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Šedo O, Roblíčková A, Ježek F, Gintar P, Kameník J, Zdráhal Z. Discriminatory power of MALDI-TOF MS protein profiling analysis of pork meat and meat products. Food Chem 2024; 449:139155. [PMID: 38608601 DOI: 10.1016/j.foodchem.2024.139155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 03/08/2024] [Accepted: 03/25/2024] [Indexed: 04/14/2024]
Abstract
Forty different sample preparation methods were tested to obtain the most informative MALDI-TOF MS protein profiles of pork meat. Extraction by 25% formic acid with the assistance of zirconia-silica beads followed by defatting by methanol:chloroform mixture (1:1, v/v) and deposition by using the layer-by-layer method was determined as the optimum sample preparation protocol. The discriminatory power of the method was then examined on samples of pork meat and meat products. The method was able to discriminate between selected salami based on the production method and brand and was able to monitor the ripening process in salami. However, it was not able to differentiate between different brands of pork ham or closely located parts of pork meat. In the latter case, a more comprehensive analysis using LC-MS/MS was used to assess the differences in protein abundance and their relation to the outputs of MALDI - TOF MS profiling.
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Affiliation(s)
- Ondrej Šedo
- Masaryk University, Central European Institute of Technology, Kamenice 5, 625 00 Brno, Czech Republic.
| | - Alena Roblíčková
- Masaryk University, Central European Institute of Technology, Kamenice 5, 625 00 Brno, Czech Republic
| | - František Ježek
- University of Veterinary Sciences Brno, Faculty of Veterinary Hygiene and Ecology, Palackého tř. 1946/1, 612 42 Brno, Czech Republic.
| | - Petr Gintar
- Masaryk University, Central European Institute of Technology, Kamenice 5, 625 00 Brno, Czech Republic; Masaryk University, Faculty of Science, National Centre for Biomolecular Research, Kamenice 5, 625 00 Brno, Czech Republic.
| | - Josef Kameník
- University of Veterinary Sciences Brno, Faculty of Veterinary Hygiene and Ecology, Palackého tř. 1946/1, 612 42 Brno, Czech Republic.
| | - Zbyněk Zdráhal
- Masaryk University, Central European Institute of Technology, Kamenice 5, 625 00 Brno, Czech Republic; Masaryk University, Faculty of Science, National Centre for Biomolecular Research, Kamenice 5, 625 00 Brno, Czech Republic.
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2
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Kovařovic V, Finstrlová A, Sedláček I, Petráš P, Švec P, Mašlaňová I, Neumann-Schaal M, Šedo O, Botka T, Staňková E, Doškař J, Pantůček R. Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex. Microbiol Spectr 2023; 11:e0134223. [PMID: 37712674 PMCID: PMC10581047 DOI: 10.1128/spectrum.01342-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Accepted: 07/03/2023] [Indexed: 09/16/2023] Open
Abstract
Novel species of coagulase-negative staphylococci, which could serve as reservoirs of virulence and antimicrobial resistance factors for opportunistic pathogens from the genus Staphylococcus, are recognized in human and animal specimens due to advances in diagnostic techniques. Here, we used whole-genome sequencing, extensive biotyping, MALDI-TOF mass spectrometry, and chemotaxonomy to characterize five coagulase-negative strains from the Staphylococcus haemolyticus phylogenetic clade obtained from human ear swabs, wounds, and bile. Based on the results of polyphasic taxonomy, we propose the species Staphylococcus brunensis sp. nov. (type strain NRL/St 16/872T = CCM 9024T = LMG 31872T = DSM 111349T). The genomic analysis revealed numerous variable genomic elements, including staphylococcal cassette chromosome (SCC), prophages, plasmids, and a unique 18.8 kb-long genomic island SbCIccrDE integrated into the ribosomal protein L7 serine acetyltransferase gene rimL. SbCIccrDE has a cassette chromosome recombinase (ccr) gene complex with a typical structure found in SCCs. Based on nucleotide and amino acid identity to other known ccr genes and the distinct integration site that differs from the canonical methyltransferase gene rlmH exploited by SCCs, we classified the ccr genes as novel variants, ccrDE. The comparative genomic analysis of SbCIccrDE with related islands shows that they can accumulate virulence and antimicrobial resistance factors creating novel resistance elements, which reflects the evolution of SCC. The spread of these resistance islands into established pathogens such as Staphylococcus aureus would pose a great threat to the healthcare system. IMPORTANCE The coagulase-negative staphylococci are important opportunistic human pathogens, which cause bloodstream and foreign body infections, mainly in immunocompromised patients. The mobile elements, primarily the staphylococcal cassette chromosome mec, which confers resistance to methicillin, are the key to the successful dissemination of staphylococci into healthcare and community settings. Here, we present a novel species of the Staphylococcus genus isolated from human clinical material. The detailed analysis of its genome revealed a previously undescribed genomic island, which is closely related to the staphylococcal cassette chromosome and has the potential to accumulate and spread virulence and resistance determinants. The island harbors a set of conserved genes required for its mobilization, which we recognized as novel cassette chromosome recombinase genes ccrDE. Similar islands were revealed not only in the genomes of coagulase-negative staphylococci but also in S. aureus. The comparative genomic study contributes substantially to the understanding of the evolution and pathogenesis of staphylococci.
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Affiliation(s)
- Vojtěch Kovařovic
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Adéla Finstrlová
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Petr Petráš
- Reference Laboratory for Staphylococci, National Institute of Public Health, Praha, Czech Republic
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Ivana Mašlaňová
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Meina Neumann-Schaal
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Brno, Czech Republic
| | - Tibor Botka
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Jiří Doškař
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Roman Pantůček
- Department of Experimental Biology, Division of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
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3
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Michálek O, Walker AA, Šedo O, Zdráhal Z, King GF, Pekár S. Composition and toxicity of venom produced by araneophagous white-tailed spiders (Lamponidae: Lampona sp.). Sci Rep 2022; 12:21597. [PMID: 36517485 PMCID: PMC9751281 DOI: 10.1038/s41598-022-24694-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Accepted: 11/18/2022] [Indexed: 12/15/2022] Open
Abstract
Prey-specialised spiders are adapted to capture specific prey items, including dangerous prey. The venoms of specialists are often prey-specific and less complex than those of generalists, but their venom composition has not been studied in detail. Here, we investigated the venom of the prey-specialised white-tailed spiders (Lamponidae: Lampona), which utilise specialised morphological and behavioural adaptations to capture spider prey. We analysed the venom composition using proteo-transcriptomics and taxon-specific toxicity using venom bioassays. Our analysis identified 208 putative toxin sequences, comprising 103 peptides < 10 kDa and 105 proteins > 10 kDa. Most peptides belonged to one of two families characterised by scaffolds containing eight or ten cysteine residues. Toxin-like proteins showed similarity to galectins, leucine-rich repeat proteins, trypsins and neprilysins. The venom of Lampona was shown to be more potent against the preferred spider prey than against alternative cricket prey. In contrast, the venom of a related generalist was similarly potent against both prey types. These data provide insights into the molecular adaptations of venoms produced by prey-specialised spiders.
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Affiliation(s)
- Ondřej Michálek
- grid.10267.320000 0001 2194 0956Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Andrew A. Walker
- grid.1003.20000 0000 9320 7537Institute for Molecular Bioscience, The University of Queensland, St. Lucia, QLD 4072 Australia ,grid.1003.20000 0000 9320 7537Australian Research Council Centre of Excellence for Innovations in Peptide and Protein Science, The University of Queensland, St. Lucia, QLD 4072 Australia
| | - Ondrej Šedo
- grid.10267.320000 0001 2194 0956Research Group Proteomics, Mendel Centre for Plant Genomics and Proteomics, Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic ,grid.10267.320000 0001 2194 0956Faculty of Science, National Centre for Biomolecular Research, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Zbyněk Zdráhal
- grid.10267.320000 0001 2194 0956Research Group Proteomics, Mendel Centre for Plant Genomics and Proteomics, Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic ,grid.10267.320000 0001 2194 0956Faculty of Science, National Centre for Biomolecular Research, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Glenn F. King
- grid.1003.20000 0000 9320 7537Institute for Molecular Bioscience, The University of Queensland, St. Lucia, QLD 4072 Australia ,grid.1003.20000 0000 9320 7537Australian Research Council Centre of Excellence for Innovations in Peptide and Protein Science, The University of Queensland, St. Lucia, QLD 4072 Australia
| | - Stano Pekár
- grid.10267.320000 0001 2194 0956Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
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Pekár S, Ortiz D, Sentenská L, Šedo O. Ecological specialization and reproductive isolation among closely related sympatric ant-eating spiders. J Anim Ecol 2022; 91:1855-1868. [PMID: 35765936 DOI: 10.1111/1365-2656.13767] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Accepted: 05/10/2022] [Indexed: 11/29/2022]
Abstract
Biological divergence results from several mechanisms. Defensive mechanisms, such as Batesian mimicry, can cause reproductive isolation via temporal segregation in foraging activity, particularly, in species that closely associate with their model. This seems to be the case of ant-eating spiders, which can be inaccurate Batesian mimics of their prey. Here, we focused on Zodarion nitidum, which has two forms occurring in sympatry, black and yellow. Given the expected noticeable impact of their colour differences on the spiders' interactions with their potential predators and prey, we investigated whether these morphotypes have diverged in other aspects of their biology. We measured the two morphotypes' phenotypic resemblance to a mimetic model, tested whether they were protected from predators, investigated their circadian activity, surveyed the prey they hunted, modelled their distributions, performed crossing experiments and estimated their degree of genetic differentiation. We found that the black morphotype is ant-like, resembling Messor ants, and it was not distinguishable from their ant models by four potential predators. In contrast, the yellow morphotype seems to use predator avoidance as a defensive strategy. Additionally, the two morphotypes differ in their circadian activity, the yellow morphotype being nocturnal and the black one being diurnal. The two morphotypes hunt and associate with different ant prey and possess marked differences in venom composition. Finally, crossing trials showed complete pre-mating isolation between the two morphotypes, but there was no evidence of genetic (mitochondrial data) or environmental niche differentiation. We conclude that the two morphotypes show evidence of a deep differentiation in morphological, behavioural, physiological and ecological traits that evolved together as part of the spider's diverging lifestyles.
