict activity of the glycopeptide antibiotics. The Journal of Antibiotics doi: 10.1038/s41429-018-0120-5. html
Bakal, T., Janata, J., Sabova, L., Grabic, R., Zlabek, V., & Najmanova, L. (2018). Suitability and setup of next-generation sequencing-based method for taxonomic characterization of aquatic microbial biofilm. Folia Microbiologica, 1-9. html
Giang, P. T., Sakalli, S., Fedorova, G., Tilami, S. K., Bakal, T., Najmanova, L., Grabic, R. (2018). Biomarker response, health indicators, and intestinal microbiome composition in wild brown trout (Salmo trutta m. fario L.) exposed to a sewage treatment plant effluent-dominated stream. Science of The Total Environment 625, 1494-1509.
Sakalli, S., Giang, P. T., Burkina, V., Zamaratskaia, G., Rasmussen, M. K., Bakal, T., Turek, J. (2018). The effects of sewage treatment plant effluents on hepatic and intestinal biomarkers in common carp (Cyprinus carpio). Science of the Total Environment 635, 1160-1169.

2017

Kadlčík, S., Kameník, Z., Vašek, D., Nedvěd, M., Janata, J. (2017). Elucidation of salicylate attachment in celesticetin biosynthesis opens the door to create a library of more efficient hybrid lincosamide antibiotics. Chemical Science 8(5), 3349-3355. PDF
Kameník, Z., Kadlčík, S., Gažák, R., Vobruba, Š., Palánová, L., Kuzma, M., Janata, J. (2017). Diversity of Alkylproline Moieties in Pyrrolobenzodiazepines Arises from Postcondensation Modifications of a Unified Building Block. ACS Chemical Biology, 12(8), 1993-1998. PDF
Čihák, M., Kameník, Z., Šmídová, K., Bergman, N., Benada, O., Kofroňová, O., Petříčková, K., Bobek, J. (2017). Secondary Metabolites Produced during the Germination of Streptomyces coelicolor. Frontiers in Microbiology 8, Article No.: 2495. html
Vobruba, Š., Kadlčík, S., Gažák, R., Janata, J. (2017). Evolution-guided adaptation of an adenylation domain substrate specificity to an unusual amino acid. PLoS ONE 12(12), e0189684. PDF

Archive

Křesinová, Z., Linhartová, L., Petrů, K., Krejčová, L., Šrédlová, K., Lhotský, O., Kameník, Z., Cajthaml, T. (2016). Method for analysis of psychopharmaceuticals in real industrial wastewater and groundwater with suspended organic particulate matter using solid phase extraction disks and ultra-high performance liquid chromatography/time-of-flight mass spectromatry. Journal of Chromatography, 1440. 15-22.
Karas, D., Gažák, R., Valentová, K., Chambers, C. S., Pivodová, V., Biedermann, D., Křenková, A., Oborná, I., Kuzma, M., Cvačka, J., Ulrichová J., Křen, V. (2016). Effects of 2,3-Dehydrosilybin and Its Galloyl Ester and Methyl Ether Derivatives on Human Umbilical Vein Endothelial Cells. Journal of Natural Products 79(4), 812-820, doi: 10.1021/acs.jnatprod.5b00905
Jiraskova, P., Gazak, R., Kamenik, Z., Steiningerova, L., Najmanova, L., Kadlcik, S., Novotna, J., Kuzma, M., Janata J. (2016). New Concept of the Biosynthesis of 4-alkyl-L-proline Precursors of Lincomycin. Hormaomycin, and Pyrrolobenzodiazepines: Could a gamma-Glutamyltransferasa Cleave the C-C Bond? Frontiers in microbiology 7, 276. doi: 10.3389/fmicb.2016.00276. PDF
Pevala, V., Truban, D., Bauer, JA., Kostan, J., Kunova, N., Bellova, J., Brandstetter, M., Marini, V., Krejci, L., Tomaska, L., Nosek, J., Kutejova, E. (2016). The structure and DNA-binding properties of Mgm101 from a yeast with a linear mitochondrial genome. Nucleic acids research. 44 (5), 2227-2239.
Kamenik, Z., Kadlcik, S.,Radojevic, B., Jiraskova, P., Kuzma, M., Gazak, R., Najmanova, L., Kopecky, J. and Janata, J. (2016). Deacetylation of mycothiol-derived “waste product” triggers the last biosynthetic steps of licosamide antibiotics. Chemical Science, 7 (1), doi: 10.1039/C5SC03327F. PDF
Kereiche, S., Kovacik, L., Bednar, J., Pevala, V., Kunova, N., Ondrovicova, G., Bauer, J., Ambro, L., Bellova, J., Kutejova, E., Raska, I. (2016). The N-terminal domain plays a crucial role in the structure of a full-length human mitochondrial Lon protease. Scientific reports, doi: 10.1038/srep33631
Valný, M., Honsa, P., Kirdajová, D., Kameník, Z., Anděrová, M. (2016). Tamoxifen in the Mouse Brain: Implications for Fate-Mapping Studies Using the Tamoxifen-Inducible Cre-loxP System Frontiers in Cellular Neuroscience 10, 243. html