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Affiliation(s)
- Stano Pekár
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - David Ortiz
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Lenka Sentenská
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Brno, Czech Republic
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Švec P, Králová S, Staňková E, Holochová P, Sedlář K, Koudelková S, Krsek D, Grzesiak J, Šedo O, Váczi P, Urvashi, Gupta V, Sood U, Lal R, Korpole S, Sedláček I. Pedobacter fastidiosus sp. nov., isolated from glacial habitats of maritime Antarctica. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005309] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strains P8930T and 478 were isolated from Antarctic glaciers located on James Ross Island and King George Island, respectively. They comprised Gram-stain-negative short rod-shaped cells forming pink pigmented colonies and exhibited identical 16S rRNA gene sequences and highly similar MALDI TOF mass spectra, and hence were assigned as representatives of the same species. Phylogenetic analysis based on 16S rRNA gene sequences assigned both isolates to the genus
Pedobacter
and showed
Pedobacter frigidisoli
and
Pedobacter terrae
to be their closest phylogenetic neighbours, with 97.4 and 97.2 % 16S rRNA gene sequence similarities, respectively. These low similarity values were below the threshold similarity value of 98.7%, confirming the delineation of a new bacterial species. Further genomic characterization included whole-genome sequencing accompanied by average nucleotide identity (ANI) and digital DNA–DNA hybridization calculations, and characterization of the genome features. The ANI values between P8930T and
P. frigidisoli
RP-3-11T and
P. terrae
DSM 17933T were 79.7 and 77.6 %, respectively, and the value between
P. frigidisoli
RP-3-11T and
P. terrae
DSM 17933T was 77.7 %, clearly demonstrating the phylogenetic distance and the novelty of strain P8930T. Further characterization included analysis of cellular fatty acids, quinones and polar lipids, and comprehensive biotyping. All the obtained results proved the separation of strains P8930T and 478 from the other validly named
Pedobacter
species, and confirmed that they represent a new species for which the name Pedobacter fastidiosus sp. nov. is proposed. The type strain is P8930T (=CCM 8938T=LMG 32098T).
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Affiliation(s)
- Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Karel Sedlář
- Department of Biomedical Engineering, Faculty of Electrical Engineering and Communication, Brno University of Technology, Technická 12, 616 00 Brno, Czech Republic
| | - Sylva Koudelková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Daniel Krsek
- NRL for Diagnostic Electron Microscopy of Infectious Agents, The National Institute of Public Health, Šrobárova 49/48 100 00 Prague 10, Czech Republic
| | - Jakub Grzesiak
- Department of Antarctic Biology, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5A, 02-106 Warsaw, Poland
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Peter Váczi
- Department of Experimental Biology, Division of Experimental Plant Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Urvashi
- Microbial Type Culture Collection and Gene Bank (MTCC), CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh 160 036, India
| | - Vipin Gupta
- Ministry of Environment Forest & Climate Change, Integrated Regional Office, Dehradun, 248001, India
| | - Utkarsh Sood
- The Energy and Resources Institute, Lodhi Road New Delhi-110003, India
| | - Rup Lal
- The Energy and Resources Institute, Lodhi Road New Delhi-110003, India
| | - Suresh Korpole
- Microbial Type Culture Collection and Gene Bank (MTCC), CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh 160 036, India
| | - Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
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Sedláček I, Holochová P, Busse HJ, Koublová V, Králová S, Švec P, Sobotka R, Staňková E, Pilný J, Šedo O, Smolíková J, Sedlář K. Characterisation of Waterborne Psychrophilic Massilia Isolates with Violacein Production and Description of Massilia antarctica sp. nov. Microorganisms 2022; 10:microorganisms10040704. [PMID: 35456753 PMCID: PMC9028926 DOI: 10.3390/microorganisms10040704] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 03/22/2022] [Accepted: 03/22/2022] [Indexed: 11/16/2022] Open
Abstract
A group of seven bacterial strains producing blue-purple pigmented colonies on R2A agar was isolated from freshwater samples collected in a deglaciated part of James Ross Island and Eagle Island, Antarctica, from 2017–2019. The isolates were psychrophilic, oligotrophic, resistant to chloramphenicol, and exhibited strong hydrolytic activities. To clarify the taxonomic position of these isolates, a polyphasic taxonomic approach was applied based on sequencing of the 16S rRNA, gyrB and lepA genes, whole-genome sequencing, rep-PCR, MALDI-TOF MS, chemotaxonomy analyses and biotyping. Phylogenetic analysis of the 16S rRNA gene sequences revealed that the entire group are representatives of the genus Massilia. The closest relatives of the reference strain P8398T were Massilia atriviolacea, Massilia violaceinigra, Massilia rubra, Massilia mucilaginosa, Massilia aquatica, Massilia frigida, Massilia glaciei and Massilia eurypsychrophila with a pairwise similarity of 98.6–100% in the 16S rRNA. The subsequent gyrB and lepA sequencing results showed the novelty of the analysed group, and the average nucleotide identity and digital DNA–DNA hybridisation values clearly proved that P8398T represents a distinct Massilia species. After all these results, we nominate a new species with the proposed name Massilia antarctica sp. nov. The type strain is P8398T (= CCM 8941T = LMG 32108T).
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Affiliation(s)
- Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
- Correspondence: ; Tel.: +420-549-496-922
| | - Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität Wien, Veterinärplatz 1, A-1210 Wien, Austria;
| | - Vendula Koublová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Roman Sobotka
- Centrum Algatech, Institute of Microbiology, Czech Academy of Sciences, Opatovický mlýn, 379 01 Třeboň, Czech Republic; (R.S.); (J.P.)
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Jan Pilný
- Centrum Algatech, Institute of Microbiology, Czech Academy of Sciences, Opatovický mlýn, 379 01 Třeboň, Czech Republic; (R.S.); (J.P.)
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic;
| | - Jana Smolíková
- Department of Physical Geography and Geoecology, Faculty of Science, Charles University, Albertov 6, 128 00 Praha, Czech Republic;
| | - Karel Sedlář
- Department of Biomedical Engineering, Faculty of Electrical Engineering and Communication, Brno University of Technology, Technická 12, 616 00 Brno, Czech Republic;
- Institute of Bioinformatics, Department of Informatics, Ludwig-Maximilians-Universität München, Amalienstraße 17, 803 33 Munich, Germany
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Sedláček I, Holochová P, Sobotka R, Busse HJ, Švec P, Králová S, Šedo O, Pilný J, Staňková E, Koublová V, Sedlář K. Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov. Microbiol Spectr 2021; 9:e0045221. [PMID: 34378950 PMCID: PMC8552646 DOI: 10.1128/spectrum.00452-21] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Accepted: 07/07/2021] [Indexed: 11/20/2022] Open
Abstract
A group of 11 bacterial strains was isolated from streams and lakes located in a deglaciated northern part of James Ross Island, Antarctica. They were rod-shaped, Gram-stain-negative, motile, and catalase-positive and produced blue-violet-pigmented colonies on R2A agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, automated ribotyping, repetitive element sequence-based PCR (rep-PCR), MALDI-TOF MS, fatty acid profile, chemotaxonomy analyses, and extensive biotyping was applied in order to clarify the taxonomic position of these isolates. Phylogenetic analysis based on the 16S rRNA gene indicated that all the isolates constituted a coherent group belonging to the genus Rugamonas. The closest relatives to the representative isolate P5900T were Rugamonas rubra CCM 3730T, Rugamonas rivuli FT103WT, and Rugamonas aquatica FT29WT, exhibiting 99.2%, 99.1%, and 98.6% 16S rRNA pairwise similarity, respectively. The average nucleotide identity and digital DNA-DNA hybridization values calculated from the whole-genome sequencing data clearly proved that P5900T represents a distinct Rugamonas species. The G+C content of genomic DNAs was 66.1 mol%. The major components in fatty acid profiles were summed feature 3 (C16:1ω7c/C16:1ω6c), C 16:0, and C12:0. The cellular quinone content contained exclusively ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. The polyamine pattern was composed of putrescine, 2-hydroxputrescine, and spermidine. IMPORTANCE Our polyphasic approach provides a new understanding of the taxonomy of novel pigmented Rugamonas species isolated from freshwater samples in Antarctica. The isolates showed considerable extracellular bactericidal secretions. The antagonistic activity of studied isolates against selected pathogens was proved by this study and implied the importance of such compounds' production among aquatic bacteria. The psychrophilic and violacein-producing species Roseomonas violacea may play a role in the diverse consortium among pigmented bacteria in the Antarctic water environment. Based on all the obtained results, we propose a novel species for which the name Rugamonas violacea sp. nov. is suggested, with the type strain P5900T (CCM 8940T; LMG 32105T). Isolates of R. violacea were obtained from different aquatic localities, and they represent the autochthonous part of the water microbiome in Antarctica.
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Affiliation(s)
- Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | | | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität Wien, Vienna, Austria
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Brno, Czech Republic
| | - Jan Pilný
- Centrum Algatech, MBÚ AV ČR, Třeboň, Czech Republic
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Vendula Koublová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Karel Sedlář
- Department of Biomedical Engineering, Faculty of Electrical Engineering and Communication, Brno University of Technology, Brno, Czech Republic
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8
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Hrebík D, Füzik T, Gondová M, Šmerdová L, Adamopoulos A, Šedo O, Zdráhal Z, Plevka P. Receptor-induced rearrangements of capsid and genome prime rhinovirus 14 for activation and uncoating. Acta Crystallogr A Found Adv 2021. [DOI: 10.1107/s0108767321094381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
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Šponer JE, Šponer J, Kovařík A, Šedo O, Zdráhal Z, Costanzo G, Di Mauro E. Questions and Answers Related to the Prebiotic Production of Oligonucleotide Sequences from 3',5' Cyclic Nucleotide Precursors. Life (Basel) 2021; 11:800. [PMID: 34440544 PMCID: PMC8400769 DOI: 10.3390/life11080800] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Revised: 08/02/2021] [Accepted: 08/03/2021] [Indexed: 02/03/2023] Open
Abstract
Template-free nonenzymatic polymerization of 3',5' cyclic nucleotides is an emerging topic of the origin of life research. In the last ten years, a number of papers have been published addressing various aspects of this process. These works evoked a vivid discussion among scientists working in the field of prebiotic chemistry. The aim of the current review is to answer the most frequently raised questions related to the detection and characterization of oligomeric products as well as to the geological context of this chemistry.
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Affiliation(s)
- Judit E. Šponer
- Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 61265 Brno, Czech Republic; (J.Š.); (A.K.)
| | - Jiří Šponer
- Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 61265 Brno, Czech Republic; (J.Š.); (A.K.)
| | - Aleš Kovařík
- Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 61265 Brno, Czech Republic; (J.Š.); (A.K.)
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic; (O.Š.); (Z.Z.)
| | - Zbyněk Zdráhal
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic; (O.Š.); (Z.Z.)
| | - Giovanna Costanzo
- Institute of Molecular Biology and Pathology, CNR, Piazzale A. Moro 5, 00185 Rome, Italy; (G.C.); (E.D.M.)
| | - Ernesto Di Mauro
- Institute of Molecular Biology and Pathology, CNR, Piazzale A. Moro 5, 00185 Rome, Italy; (G.C.); (E.D.M.)
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Šponer JE, Šponer J, Výravský J, Šedo O, Zdráhal Z, Costanzo G, Di Mauro E, Wunnava S, Braun D, Matyášek R, Kovařík A. Nonenzymatic, Template‐Free Polymerization of 3’,5’ Cyclic Guanosine Monophosphate on Mineral Surfaces. ChemSystemsChem 2021. [DOI: 10.1002/syst.202100017] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Judit E. Šponer
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
| | - Jiří Šponer
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
| | - Jakub Výravský
- TESCAN Brno, s.r.o. Libušina třída 1 62300 Brno Czech Republic
- Department of Geological Sciences Faculty of Science Masaryk University Kotlářská 2 61137 Brno Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology Masaryk University Kamenice 5 62500 Brno Czech Republic
| | - Zbyněk Zdráhal
- Central European Institute of Technology Masaryk University Kamenice 5 62500 Brno Czech Republic
| | - Giovanna Costanzo
- Institute of Molecular Biology and Pathology, CNR Piazzale A. Moro 5 00185 Rome Italy
| | - Ernesto Di Mauro
- Institute of Molecular Biology and Pathology, CNR Piazzale A. Moro 5 00185 Rome Italy
| | - Sreekar Wunnava
- Physics Department Center for Nanoscience Ludwig-Maximilians-Universität München Amalienstrasse 54 80799 Munich Germany
| | - Dieter Braun
- Physics Department Center for Nanoscience Ludwig-Maximilians-Universität München Amalienstrasse 54 80799 Munich Germany
| | - Roman Matyášek
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
| | - Aleš Kovařík
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
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11
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Nemec A, Radolfová-Křížová L, Maixnerová M, Nemec M, Španělová P, Šafránková R, Šedo O, Lopes BS, Higgins PG. Delineation of a novel environmental phylogroup of the genus Acinetobacter encompassing Acinetobacter terrae sp. nov., Acinetobacter terrestris sp. nov. and three other tentative species. Syst Appl Microbiol 2021; 44:126217. [PMID: 34107439 DOI: 10.1016/j.syapm.2021.126217] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Revised: 05/14/2021] [Accepted: 05/14/2021] [Indexed: 11/29/2022]
Abstract
This study aimed to define the taxonomic position and structure of a novel, taxonomically unique group of 26 Acinetobacter strains, provisionally designated Taxon 24 (T24). The strains were recovered from soil and freshwater ecosystems (n = 21) or animals (n = 5) in Czechia, Scotland, Germany, the Netherlands and Turkey between 1993 and 2015. They were non-glucose-acidifying, nonhemolytic, nonproteolytic, growing at 32 °C and on acetate and ethanol as single carbon sources, but not on 4-hydroxybenzoate and mostly not at 37 °C. Their whole-genome sequences were 3.0-3.7 Mb in size, with GC contents of 39.8-41.3%. Based on core genome phylogenetic analysis, the 26 strains formed a distinct clade within the genus Acinetobacter, with strongly supported subclades termed T24A (n = 11), T24B (n = 8), T24C (n = 2), T24D (n = 3) and T24E (n = 2). The internal genomic ANIb values for these subclades were >94.8%, while the ANIb values between them were <92.5%. The results of MALDI-TOF MS-based analyses agreed with this classification. The five subclades differed from each other in the results of one to six carbon source assimilation tests. Given the genomic and phenotypic distinctness, internal coherence, numbers of available strains and geographically diverse origin of T24A and T24B, we propose the names Acinetobacter terrae sp. nov. and Acinetobacter terrestris sp. nov. for these two taxa, respectively. The type strains are ANC 4282v (= CCM 8986T = CCUG 73811T = CNCTC 8082T) and ANC 4471T (= CCM 8985T = CCUG 73812T = CNCTC 8093T), respectively. We conclude that these two species together with the other T24 strains represent a widely dispersed Acinetobacter clade primarily associated with terrestrial ecosystems.
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Affiliation(s)
- Alexandr Nemec
- Laboratory of Bacterial Genetics, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic; Department of Medical Microbiology, Second Faculty of Medicine, Charles University, V Úvalu 84, 150 06 Prague 5, Czech Republic.
| | - Lenka Radolfová-Křížová
- Laboratory of Bacterial Genetics, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic
| | - Martina Maixnerová
- Laboratory of Bacterial Genetics, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic
| | - Matěj Nemec
- Laboratory of Bacterial Genetics, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic
| | - Petra Španělová
- Czech National Collection of Type Cultures, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic
| | - Renata Šafránková
- Czech National Collection of Type Cultures, Centre for Epidemiology and Microbiology, National Institute of Public Health, Šrobárova 48, 100 42 Prague 10, Czech Republic
| | - Ondrej Šedo
- Research Group Proteomics, Central European Institute of Technology and National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Bruno S Lopes
- School of Medicine, Medical Sciences and Nutrition, University of Aberdeen, Aberdeen AB25 2ZD, UK
| | - Paul G Higgins
- Institute for Medical Microbiology, Immunology and Hygiene, University of Cologne, Goldenfelstrasse 19-21 50935 Cologne, and German Center for Infection Research (DZIF), Partner Site Bonn-Cologne, Cologne, Germany
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Sedláček I, Pantůček R, Zeman M, Holochová P, Šedo O, Staňková E, Švec P, Králová S, Vídeňská P, Micenková L, Korpole S, Lal R. Hymenobacter terrestris sp. nov. and Hymenobacter lapidiphilus sp. nov., isolated from regoliths in Antarctica. Int J Syst Evol Microbiol 2021; 70:6364-6372. [PMID: 33599603 DOI: 10.1099/ijsem.0.004540] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A group of four psychrotrophic bacterial strains was isolated on James Ross Island (Antarctica) in 2013. All isolates, originating from different soil samples, were collected from the ice-free northern part of the island. They were rod-shaped, Gram-stain-negative, and produced moderately slimy red-pink pigmented colonies on R2A agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, MALDI-TOF MS, rep-PCR analyses, chemotaxonomic methods and extensive biotyping was used to clarify the taxonomic position of these isolates. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolates belonged to the genus Hymenobacter. The closest relative was Hymenobacter humicola CCM 8763T, exhibiting 98.3 and 98.9% 16S rRNA pairwise similarity with the reference isolates P5342T and P5252T, respectively. Average nucleotide identity, digital DNA-DNA hybridization and core gene distances calculated from the whole-genome sequencing data confirmed that P5252T and P5342T represent two distinct Hymenobacter species. The menaquinone systems of both strains contained MK-7 as the major respiratory quinone. The predominant polar lipids for both strains were phosphatidylethanolamine and one unidentified glycolipid. The major components in the cellular fatty acid composition were summed feature 3 (C16:1 ω7c/C16:1ω6c), C16:1ω5c, summed feature 4 (anteiso-C17:1 B/iso-C17:1 I), anteiso-C15:0 and iso-C15 : 0 for all isolates. Based on the obtained results, two novel species are proposed, for which the names Hymenobacter terrestris sp. nov. (type strain P5252T=CCM 8765T=LMG 31495T) and Hymenobacter lapidiphilus sp. nov. (type strain P5342T=CCM 8764T=LMG 30613T) are suggested.
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Affiliation(s)
- Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Roman Pantůček
- Department of Experimental Biology, Section of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Michal Zeman
- Department of Experimental Biology, Section of Genetics and Molecular Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Petra Vídeňská
- Research Centre for Toxic Compounds in the Environment, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Lenka Micenková
- Research Centre for Toxic Compounds in the Environment, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Suresh Korpole
- Microbial Type Culture Collection and Gene Bank (MTCC), CSIR - Institute of Microbial Technology, Sector 39A, Chandigarh 160 036, India
| | - Rup Lal
- The Energy and Resources Institute, Lodhi Road, New Delhi - 110003, India
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Vrbovská V, Sedláček I, Zeman M, Švec P, Kovařovic V, Šedo O, Laichmanová M, Doškař J, Pantůček R. Characterization of Staphylococcus intermedius Group Isolates Associated with Animals from Antarctica and Emended Description of Staphylococcus delphini. Microorganisms 2020; 8:microorganisms8020204. [PMID: 32024111 PMCID: PMC7074773 DOI: 10.3390/microorganisms8020204] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 01/23/2020] [Accepted: 01/30/2020] [Indexed: 11/16/2022] Open
Abstract
Members of the genus Staphylococcus are widespread in nature and occupy a variety of niches, however, staphylococcal colonization of animals in the Antarctic environment has not been adequately studied. Here, we describe the first isolation and characterization of two Staphylococcus intermedius group (SIG) members, Staphylococcus delphini and Staphylococcus pseudintermedius, in Antarctic wildlife. Staphylococcus delphini were found exclusively in Adélie penguins. The report of S. pseudintermedius from Weddell seals confirmed its occurrence in all families of the suborder Caniformia. Partial RNA polymerase beta-subunit (rpoB) gene sequencing, repetitive PCR fingerprinting with the (GTG)5 primer, and matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry gave consistent identification results and proved to be suitable for identifying SIG members. Comparative genomics of S. delphini isolates revealed variable genomic elements, including new prophages, a novel phage-inducible chromosomal island, and numerous putative virulence factors. Surface and extracellular protein distribution were compared between genomes and showed strain-specific profiles. The pathogenic potential of S. delphini was enhanced by a novel type of exfoliative toxin, trypsin-like serine protease cluster, and enterotoxin C. Detailed analysis of phenotypic characteristics performed on six Antarctic isolates of S. delphini and eight reference strains from different animal sources enabled us to emend the species description of S. delphini.
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Affiliation(s)
- Veronika Vrbovská
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic; (V.V.); (M.Z.); (V.K.); (J.D.)
| | - Ivo Sedláček
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (I.S.); (P.Š.); (M.L.)
| | - Michal Zeman
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic; (V.V.); (M.Z.); (V.K.); (J.D.)
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (I.S.); (P.Š.); (M.L.)
| | - Pavel Švec
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (I.S.); (P.Š.); (M.L.)
| | - Vojtěch Kovařovic
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic; (V.V.); (M.Z.); (V.K.); (J.D.)
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic;
| | - Monika Laichmanová
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (I.S.); (P.Š.); (M.L.)
| | - Jiří Doškař
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic; (V.V.); (M.Z.); (V.K.); (J.D.)
| | - Roman Pantůček
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic; (V.V.); (M.Z.); (V.K.); (J.D.)