Vimberg, V., Kuzma, M., Stodůlková, Eva., Novák, P., Bednárová, L., Šulc, M., Gažák, R. (2015). Hydnocarpin-Type Flavonolignans: Semisynthesis and Inhibitory Effects on Staphylococcus aureus Biofilm Formation. Journal of Natural Products 78(8), 2095-2103, doi: 10.1021/acs.jnatprod.5b00430
Vimberg, V., Lenart, J., Janata, J., & Novotna, G. B. (2015). ClpP-independent function of ClpX interferes with telithromycin resistance conferred by Msr (A) in Staphylococcus aureus. Antimicrobial agents and chemotherapy 59(6), 3611-3614.
Lenart, J., Vimberg, V., Vesela, L., Janata, J., Novotna, G. B. (2015). Detailed mutational analysis of Vga (A) interdomain linker: Implication for antibiotic resistance specificity and mechanism. Antimicrobial agents and chemotherapy 59(2), 1360-1364, doi: 10.1128/AAC.04468-14.
Janata, J., Kadlcik, S., Koberska, M., Ulanova, D., Kamenik, Z., Novak, P., Kopecky, J., Novotna, J., Radojevic, B., Plhackova, K., Gazak, R., Najmanova, L. (2015). Lincosamide Synthetase—A Unique Condensation System Combining Elements of Nonribosomal Peptide Synthetase and Mycothiol Metabolism. PLoS ONE, 10 (3). doi: 10.1371/journal.pone.0118850. PDF
Bakal, T., Goo, K. S.,Najmanova, L., Plhackova, K., Kadlcik, S., Ulanova, D. (2015). Comparative analysis of oligonucleotide primers for high-throughput screening of genes encoding adenylation domains of nonribosomal peptide synthetases in actinomycetes. Antonie van Leeuwenhoek, 108(5), 1267-1274.
Jandová, K., Dostál, P., Cajthaml, T., Kameník, Z. (2015). Intraspecific variability in allelopathy of Heracleum mantegazzianum is linked to the metabolic profile of root exudates. Annals of botany, 115(5), 821-831. PDF
Sagova-Mareckova, M., Ulanova, D., Sanderova, P., Omelka, M., Kamenik, Z., Olsovska, J., Kopecky, J. (2015). Phylogenetic relatedness determined between antibiotic resistance and 16S rRNA genes in actinobacteria. BMC microbiology, 15(1), 81. PDF

Bauer, J., Ondrovicova, G., Najmanova, L., Pevala, V., Kamenik, Z., Kostan, J., Janata, J., Kutejova, E. (2014). Structure and possible mechanism of the CcbJ methyltransferase from Streptomyces caelestis. Acta Crystallographica Section D-Biological Crystallography, 70, 943-957.
Najmanova, L., Ulanova, D., Jelinkova, M., Kamenik, Z., Kettnerova, E., Koberska, M., Gazak, R., Radojevic, B., Janata, J. (2014). Sequence analysis of porothramycin biosynthetic gene cluster. Folia Microbiologica, 15 (6), 543-552. PDF
Novotna, M., Gazak, R., Biedermann, D., Di Meo, F., Marhol, P., Kuzma, M., Bednarova, L., Fuksova, K., Trouillas, P., Kren, V. (2014). Cis-trans isomerization of silybins A and B. J. Org. Chem. 10, 1047-1063.
Krenek, K., Gazak, R., Daskhan, G.C., Garcia, J., Fiore, M., Dumy, P., Sulc, M., Kren, V., Renaudet, O. (2014). Access to bifunctionalized biomolecular platforms using oxime ligation. Carbohydr. Res. 2014, 393, 9-14.
Ambro, L., Pevala, V., Ondrovicova, G., Bellova, J., Kunova, N., Kutejova, E., Bauer, J. (2014). Mutations to a glycine loop in the catalytic site of human Lon changes its protease, peptidase and ATPase activities FEBS J. 281 (7), 1784-1797, doi: 10.1111/febs.12740
Kereïche, S., Kovacik, L., Pevala, V., Ambro, L., Bellov, J., Kutejova, E., Raska, I. (2014). Short Communication Three-Dimensional Reconstruction of the S885A Mutant of Human Mitochondrial Lon Protease. Folia Biologica (Praha), 60(1), 62-65.