- Correspondence: ; Tel.: +420-549-49-6379
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Vrbovská V, Kovařovic V, Mašlaňová I, Indráková A, Petráš P, Šedo O, Švec P, Fišarová L, Šiborová M, Mikulášek K, Sedláček I, Doškař J, Pantůček R. Staphylococcus petrasii diagnostics and its pathogenic potential enhanced by mobile genetic elements. Int J Med Microbiol 2019; 309:151355. [PMID: 31563331 DOI: 10.1016/j.ijmm.2019.151355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2019] [Revised: 08/29/2019] [Accepted: 09/04/2019] [Indexed: 11/16/2022] Open
Abstract
Staphylococcus petrasii is recently described coagulase negative staphylococcal species and an opportunistic human pathogen, still often misidentified in clinical specimens. Four subspecies are distinguished in S. petrasii by polyphasic taxonomical analyses, however a comparative study has still not been done on the majority of isolates and their genome properties have not yet been thoroughly analysed. Here, we describe the phenotypic and genotypic characteristics of 65 isolates and the results of de novo sequencing, whole genome assembly and annotation of draft genomes of five strains. The strains were identified by MALDI-TOF mass spectrometry to the species level and the majority of the strains were identified to the subspecies level by fingerprinting methods, (GTG)5 repetitive PCR and ribotyping. Macrorestriction profiling by pulsed-field gel electrophoresis was confirmed to be a suitable strain typing method. Comparative genomics revealed the presence of new mobile genetic elements carrying antimicrobial resistance factors such as staphylococcal cassette chromosome (SCC) mec, transposones, phage-inducible genomic islands, and plasmids. Their mosaic structure and similarity across coagulase-negative staphylococci and Staphylococcus aureus suggest the possible exchange of these elements. Numerous putative virulence factors such as adhesins, autolysins, exoenzymes, capsule formation genes, immunomodulators, the phage-associated sasX gene, and SCC-associated spermidine N-acetyltransferase gene, pseudouridine and sorbitol utilization operons might explain clinical manifestations of S. petrasii isolates. The increasing recovery of S. petrasii isolates from human clinical material, the multi-drug resistance including methicillin resistance of S. petrasii subsp. jettensis strains, and virulence factors homologous to other pathogenic staphylococci demonstrate the importance of the species in human disease.
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Affiliation(s)
- Veronika Vrbovská
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Vojtěch Kovařovic
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Ivana Mašlaňová
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Adéla Indráková
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Petr Petráš
- Reference Laboratory for Staphylococci, National Institute of Public Health, Šrobárova 48, 100 42 Praha 10, Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Pavel Švec
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Lenka Fišarová
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Marta Šiborová
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Kamil Mikulášek
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; National Centre for Biomolecular Research, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Ivo Sedláček
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Jiří Doškař
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Roman Pantůček
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic.
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Sedláček I, Pantůček R, Holochová P, Králová S, Staňková E, Vrbovská V, Šedo O, Švec P, Busse HJ. Hymenobacter humicola sp. nov., isolated from soils in Antarctica. Int J Syst Evol Microbiol 2019; 69:2755-2761. [PMID: 31237531 DOI: 10.1099/ijsem.0.003555] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A set of three psychrotrophic bacterial strains was isolated from different soil samples collected at the deglaciated northern part of James Ross Island (Antarctica) in 2014. All isolates were rod-shaped, Gram-stain-negative, non-motile, catalase-positive and oxidase-negative, and produced moderately slimy red-pink pigmented colonies on Reasoner's 2A (R2A) agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, automated ribotyping, MALDI-TOF MS, chemotaxonomy methods and extensive biotyping using conventional tests and commercial identification kits was applied to the isolates in order to clarify their taxonomic position. Phylogenetic analysis based on the 16S rRNA gene showed that all isolates belonged to the genus Hymenobacter with the closest relative being Hymenobacter aerophilus DSM 13606T, exhibiting 98.5 % 16S rRNA gene pairwise similarity to the reference isolate P6312T. Average nucleotide identity values calculated from the whole-genome sequencing data proved that P6312T represents a distinct Hymenobacter species. The major components of the cellular fatty acid composition were summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c), C16 : 1 ω5c, summed feature 4 (C17 : 1 anteiso B/iso I), C15 : 0 anteiso and C15 : 0 iso. The menaquinone system of strain P6312T contained MK-7 as the major respiratory quinone. The predominant polar lipids were phosphatidylethanolamine and an unidentified phospholipid. Moderate to minor amounts of three unidentified polar lipids, four unidentified aminophospholipids, one unidentified glycolipid and one unidentified phospholipid were also present. Based on the obtained results, we propose a novel species for which the name Hymenobacterhumicola sp. nov. is suggested, with the type strain P6312T (=CCM 8763T=LMG 30612T).
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Affiliation(s)
- Ivo Sedláček
- Czech Collection of Microorganisms, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Roman Pantůček
- Section of Genetics and Molecular Biology, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Pavla Holochová
- Czech Collection of Microorganisms, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Stanislava Králová
- Czech Collection of Microorganisms, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Eva Staňková
- Czech Collection of Microorganisms, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Veronika Vrbovská
- Section of Genetics and Molecular Biology, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Brno, Czech Republic
| | - Pavel Švec
- Czech Collection of Microorganisms, Department of Experimental Biology, Masaryk University, Brno, Czech Republic
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität Wien, Veterinärplatz 1, A-1210 Wien, Austria
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Pino S, Di Mauro E, Costanzo G, Saladino R, Šedo O, Zdráhal Z, Šponer J, Šponer JE. Stabilization of Short Oligonucleotides in the Prebiotic Mix: The Potential Role of Amino Alcohols. ChemSystemsChem 2019. [DOI: 10.1002/syst.201900006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Samanta Pino
- Biological and Ecological DepartmentUniversity of Tuscia 01100 Viterbo Italy
| | - Ernesto Di Mauro
- Biological and Ecological DepartmentUniversity of Tuscia 01100 Viterbo Italy
| | - Giovanna Costanzo
- Istituto di Biologia e Patologia Molecolari CNR Piazzale Aldo Moro 5 00185 Rome Italy
| | - Raffaele Saladino
- Biological and Ecological DepartmentUniversity of Tuscia 01100 Viterbo Italy
| | - Ondrej Šedo
- CEITEC – Central European Institute of TechnologyMasaryk University Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Zbyněk Zdráhal
- CEITEC – Central European Institute of TechnologyMasaryk University Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Jiří Šponer
- CEITEC – Central European Institute of TechnologyMasaryk University Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
| | - Judit E. Šponer
- CEITEC – Central European Institute of TechnologyMasaryk University Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
- Institute of Biophysics of the Czech Academy of Sciences Královopolská 135 61265 Brno Czech Republic
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Šedo O, Radolfová-Křížová L, Nemec A, Zdráhal Z. Limitations of routine MALDI-TOF mass spectrometric identification of Acinetobacter species and remedial actions. J Microbiol Methods 2018; 154:79-85. [PMID: 30332615 DOI: 10.1016/j.mimet.2018.10.009] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Revised: 10/09/2018] [Accepted: 10/13/2018] [Indexed: 11/15/2022]
Abstract
A set of 204 taxonomically well-defined strains belonging to 17 Acinetobacter spp., including 11 recently described species (A. albensis, A. bohemicus, A. colistiniresistens, A. courvalinii. A. dispersus, A. gandensis, A. modestus, A. proteolyticus, A. seifertii, A. variabilis, and A. vivianii) and six species of the so-called haemolytic clade (A. beijerinckii, A. gyllenbergii, A. haemolyticus, A. junii, A. parvus, and A. venetianus), were subjected to MALDI-TOF mass spectrometric profiling. The identification outputs were evaluated using the current version (8.0.0.0) of the commercially available Bruker Daltonics, Biotyper database, which does not contain reference entries for six of the species tested. Up to 29% of the strains were falsely identified as different Acinetobacter spp. present in the Biotyper database, resulting mostly from the close phylogenetic relationship of species of the haemolytic clade. To obtain more reliable identification, extending the commercial database showed only partial improvement, while the use of an alternative MALDI matrix solution (strongly acidified ferulic acid) allowed correct identification of nearly all problematic strains.
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Affiliation(s)
- Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic.
| | - Lenka Radolfová-Křížová
- Laboratory of Bacterial Genetics, National Institute of Public Health, Šrobárova 48, 10042 Prague, Czech Republic
| | - Alexandr Nemec
- Laboratory of Bacterial Genetics, National Institute of Public Health, Šrobárova 48, 10042 Prague, Czech Republic; Department of Laboratory Medicine, Third Faculty of Medicine, Charles University, Prague, Czech Republic
| | - Zbyněk Zdráhal
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic.
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18
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Pekár S, Bočánek O, Michálek O, Petráková L, Haddad CR, Šedo O, Zdráhal Z. Venom gland size and venom complexity-essential trophic adaptations of venomous predators: A case study using spiders. Mol Ecol 2018; 27:4257-4269. [DOI: 10.1111/mec.14859] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Revised: 08/23/2018] [Accepted: 08/27/2018] [Indexed: 12/17/2022]
Affiliation(s)
- Stano Pekár
- Department of Botany and Zoology; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Ondřej Bočánek
- Central European Institute of Technology; Masaryk University; Brno Czech Republic
- National Centre for Biomolecular Research; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Ondřej Michálek
- Department of Botany and Zoology; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Lenka Petráková
- Department of Botany and Zoology; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Charles R. Haddad
- Department of Zoology & Entomology; University of the Free State; Bloemfontein South Africa
| | - Ondrej Šedo
- Central European Institute of Technology; Masaryk University; Brno Czech Republic
| | - Zbyněk Zdráhal
- Central European Institute of Technology; Masaryk University; Brno Czech Republic
- National Centre for Biomolecular Research; Faculty of Science; Masaryk University; Brno Czech Republic
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19
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Ostatná V, Kasalová V, Kmeťová K, Šedo O. Changes of electrocatalytic response of bovine serum albumin after its methylation and acetylation. J Electroanal Chem (Lausanne) 2018. [DOI: 10.1016/j.jelechem.2017.11.044] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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20
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Mašlaňová I, Wertheimer Z, Sedláček I, Švec P, Indráková A, Kovařovic V, Schumann P, Spröer C, Králová S, Šedo O, Krištofová L, Vrbovská V, Füzik T, Petráš P, Zdráhal Z, Ružičková V, Doškař J, Pantuček R. Description and Comparative Genomics of Macrococcus caseolyticus subsp. hominis subsp. nov., Macrococcus goetzii sp. nov., Macrococcus epidermidis sp. nov., and Macrococcus bohemicus sp. nov., Novel Macrococci From Human Clinical Material With Virulence Potential and Suspected Uptake of Foreign DNA by Natural Transformation. Front Microbiol 2018; 9:1178. [PMID: 29951040 PMCID: PMC6008420 DOI: 10.3389/fmicb.2018.01178] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 05/15/2018] [Indexed: 11/30/2022] Open
Abstract
The genus Macrococcus is a close relative of the genus Staphylococcus. Whilst staphylococci are widespread as human pathogens, macrococci have not yet been reported from human clinical specimens. Here we investigated Gram-positive and catalase-positive cocci recovered from human clinical material and identified as Macrococcus sp. by a polyphasic taxonomic approach and by comparative genomics. Relevant phenotypic, genotypic and chemotaxonomic methods divided the analyzed strains into two separate clusters within the genus Macrococcus. Comparative genomics of four representative strains revealed enormous genome structural plasticity among the studied isolates. We hypothesize that high genomic variability is due to the presence of a com operon, which plays a key role in the natural transformation of bacilli and streptococci. The possible uptake of exogenous DNA by macrococci can contribute to a different mechanism of evolution from staphylococci, where phage-mediated horizontal gene transfer predominates. The described macrococcal genomes harbor novel plasmids, genomic islands and islets, as well as prophages. Capsule gene clusters, intracellular protease, and a fibronectin-binding protein enabling opportunistic pathogenesis were found in all four strains. Furthermore, the presence of a CRISPR-Cas system with 90 spacers in one of the sequenced genomes corresponds with the need to limit the burden of foreign DNA. The highly dynamic genomes could serve as a platform for the exchange of virulence and resistance factors, as was described for the methicillin resistance gene, which was found on the novel composite SCCmec-like element containing a unique mec gene complex that is considered to be one of the missing links in SCC evolution. The phenotypic, genotypic, chemotaxonomic and genomic results demonstrated that the analyzed strains represent one novel subspecies and three novel species of the genus Macrococcus, for which the names Macrococcus caseolyticus subsp. hominis subsp. nov. (type strain CCM 7927T = DSM 103682T), Macrococcus goetzii sp. nov. (type strain CCM 4927T = DSM 103683T), Macrococcus epidermidis sp. nov. (type strain CCM 7099T = DSM 103681T), and Macrococcus bohemicus sp. nov. (type strain CCM 7100T = DSM 103680T) are proposed. Moreover, a formal description of Macrococcus caseolyticus subsp. caseolyticus subsp. nov. and an emended description of the genus Macrococcus are provided.
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Affiliation(s)
- Ivana Mašlaňová
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Zuzana Wertheimer
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Ivo Sedláček
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Pavel Švec
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Adéla Indráková
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Vojtěch Kovařovic
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Peter Schumann
- Leibniz Institute Deutsche Sammlung von Mikroorganismen und Zellkulturen—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Cathrin Spröer
- Leibniz Institute Deutsche Sammlung von Mikroorganismen und Zellkulturen—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Stanislava Králová
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Brno, Czechia
| | - Lucie Krištofová
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Veronika Vrbovská
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Tibor Füzik
- Central European Institute of Technology, Masaryk University, Brno, Czechia
| | - Petr Petráš
- Reference Laboratory for Staphylococci, National Institute of Public Health, Prague, Czechia
| | - Zbyněk Zdráhal
- Central European Institute of Technology, Masaryk University, Brno, Czechia
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czechia
| | - Vladislava Ružičková
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Jiří Doškař
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
| | - Roman Pantuček
- Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czechia
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Štveráková D, Šedo O, Benešík M, Zdráhal Z, Doškař J, Pantůček R. Rapid Identification of Intact Staphylococcal Bacteriophages Using Matrix-Assisted Laser Desorption Ionization-Time-of-Flight Mass Spectrometry. Viruses 2018; 10:v10040176. [PMID: 29617332 PMCID: PMC5923470 DOI: 10.3390/v10040176] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2018] [Revised: 04/01/2018] [Accepted: 04/02/2018] [Indexed: 12/31/2022] Open
Abstract
Staphylococcus aureus is a major causative agent of infections associated with hospital environments, where antibiotic-resistant strains have emerged as a significant threat. Phage therapy could offer a safe and effective alternative to antibiotics. Phage preparations should comply with quality and safety requirements; therefore, it is important to develop efficient production control technologies. This study was conducted to develop and evaluate a rapid and reliable method for identifying staphylococcal bacteriophages, based on detecting their specific proteins using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) profiling that is among the suggested methods for meeting the regulations of pharmaceutical authorities. Five different phage purification techniques were tested in combination with two MALDI-TOF MS matrices. Phages, either purified by CsCl density gradient centrifugation or as resuspended phage pellets, yielded mass spectra with the highest information value if ferulic acid was used as the MALDI matrix. Phage tail and capsid proteins yielded the strongest signals whereas the culture conditions had no effect on mass spectral quality. Thirty-seven phages from Myoviridae, Siphoviridae or Podoviridae families were analysed, including 23 siphophages belonging to the International Typing Set for human strains of S. aureus, as well as phages in preparations produced by Microgen, Bohemia Pharmaceuticals and MB Pharma. The data obtained demonstrate that MALDI-TOF MS can be used to effectively distinguish between Staphylococcus-specific bacteriophages.
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Affiliation(s)
- Dana Štveráková
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czech Republic.
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic.
| | - Martin Benešík
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czech Republic.
| | - Zbyněk Zdráhal
- Central European Institute of Technology, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic.
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic.
| | - Jiří Doškař
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czech Republic.
| | - Roman Pantůček
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czech Republic.
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22
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Pekár S, Petráková L, Šedo O, Korenko S, Zdráhal Z. Trophic niche, capture efficiency and venom profiles of six sympatric ant-eating spider species (Araneae: Zodariidae). Mol Ecol 2018; 27:1053-1064. [DOI: 10.1111/mec.14485] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2017] [Accepted: 12/22/2017] [Indexed: 11/28/2022]
Affiliation(s)
- Stano Pekár
- Department of Botany and Zoology; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Lenka Petráková
- Department of Botany and Zoology; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Ondrej Šedo
- Research Group Proteomics, CEITEC - Central European Institute of Technology; Masaryk University; Brno Czech Republic
- National Centre for Biomolecular Research; Faculty of Science; Masaryk University; Brno Czech Republic
| | - Stanislav Korenko
- Department of Agroecology and Biometeorology; Faculty of Agrobiology, Food and Natural Resources; Czech University of Life Sciences; Prague Czech Republic
| | - Zbyněk Zdráhal
- Research Group Proteomics, CEITEC - Central European Institute of Technology; Masaryk University; Brno Czech Republic
- National Centre for Biomolecular Research; Faculty of Science; Masaryk University; Brno Czech Republic
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23
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Vávrová A, Matoulková D, Balážová T, Šedo O. MALDI-TOF MS Analysis of Anaerobic Bacteria Isolated from Biofilm-Covered Surfaces in Brewery Bottling Halls. Journal of the American Society of Brewing Chemists 2018. [DOI: 10.1094/asbcj-2014-0324-01] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Andrea Vávrová
- Section of Microbiology, Department of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Dagmar Matoulková
- Department of Microbiology, Research Institute of Brewing and Malting, Plc., Lípová 15, 120 44 Prague 2, Czech Republic
| | - Tereza Balážová
- Section of Microbiology, Department of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
- Research Group Proteomics, CEITEC, Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Ondrej Šedo
- Research Group Proteomics, CEITEC, Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic
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24
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Kameník J, Saláková A, Hulánková R, Dušková M, Borilová G, Šedo O, Staruch L. Selected characteristics of dry fermented sausages prepared with quick-dry-slice (QDS process) technology and their comparison with traditional products. J FOOD PROCESS PRES 2018. [DOI: 10.1111/jfpp.13314] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Josef Kameník
- Department of Meat Hygiene and Technology, Faculty of Veterinary Hygiene and Ecology; University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
| | - Alena Saláková
- Department of Meat Hygiene and Technology, Faculty of Veterinary Hygiene and Ecology; University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
| | - Radka Hulánková
- Department of Meat Hygiene and Technology, Faculty of Veterinary Hygiene and Ecology; University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
- CEITEC-Central European Institute of Technology, University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
| | - Marta Dušková
- Department of Milk Hygiene and Technology, Faculty of Veterinary Hygiene and Ecology; University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
| | - Gabriela Borilová
- Department of Meat Hygiene and Technology, Faculty of Veterinary Hygiene and Ecology; University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
- CEITEC-Central European Institute of Technology, University of Veterinary and Pharmaceutical Sciences Brno; Palackeho tr. 1946/1, 61242 Brno Czech Republic
| | - Ondrej Šedo
- Research Group Proteomics, CEITEC Central European Institute of Technology; Masaryk University; Kamenice 5, CZ-62500 Brno Czech Republic
- National Centre for Biomolecular Research, Faculty of Science; Masaryk University; Kamenice 5, CZ-62500 Brno Czech Republic
| | - Ladislav Staruch
- Department of Food Science and Technology, Faculty of Chemical and Food Technology; Institute of Biotechnology and Food Science, Slovak University of Technology in Bratislava; Radlinskeho 9, 81237 Bratislava Slovakia
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25
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Uhlíková H, Solanský M, Hrdinová V, Šedo O, Kašparovský T, Hejátko J, Lochman J. MAMP (microbe-associated molecular pattern)-induced changes in plasma membrane-associated proteins. J Plant Physiol 2017; 210:51-57. [PMID: 28056387 DOI: 10.1016/j.jplph.2016.12.005] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2016] [Revised: 12/09/2016] [Accepted: 12/11/2016] [Indexed: 06/06/2023]
Abstract
Plant plasma membrane associated proteins play significant roles in Microbe-Associated Molecular Pattern (MAMP) mediated defence responses including signal transduction, membrane transport or energetic metabolism. To elucidate the dynamics of proteins associated with plasma membrane in response to cryptogein, a well-known MAMP of defence reaction secreted by the oomycete Phytophthora cryptogea, 2D-Blue Native/SDS gel electrophoresis of plasma membrane fractions was employed. This approach revealed 21 up- or down-regulated protein spots of which 15 were successfully identified as proteins related to transport through plasma membrane, vesicle trafficking, and metabolic enzymes including cytosolic NADP-malic enzyme and glutamine synthetase. Observed changes in proteins were also confirmed on transcriptional level by qRT-PCR analysis. In addition, a significantly decreased accumulation of transcripts observed after employment of a mutant variant of cryptogein Leu41Phe, exhibiting a conspicuous defect in induction of resistance, sustains the contribution of identified proteins in cryptogein-triggered cellular responses. Our data provide further evidence for dynamic MAMP-induced changes in plasma membrane associated proteins.
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Affiliation(s)
- Hana Uhlíková
- Department of Biochemistry, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czechia
| | - Martin Solanský
- Department of Biochemistry, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czechia
| | - Vendula Hrdinová
- Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czechia; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czechia
| | - Ondrej Šedo
- Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czechia; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czechia
| | - Tomáš Kašparovský
- Department of Biochemistry, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czechia
| | - Jan Hejátko
- Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czechia; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czechia
| | - Jan Lochman
- Department of Biochemistry, Faculty of Science, Masaryk University, Kotlářská 2, 61137 Brno, Czechia.