Kadlčík, S., Kučera, T., Chalupská, D., Gažák, R., Koběrská, M., Ulanová, D., Kopecký, J., Kutejová, E., Najmanová, L., Janata J. (2013). Adaptation of an L-proline adenylation domain to use 4-propyl-L-proline in the evolution of lincosamide biosynthesis. PLoS One 8, 1-16.
Najmanová, L., Kutejová, E., Kadlec, J., Polan, M., Olšovská, J., Benada, O., Novotná, J., Kameník, Z., Halada, P., Bauer, J., Janata, J. (2013). Characterization of N-demethyl lincosamide methyltransferases LmbJ and CcbJ. ChemBioChem 14(17), 2259-2262, doi: 10.1002/cbic.201300389.
Novotna, J., Olsovska, J., Novak, P., Mojzes, P., Chaloupkova, R., Kamenik, Z., Spizek, J., Kutejova, E., Mareckova, M., Tichy, P., Damborsky, J., Janata, J. (2013). Lincomycin biosynthesis involves a tyrosine hydroxylating heme protein of an unusual enzyme family. PLoS ONE, 8(12). doi:10.1371/journal.pone.0079974. PDF
Novotna, J., Gust, B., Kulik, A., Spizek, J., Heide, L. (2013). Five gene products are required for assembly of the central pyrrole moiety of coumermycin A1. J. Ind. Microbiol. Biotechnol. doi: 10.1007/s10295-013-1266-6
Gažák, R., Trouillas, P., Biedermann, D., Fuksová, K., Marhol, P., Kuzma, M., Křen, V. (2013). Base-catalyzed oxidation of silybin and isosilybin into 2,3-dehydro derivatives. Tetrahedron Lett. 54 (4), 315 – 317.
Gažák, R., Fuksová, K., Marhol, P., Kuzma, M., Agarwal, R., Křen, V. (2013). Preparative method for isosilybin isolation based on enzymatic kinetic resolution of silymarin mixture. Process Biochem. 48 (1), 184 – 189.
Vrba, J., Gažák, R., Kuzma, M., Papoušková, B., Vacek, J., Weiszenstein, M., Křen, V., Ulrichová, J. (2013). A novel semisynthetic flavonoid 7-O-galloyltaxifolin upregulates heme oxygenase-1 in RAW264.7 cells via MAPK/Nrf2 pathway. J. Med.Chem. 56 (3), 856-866.
Agarwal, C., Wadhwa, R., Deep, G., Biedermann, D., Gažák, R., Křen, V., Agarwal, R. (2013). Anti-cancer Efficacy of Silybin Derivatives- A Structure-activity Relationship. PLoS ONE, 8 (3), e00074
Kučera, T., Otyepka, M., Matušková, A., Samad, A., Kutejová, E., Janata, J. (2013). A Computational Study of the Glycine-Rich Loop of Mitochondrial Processing Peptidase. PLoS ONE 8 (9), e74518, doi: 10.1371/journal.pone.0074518
Olšovská, J., Kameník, Z., Čejka, P., Jurková, M., Mikyška, A. (2013). Ultra-high-performance liquid chromatography profiling method for chemical screening of proanthocyanidins in Czech hops, Talanata 2013, 116, 919.
Kutejová, E., Kučera, T., Matušková, A., Janata, J. (2013). Mitochondrial Processing Peptidase. Review chapter in the Handbook of Proteolytic Enzymes. Eds. Neil D. Rawlings and Guy S. Salvesen; Elsevier Ltd., ISBN: 978-0-12-382219-2
Mach, J., Poliak, P., Matušková, A., Žárský,V., Janata, J., Lukeš, J., Tachezy, J. (2013). An advanced system of the mitochondrial processing peptidase and core protein family in Trypanosoma brucei and multiple origins of the core I subunit in eukaryotes. Genome Biology and Evolution; 5(5), 860-865, doi: 10.1093/gbe/evt05

Institue of Microbiology

Institute of Microbiology, CAS
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The Czech Republic

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