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Stopková R, Vinkler D, Kuntová B, Šedo O, Albrecht T, Suchan J, Dvořáková-Hortová K, Zdráhal Z, Stopka P. Mouse Lipocalins (MUP, OBP, LCN) Are Co-expressed in Tissues Involved in Chemical Communication. Front Ecol Evol 2016. [DOI: 10.3389/fevo.2016.00047] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
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27
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Mlynáriková K, Šedo O, Růžička F, Zdráhal Z, Holá V, Mahelová M. Evaluation of capacity to detect ability to form biofilm in Candida parapsilosis sensu stricto strains by MALDI-TOF MS. Folia Microbiol (Praha) 2016; 61:465-471. [DOI: 10.1007/s12223-016-0458-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2015] [Accepted: 04/04/2016] [Indexed: 11/29/2022]
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28
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Rong J, Pellegrini T, Harutyunyan SR, Šponer JE, Šponer J, Nováková O, Brabec V, Šedo O, Zdráhal Z, Costanzo G, Pino S, Saladino R, Di Mauro E, Kamalov M, Kaur H, Brimble MA, Papadimitriou SA, Salinas Y, Resmini M, Xie J, Xie Y, Sazonov PK, Beletskaya IP, Pfaffenbach M, Gaich T, Meninno S, Lattanzi A. Cover Picture: Synthesis of Chiral Tertiary Alcohols by CuI-Catalyzed Enantioselective Addition of Organomagnesium Reagents to Ketones / Emergence of the First Catalytic Oligonucleotides in a Formamide-Based Origin Scenario / Intermolecular Peptide Cross-. Chemistry 2016. [DOI: 10.1002/chem.201600250] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Jiawei Rong
- Stratingh Institute; University of Groningen; Nijenborgh 4 9747AG Groningen The Netherlands
| | - Tilde Pellegrini
- Stratingh Institute; University of Groningen; Nijenborgh 4 9747AG Groningen The Netherlands
| | | | - Judit E. Šponer
- Institute of Biophysics; Academy of Sciences of the Czech Republic; Královopolská 135 61265 Brno Czech Republic
- CEITEC - Central European Institute of Technology; Masaryk University; Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Jiří Šponer
- Institute of Biophysics; Academy of Sciences of the Czech Republic; Královopolská 135 61265 Brno Czech Republic
- CEITEC - Central European Institute of Technology; Masaryk University; Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Olga Nováková
- Institute of Biophysics; Academy of Sciences of the Czech Republic; Královopolská 135 61265 Brno Czech Republic
| | - Viktor Brabec
- Institute of Biophysics; Academy of Sciences of the Czech Republic; Královopolská 135 61265 Brno Czech Republic
| | - Ondrej Šedo
- CEITEC - Central European Institute of Technology; Masaryk University; Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Zbyněk Zdráhal
- CEITEC - Central European Institute of Technology; Masaryk University; Campus Bohunice, Kamenice 5 62500 Brno Czech Republic
| | - Giovanna Costanzo
- Istituto di Biologia e Patologia Molecolari; CNR, P.le Aldo Moro, 5 Rome 00185 Italy
| | - Samanta Pino
- Dipartimento di Biologia e Biotecnologie “Charles Darwin”; “Sapienza” Università di Roma; Piazzale Aldo Moro, 5 Rome 00185 Italy
| | - Raffaele Saladino
- Dipartimento di Scienze Ecologiche e Biologiche; Università della Tuscia; Via San Camillo De Lellis 01100 Viterbo Italy
| | - Ernesto Di Mauro
- Dipartimento di Biologia e Biotecnologie “Charles Darwin”; “Sapienza” Università di Roma; Piazzale Aldo Moro, 5 Rome 00185 Italy
| | - Meder Kamalov
- Institute of Biological Chemistry; Faculty of Chemistry; Währinger Straße 38 1090 Vienna Austria
| | - Harveen Kaur
- School of Chemical Sciences; The University of Auckland; 23 Symonds St. Auckland 1142 New Zealand
| | - Margaret A. Brimble
- School of Chemical Sciences; The University of Auckland; 23 Symonds St. Auckland 1142 New Zealand
- School of Biological Sciences; The University of Auckland; 3 Symonds St. Auckland 1142 New Zealand
- Maurice Wilkins Centre for Molecular Biodiscovery; The University of Auckland; 3 Symonds St. Auckland 1142 New Zealand
| | - Sofia A. Papadimitriou
- Queen Mary University of London; Department of Chemistry, SBCS; Mile End Road London E1 4NS UK
| | - Yolanda Salinas
- Queen Mary University of London; Department of Chemistry, SBCS; Mile End Road London E1 4NS UK
| | - Marina Resmini
- Queen Mary University of London; Department of Chemistry, SBCS; Mile End Road London E1 4NS UK
| | - Junfeng Xie
- College of Chemistry; Chemical Engineering and Materials Science, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Key Laboratory of Molecular and Nano Probes; Ministry of Education; Shandong Normal University; Jinan Shandong 250014 P. R. China
- Hefei National Laboratory for Physical Sciences at the Microscale; Department of Chemistry; University of Science and Technology of China, Hefei; Anhui 230026 P. R. China
| | - Yi Xie
- Hefei National Laboratory for Physical Sciences at the Microscale; Department of Chemistry; University of Science and Technology of China, Hefei; Anhui 230026 P. R. China
| | - Petr K. Sazonov
- Chemistry Department; Moscow State University; Leninskie Gory, 1 119992 Moscow Russia
| | - Irina P. Beletskaya
- Chemistry Department; Moscow State University; Leninskie Gory, 1 119992 Moscow Russia
| | - Magnus Pfaffenbach
- Institute of Organic Chemistry; Leibniz University of Hannover; Schneiderberg 1b 30167 Hannover Germany
| | - Tanja Gaich
- Institute of Organic Chemistry; Leibniz University of Hannover; Schneiderberg 1b 30167 Hannover Germany
| | - Sara Meninno
- Dipartimento di Chimica e Biologia “A. Zambelli”; Università di Salerno; Via Giovanni Paolo II 84084 Fisciano Italy
| | - Alessandra Lattanzi
- Dipartimento di Chimica e Biologia “A. Zambelli”; Università di Salerno; Via Giovanni Paolo II 84084 Fisciano Italy
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Dušková M, Kameník J, Lačanin I, Šedo O, Zdráhal Z. Lactic acid bacteria in cooked hams – Sources of contamination and chances of survival in the product. Food Control 2016. [DOI: 10.1016/j.foodcont.2015.09.019] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Šponer JE, Šponer J, Nováková O, Brabec V, Šedo O, Zdráhal Z, Costanzo G, Pino S, Saladino R, Di Mauro E. Emergence of the First Catalytic Oligonucleotides in a Formamide-Based Origin Scenario. Chemistry 2016; 22:3572-86. [PMID: 26807661 DOI: 10.1002/chem.201503906] [Citation(s) in RCA: 57] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2015] [Indexed: 02/02/2023]
Abstract
50 years after the historical Miller-Urey experiment, the formamide-based scenario is perhaps the most powerful concurrent hypothesis for the origin of life on our planet besides the traditional HCN-based concept. The information accumulated during the last 15 years in this topic is astonishingly growing and nowadays the formamide-based model represents one of the most complete and coherent pathways leading from simple prebiotic precursors up to the first catalytically active RNA molecules. In this work, we overview the major events of this long pathway that have emerged from recent experimental and theoretical studies, mainly concentrating on the mechanistic, methodological, and structural aspects of this research.
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Affiliation(s)
- Judit E Šponer
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic. .,CEITEC - Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, 62500, Brno, Czech Republic.
| | - Jiří Šponer
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic.,CEITEC - Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, 62500, Brno, Czech Republic
| | - Olga Nováková
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic
| | - Viktor Brabec
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic
| | - Ondrej Šedo
- CEITEC - Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, 62500, Brno, Czech Republic
| | - Zbyněk Zdráhal
- CEITEC - Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, 62500, Brno, Czech Republic
| | - Giovanna Costanzo
- Istituto di Biologia e Patologia Molecolari, CNR, P.le Aldo Moro, 5, Rome, 00185, Italy
| | - Samanta Pino
- Dipartimento di Biologia e Biotecnologie "Charles Darwin", "Sapienza" Università di Roma, Piazzale Aldo Moro, 5, Rome, 00185, Italy
| | - Raffaele Saladino
- Dipartimento di Scienze Ecologiche e Biologiche, Università della Tuscia, Via San Camillo De Lellis, 01100, Viterbo, Italy
| | - Ernesto Di Mauro
- Dipartimento di Biologia e Biotecnologie "Charles Darwin", "Sapienza" Università di Roma, Piazzale Aldo Moro, 5, Rome, 00185, Italy
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Uhlíková H, Obořil M, Klempová J, Šedo O, Zdráhal Z, Kašparovský T, Skládal P, Lochman J. Elicitin-Induced Distal Systemic Resistance in Plants is Mediated Through the Protein-Protein Interactions Influenced by Selected Lysine Residues. Front Plant Sci 2016; 7:59. [PMID: 26904041 PMCID: PMC4742723 DOI: 10.3389/fpls.2016.00059] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2015] [Accepted: 01/14/2016] [Indexed: 05/09/2023]
Abstract
Elicitins are a family of small proteins with sterol-binding activity that are secreted by Phytophthora and Pythium sp. classified as oomycete PAMPs. Although α- and β-elicitins bind with the same affinity to one high affinity binding site on the plasma membrane, β-elicitins (possessing 6-7 lysine residues) are generally 50- to 100-fold more active at inducing distal HR and systemic resistance than the α-isoforms (with only 1-3 lysine residues). To examine the role of lysine residues in elicitin biological activity, we employed site-directed mutagenesis to prepare a series of β-elicitin cryptogein variants with mutations on specific lysine residues. In contrast to direct infiltration of protein into leaves, application to the stem revealed a rough correlation between protein's charge and biological activity, resulting in protection against Phytophthora parasitica. A detailed analysis of proteins' movement in plants showed no substantial differences in distribution through phloem indicating differences in consequent apoplastic or symplastic transport. In this process, an important role of homodimer formation together with the ability to form a heterodimer with potential partner represented by endogenous plants LTPs is suggested. Our work demonstrates a key role of selected lysine residues in these interactions and stresses the importance of processes preceding elicitin recognition responsible for induction of distal systemic resistance.
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Affiliation(s)
- Hana Uhlíková
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Michal Obořil
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Jitka Klempová
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Ondrej Šedo
- Research Group Proteomics, Central European Institute of Technology, Masaryk UniversityBrno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Zbyněk Zdráhal
- Research Group Proteomics, Central European Institute of Technology, Masaryk UniversityBrno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Tomáš Kašparovský
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Petr Skládal
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
| | - Jan Lochman
- Department of Biochemistry, Faculty of Science, Masaryk UniversityBrno, Czech Republic
- *Correspondence: Jan Lochman,
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Španová A, Dráb V, Turková K, Špano M, Burdychová R, Šedo O, Šrůtková D, Rada V, Rittich B. Selection of potential probiotic Lactobacillus strains of human origin for use in dairy industry. Eur Food Res Technol 2015. [DOI: 10.1007/s00217-015-2511-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
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Dušková M, Kameník J, Šedo O, Zdráhal Z, Saláková A, Karpíšková R, Lačanin I. Survival and growth of lactic acid bacteria in hot smoked dry sausages (non-fermented salami) with and without sensory deviations. Food Control 2015. [DOI: 10.1016/j.foodcont.2014.10.030] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Vávrová A, Balážová T, Sedláček I, Tvrzová L, Šedo O. Evaluation of the MALDI-TOF MS profiling for identification of newly described Aeromonas spp. Folia Microbiol (Praha) 2014; 60:375-83. [DOI: 10.1007/s12223-014-0369-4] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2014] [Accepted: 12/02/2014] [Indexed: 11/29/2022]
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Balážová T, Šedo O, Štefanić P, Mandić-Mulec I, Vos M, Zdráhal Z. Improvement in Staphylococcus and Bacillus strain differentiation by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry profiling by using microwave-assisted enzymatic digestion. Rapid Commun Mass Spectrom 2014; 28:1855-1861. [PMID: 25088129 DOI: 10.1002/rcm.6966] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2013] [Revised: 05/22/2014] [Accepted: 06/18/2014] [Indexed: 06/03/2023]
Abstract
RATIONALE Distinguishing between individual bacterial strains below the species level is a challenge to matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) bacterial profiling. We propose a quick method for improving strain differentiation of two Staphylococcus and one Bacillus species. METHODS An alternative procedure to the extraction protocol recommended by Bruker Daltonics was developed. Ethanol-sterilized cells of six S. aureus and six S. haemolyticus strains were digested by trypsin using 2-min microwave irradiation and were then analyzed. Twenty-eight strains belonging to two ecotypes of B. subtilis were subjected to the same procedure to extend the scope of the method. RESULTS S. aureus and S. haemolyticus strains, only partially distinguishable by the standard sample preparation procedure, were subjected to microwave-assisted tryptic digestion. The repeatability of the procedure was checked in three experiments accomplished at weekly intervals. Clear distinction of the strains was achieved by cluster analysis. The differentiation of B. subtilis ecotypes was also improved significantly by the digestion method. The discriminatory power of the novel method was supported by an increase in the number of strain-specific peaks, as compared to the standard method. CONCLUSIONS The method modulates the discriminatory power of MALDI-TOF MS profiling. The differentiation of a set of S. aureus, S. haemolyticus and B. subtilis strains was improved significantly after microwave-accelerated tryptic digestion of the cellular material.
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Affiliation(s)
- Tereza Balážová
- Research Group Proteomics, CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, 62500, Brno, Czech Republic; Department of Microbiology, Faculty of Science, Masaryk University, Kamenice 5, 62500, Brno, Czech Republic
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Affiliation(s)
- M. Cárdenas
- Department of Botany and Zoology; Masaryk University; Brno Czech Republic
| | - O. Šedo
- Research Group Proteomics; Central European Institute of Technology; Masaryk University; Brno Czech Republic
| | - S. Pekár
- Department of Botany and Zoology; Masaryk University; Brno Czech Republic
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Balážová T, Makovcová J, Šedo O, Slaný M, Faldyna M, Zdráhal Z. The influence of culture conditions on the identification of Mycobacterium species by MALDI-TOF MS profiling. FEMS Microbiol Lett 2014; 353:77-84. [PMID: 24571790 DOI: 10.1111/1574-6968.12408] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2013] [Revised: 01/29/2014] [Accepted: 02/23/2014] [Indexed: 11/30/2022] Open
Abstract
Matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) represents a simple reliable approach for rapid bacterial identification based on specific peptide/protein fingerprints. However, cell-wall characteristics of mycobacterial species, and their well known stability, complicate MALDI-TOF MS profiling analysis. In this study, we tested two recently published protocols for inactivation and disruption of mycobacteria, and we also examined the influence of different culture conditions (four culture media and five cultivation times) on mass spectral quality and the discriminatory power of the method. We found a significant influence of sample pretreatment method and culture medium on species identification and differentiation for a total of 10 strains belonging to Mycobacterium phlei and Mycobacterium smegmatis. Optimum culture conditions yielding the highest identification success rate against the BioTyper database (Bruker Daltonics) and permitting the possibility of automatic acquisition of mass spectra were found to be distinct for the two mycobacterial species examined. Similarly, individual changes in growth conditions had diverse effects on the two species. For these reasons, thorough control over cultivation conditions should always be employed to maximize the performance and discriminatory power of MALDI-TOF MS profiling, and cultivation conditions must be optimized separately for individual groups of mycobacterial species/strains.
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Affiliation(s)
- Tereza Balážová
- Research Group Proteomics, CEITEC - Central European Institute of Technology, Masaryk University, Brno, Czech Republic; Department of Microbiology, Faculty of Science, Masaryk University, Brno, Czech Republic
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Šedo O, Vávrová A, Vad'urová M, Tvrzová L, Zdráhal Z. The influence of growth conditions on strain differentiation within the Lactobacillus acidophilus group using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry profiling. Rapid Commun Mass Spectrom 2013; 27:2729-2736. [PMID: 24214857 DOI: 10.1002/rcm.6741] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2013] [Revised: 09/16/2013] [Accepted: 09/18/2013] [Indexed: 06/02/2023]
Abstract
RATIONALE Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) profiling of bacteria is often used to distinguish isolates beyond the species level, even to the level of individual strains. However, the influence of bacterial growth conditions on the discriminatory power of the method to the strain level has not yet been properly evaluated. METHODS For the purpose of this study, we used an extraction protocol recommended for clinical laboratories for MALDI-TOF MS profiling of bacteria. Seventeen closely related strains of the Lactobacillus acidophilus group were cultivated under various growth conditions (growth medium, time, and temperature) and analyzed. RESULTS Out of a total of 327 samples, 80 % were correctly assigned to the species level and 13 % only to the genus level. When using data obtained from strains cultured for lengthy periods (7 days), the identification success rate was reduced due to poor signal quality, whereas with shorter cultivation times there was no influence of growth conditions on the assignment of particular strains to their corresponding species. However, variations in certain cultivation parameters were found to influence identification and differentiation of most of the examined strains. Strain discrimination was frequently found to be dependent on the selection of culture conditions. MALDI-TOF MS data treatment (strain-specific peak detection, BioTyper scoring, subtyping, or cluster analysis) also contributed to the discriminatory power of the method. CONCLUSIONS When MALDI-TOF MS profiling of bacteria is used for strain discrimination, the cultivation conditions should be properly optimized and controlled as they significantly contribute to the discriminatory power of the method.
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Affiliation(s)
- Ondrej Šedo
- Research Group Proteomics, Central European Institute of Technology, Masaryk University, Kamenice 5, 62500, Brno, Czech Republic; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, 62500, Brno, Czech Republic
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Šedo O, Nemec A, Křížová L, Kačalová M, Zdráhal Z. Improvement of MALDI-TOF MS profiling for the differentiation of species within the Acinetobacter calcoaceticus—Acinetobacter baumannii complex. Syst Appl Microbiol 2013; 36:572-8. [DOI: 10.1016/j.syapm.2013.08.001] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2012] [Revised: 06/11/2013] [Accepted: 08/19/2013] [Indexed: 10/26/2022]
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Žd'árská M, Zatloukalová P, Benítez M, Šedo O, Potěšil D, Novák O, Svačinová J, Pešek B, Malbeck J, Vašíčková J, Zdráhal Z, Hejátko J. Proteome analysis in Arabidopsis reveals shoot- and root-specific targets of cytokinin action and differential regulation of hormonal homeostasis. Plant Physiol 2013; 161:918-30. [PMID: 23209126 PMCID: PMC3561029 DOI: 10.1104/pp.112.202853] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
The plant hormones cytokinins (CKs) regulate multiple developmental and physiological processes in Arabidopsis (Arabidopsis thaliana). Responses to CKs vary in different organs and tissues (e.g. the response to CKs has been shown to be opposite in shoot and root samples). However, the tissue-specific targets of CKs and the mechanisms underlying such specificity remain largely unclear. Here, we show that the Arabidopsis proteome responds with strong tissue and time specificity to the aromatic CK 6-benzylaminopurine (BAP) and that fast posttranscriptional and/or posttranslational regulation of protein abundance is involved in the contrasting shoot and root proteome responses to BAP. We demonstrate that BAP predominantly regulates proteins involved in carbohydrate and energy metabolism in the shoot as well as protein synthesis and destination in the root. Furthermore, we found that BAP treatment affects endogenous hormonal homeostasis, again with strong tissue specificity. In the shoot, BAP up-regulates the abundance of proteins involved in abscisic acid (ABA) biosynthesis and the ABA response, whereas in the root, BAP rapidly and strongly up-regulates the majority of proteins in the ethylene biosynthetic pathway. This was further corroborated by direct measurements of hormone metabolites, showing that BAP increases ABA levels in the shoot and 1-aminocyclopropane-1-carboxylic acid, the rate-limiting precursor of ethylene biosynthesis, in the root. In support of the physiological importance of these findings, we identified the role of proteins mediating BAP-induced ethylene production, METHIONINE SYNTHASE1 and ACC OXIDASE2, in the early root growth response to BAP.
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Šedo O, Márová I, Zdráhal Z. Beer fingerprinting by Matrix-Assisted Laser Desorption-Ionisation-Time of Flight Mass Spectrometry. Food Chem 2012; 135:473-8. [DOI: 10.1016/j.foodchem.2012.05.021] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2012] [Revised: 04/27/2012] [Accepted: 05/02/2012] [Indexed: 10/28/2022]
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Kaiser J, Stĕpánková K, Koř istková T, Šedo O, Melnyk G, Hartl M, Paloušek D, Kuc̆era J. Determination of the cause of selected canine urolith formation by advanced analytical methods. J Small Anim Pract 2012; 53:646-51. [DOI: 10.1111/j.1748-5827.2012.01292.x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- J. Kaiser
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
| | - K. Stĕpánková
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- Department of Chemistry, Faculty of Science; Masaryk University; Kotlá̌rská 2 611 37 Brno Czech Republic
| | - T. Koř istková
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- Laboratory Specializing in Urinary Stones Analyses, Calculi®; Vránova 172, P.O. Box 20 621 00 Brno Czech Republic
| | - O. Šedo
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- Core Facility - Proteomics, CEITEC - Central European Institute of Technology; Masaryk University; Kamenice 753/5 Bohunice Brno Czech Republic
| | - G. Melnyk
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- GE Sensing & Inspection Technologies GmbH, phoenix
- x-ray; Niels-Bohr-Str. 7 D-31515 Wunstorf Germany
| | - M. Hartl
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- nstitute of Machine and Industrial Design, Faculty of Mechanical Engineering; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
| | - D. Paloušek
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- nstitute of Machine and Industrial Design, Faculty of Mechanical Engineering; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
| | - J. Kuc̆era
- X-ray Micro CT and Nano CT Research Group, CEITEC - Central European Institute of Technology; Brno University of Technology; Technická 2896/2 616 69 Brno Czech Republic
- Veterinary Clinic PET; B̌eloruská 2 625 00 Brno Czech Republic
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Pekár S, Šmerda J, Hrušková M, Šedo O, Muster C, Cardoso P, Zdráhal Z, Korenko S, Bureš P, Líznarová E, Sentenská L. Prey-race drives differentiation of biotypes in ant-eating spiders. J Anim Ecol 2012; 81:838-48. [DOI: 10.1111/j.1365-2656.2012.01957.x] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Šedo O, Sedláček I, Zdráhal Z. Sample preparation methods for MALDI-MS profiling of bacteria. Mass Spectrom Rev 2011; 30:417-434. [PMID: 21500244 DOI: 10.1002/mas.20287] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2009] [Revised: 11/15/2009] [Accepted: 11/15/2009] [Indexed: 05/30/2023]
Abstract
Direct matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) bacterial cell or lysate analysis appears to meet all the criteria required for a rapid and reliable analytical microorganism identification and taxonomical classification tool. Few-minute analytical procedure providing information extending up to sub-species level underlines the potential of the MALDI-MS profiling in comparison with other methods employed in the field. However, the quality of MALDI-MS profiles and consequently the performance of the method are influenced by numerous factors, which involve particular steps of the sample preparation procedure. This review is aimed at advances in development and optimization of the MALDI-MS profiling methodology. Approaches improving the quality of the MALDI-MS profiles and universal feasibility of the method are discussed.
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Affiliation(s)
- Ondrej Šedo
- Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
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Gomila M, Tvrzová L, Teshim A, Sedláček I, González-Escalona N, Zdráhal Z, Šedo O, González JF, Bennasar A, Moore ERB, Lalucat J, Murialdo SE. Achromobacter marplatensis sp. nov., isolated from a pentachlorophenol-contaminated soil. Int J Syst Evol Microbiol 2010; 61:2231-2237. [PMID: 20952547 DOI: 10.1099/ijs.0.025304-0] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A polyphasic taxonomic approach was applied to the study of a Gram-negative bacterium (B2(T)) isolated from soil by selective enrichment with pentachlorophenol. 16S rRNA gene sequence analysis of strain B2(T) showed that the strain belongs to the genus Achromobacter within the Betaproteobacteria. The 16S rRNA gene sequence displayed more than 99 % similarity to the sequences of the type strains of all species of Achromobacter, with the highest sequence similarity to those of Achromobacter spanius CCM 7183(T) and A. piechaudii CCM 2986(T) (99.8 %). On the basis of phylogenetic analysis, genomic DNA-DNA relatedness and phenotypic characteristics, including chemotaxonomic (cellular fatty acid profile) analysis, a novel species is proposed, Achromobacter marplatensis sp. nov., with the type strain B2(T) ( = CCM 7608(T) = CCUG 56371(T) = CECT 7342(T)).
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Affiliation(s)
- Margarita Gomila
- Microbiologia, Departament de Biologia, Universitat de les Illes Balears, and Institut Mediterrani d'Estudis Avançats (CSIC-UIB), 07122 Palma de Mallorca, Illes Balears, Spain
| | - Ludmila Tvrzová
- Division of Microbiology, Department of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 60200 Brno, Czech Republic
| | - Andrea Teshim
- Division of Microbiology, Department of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 60200 Brno, Czech Republic
| | - Ivo Sedláček
- Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 60200 Brno, Czech Republic
| | - Narjol González-Escalona
- Center for Food Safety and Applied Nutrition, Food and Drug Administration, College Park, MD, USA
| | - Zbyněk Zdráhal
- Division of Functional Genomics and Proteomics, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic
| | - Ondrej Šedo
- Division of Functional Genomics and Proteomics, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 62500 Brno, Czech Republic
| | | | - Antonio Bennasar
- Institut Universitari d'Investigació en Ciències de la Salut (IUNICS-UIB), Campus UIB, 07122 Palma de Mallorca, Spain.,Microbiologia, Departament de Biologia, Universitat de les Illes Balears, and Institut Mediterrani d'Estudis Avançats (CSIC-UIB), 07122 Palma de Mallorca, Illes Balears, Spain
| | - Edward R B Moore
- Sahlgrenska Academy of the University of Gothenburg, Gothenburg, Sweden.,Culture Collection University of Gothenburg (CCUG), Department of Clinical Bacteriology, Sahlgrenska University Hospital, Gothenburg, Sweden
| | - Jorge Lalucat
- Microbiologia, Departament de Biologia, Universitat de les Illes Balears, and Institut Mediterrani d'Estudis Avançats (CSIC-UIB), 07122 Palma de Mallorca, Illes Balears, Spain
| | - Silvia E Murialdo
- Universidad Nacional de Mar del Plata, 7600 Mar del Plata, Buenos Aires, Argentina
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Nemec A, Musílek M, Šedo O, De Baere T, Maixnerová M, van der Reijden TJK, Zdráhal Z, Vaneechoutte M, Dijkshoorn L. Acinetobacter bereziniae sp. nov. and Acinetobacter guillouiae sp. nov., to accommodate Acinetobacter genomic species 10 and 11, respectively. Int J Syst Evol Microbiol 2009; 60:896-903. [PMID: 19661501 DOI: 10.1099/ijs.0.013656-0] [Citation(s) in RCA: 74] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Acinetobacter genospecies (genomic species) 10 and 11 were described by Bouvet and Grimont in 1986 on the basis of DNA-DNA reassociation studies and comprehensive phenotypic analysis. In the present study, the names Acinetobacter bereziniae sp. nov. and Acinetobacter guillouiae sp. nov., respectively, are proposed for these genomic species based on the congruence of results of polyphasic analysis of 33 strains (16 and 17 strains of genomic species 10 and 11, respectively). All strains were investigated by selective restriction fragment amplification (i.e. AFLP) analysis rpoB sequence analysis, amplified rDNA restriction analysis and tDNA intergenic length polymorphism analysis, and their nutritional and physiological properties were determined. Subsets of the strains were studied by 16S rRNA gene sequence analysis and matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) MS or had been classified previously by DNA-DNA reassociation. Results indicate that A. bereziniae and A. guillouiae represent two phenetically and phylogenetically distinct groups within the genus Acinetobacter. Based on the comparative analysis of housekeeping genes (16S rRNA and rpoB genes), these species together represent a monophyletic branch within the genus. Despite their overall phenotypic similarity, the ability to oxidize d-glucose and to grow at 38 degrees C can be used in the presumptive differentiation of these two species from each other: with the exception of three strains that were positive for only one test, A. bereziniae strains were positive for both tests, whereas A. guillouiae strains were negative in these tests. The strains of A. bereziniae originated mainly from human clinical specimens, whereas A. guillouiae strains were isolated from different environmental sources in addition to human specimens. The type strain of A. bereziniae sp. nov. is LMG 1003(T) (=CIP 70.12(T) =ATCC 17924(T)) and that of A. guillouiae sp. nov. is LMG 988(T) (=CIP 63.46( T) =ATCC 11171(T) =CCUG 2491(T)).
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Affiliation(s)
- Alexandr Nemec
- Laboratory of Bacterial Genetics, National Institute of Public Health, Šrobárova 48, CZ-100 42 Prague 10, Czech Republic
| | - Martin Musílek
- National Reference Laboratory for Meningococcal Infections, National Institute of Public Health, Šrobárova 48, CZ-100 42 Prague 10, Czech Republic
| | - Ondrej Šedo
- Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5 (Building A2), CZ-625 00 Brno, Czech Republic
| | - Thierry De Baere
- Laboratory Bacteriology Research, Department of Clinical Chemistry, Microbiology and Immunology, University of Ghent, 3 Blok A, De Pintelaan 185, B-9000 Gent, Belgium
| | - Martina Maixnerová
- Laboratory of Bacterial Genetics, National Institute of Public Health, Šrobárova 48, CZ-100 42 Prague 10, Czech Republic
| | - Tanny J K van der Reijden
- Department of Infectious Diseases, Leiden University Medical Center C5-P, PO Box 9600, 2300 RC Leiden, The Netherlands
| | - Zbyněk Zdráhal
- Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5 (Building A2), CZ-625 00 Brno, Czech Republic
| | - Mario Vaneechoutte
- Laboratory Bacteriology Research, Department of Clinical Chemistry, Microbiology and Immunology, University of Ghent, 3 Blok A, De Pintelaan 185, B-9000 Gent, Belgium
| | - Lenie Dijkshoorn
- Department of Infectious Diseases, Leiden University Medical Center C5-P, PO Box 9600, 2300 RC Leiden, The Netherlands
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Štosová T, Šebela M, Řehulka P, Šedo O, Havliš J, Zdráhal Z. Evaluation of the possible proteomic application of trypsin from Streptomyces griseus. Anal Biochem 2008; 376:94-102. [DOI: 10.1016/j.ab.2008.01.016] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2007] [Revised: 01/09/2008] [Accepted: 01/14/2008] [Indexed: 11/16/2022]
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Tvrzová L, Schumann P, Spröer C, Sedláček I, Páčová Z, Šedo O, Zdráhal Z, Steffen M, Lang E. Pseudomonas moraviensis sp. nov. and Pseudomonas vranovensis sp. nov., soil bacteria isolated on nitroaromatic compounds, and emended description of Pseudomonas asplenii. Int J Syst Evol Microbiol 2007; 56:2657-2663. [PMID: 17082407 DOI: 10.1099/ijs.0.63988-0] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
Abstract
Two strains of Gram-negative bacteria isolated from soil by selective enrichment with nitroaromatics were subjected to a polyphasic taxonomic study. On the basis of 16S rRNA gene sequence analysis, the two strains were found to belong to the genus Pseudomonas, within the Gammaproteobacteria. Strain 1B4T shared the highest sequence similarity with Pseudomonas koreensis DSM 16610T (99.5%) and Pseudomonas jessenii CCM 4840T (99.3%), and strain 2B2T with Pseudomonas asplenii DSM 17133T (98.9%), Pseudomonas fuscovaginae DSM 7231T (98.9%) and Pseudomonas putida DSM 291T (98.7%). On the basis of phylogenetic analysis, DNA-DNA hybridization and phenotype, including chemotaxonomic characteristics, two novel species, Pseudomonas moraviensis sp. nov. with the type strain 1B4T (=CCM 7280T=DSM 16007T) and Pseudomonas vranovensis sp. nov. with the type strain 2B2T (=CCM 7279T=DSM 16006T), are proposed. The description of P. asplenii was emended on the basis of additional data obtained in this study.
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Affiliation(s)
- Ludmila Tvrzová
- Department of Microbiology, Institute of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Peter Schumann
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, 38124 Braunschweig, Germany
| | - Cathrin Spröer
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, 38124 Braunschweig, Germany
| | - Ivo Sedláček
- CCM - Czech Collection of Microorganisms, Institute of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Zdena Páčová
- CCM - Czech Collection of Microorganisms, Institute of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Ondrej Šedo
- Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Zbyněk Zdráhal
- Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Tvrdého 14, 602 00 Brno, Czech Republic
| | - Maike Steffen
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, 38124 Braunschweig, Germany
| | - Elke Lang
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, 38124 Braunschweig, Germany
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Šedo O, Voráč Z, Alberti M, Havel J. Laser ablation synthesis of new phosphorus and phosphorus-sulfur clusters and their TOF mass spectrometric identification. Polyhedron 2004. [DOI: 10.1016/j.poly.2004.01.018] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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