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Engloner AI, Vargha M, Kós P, Borsodi AK. Planktonic and epilithic prokaryota community compositions in a large temperate river reflect climate change related seasonal shifts. PLoS One 2023; 18:e0292057. [PMID: 37733803 PMCID: PMC10513243 DOI: 10.1371/journal.pone.0292057] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Accepted: 09/12/2023] [Indexed: 09/23/2023] Open
Abstract
In freshwaters, microbial communities are of outstanding importance both from ecological and public health perspectives, however, they are threatened by the impact of global warming. To reveal how different prokaryotic communities in a large temperate river respond to environment conditions related to climate change, the present study provides the first detailed insight into the composition and spatial and year-round temporal variations of planktonic and epilithic prokaryotic community. Microbial diversity was studied using high-throughput next generation amplicon sequencing. Sampling was carried out monthly in the midstream and the littoral zone of the Danube, upstream and downstream from a large urban area. Result demonstrated that river habitats predominantly determine the taxonomic composition of the microbiota; diverse and well-differentiated microbial communities developed in water and epilithon, with higher variance in the latter. The composition of bacterioplankton clearly followed the prolongation of the summer resulting from climate change, while the epilithon community was less responsive. Rising water temperatures was associated with increased abundances of many taxa (such as phylum Actinobacteria, class Gammaproteobacteria and orders Synechococcales, Alteromonadales, Chitinophagales, Pseudomonadales, Rhizobiales and Xanthomonadales), and the composition of the microbiota also reflected changes of several further environmental factors (such as turbidity, TOC, electric conductivity, pH and the concentration of phosphate, sulphate, nitrate, total nitrogen and the dissolved oxygen). The results indicate that shift in microbial community responding to changing environment may be of crucial importance in the decomposition of organic compounds (including pollutants and xenobiotics), the transformation and accumulation of heavy metals and the occurrence of pathogens or antimicrobial resistant organisms.
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Affiliation(s)
- Attila I. Engloner
- Centre for Ecological Research, Eötvös Loránd Research Network, Budapest, Hungary
| | - Márta Vargha
- Department of Public Health Laboratories, National Public Health Centre, Budapest, Hungary
| | - Péter Kós
- Institute of Plant Biology, Biological Research Centre, Eötvös Loránd Research Network, Szeged, Hungary
- Department of Biotechnology, Faculty of Science and Informatics, Szeged University, Szeged, Hungary
| | - Andrea K. Borsodi
- Centre for Ecological Research, Eötvös Loránd Research Network, Budapest, Hungary
- Department of Microbiology, ELTE Eötvös Loránd University, Budapest, Hungary
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Szilágyi Á, Perei K, Hódi B, Markó V, Tolvai N, Deim Z, Kós P, Rákhely G. Comparative metagenomic analyses of sheep and cow rumen contents and their effect on methane production of anaerobic batch fermentation. N Biotechnol 2018. [DOI: 10.1016/j.nbt.2018.05.1039] [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: 11/30/2022]
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Kis ÁE, Laczi K, Zsíros S, Kós P, Tengölics R, Bounedjoum N, Kovács T, Rákhely G, Perei K. Characterization of the Rhodococcus sp. MK1 strain and its pilot application for bioremediation of diesel oil-contaminated soil. Acta Microbiol Immunol Hung 2017; 64:463-482. [DOI: 10.1556/030.64.2017.037] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Petroleum hydrocarbons and derivatives are widespread contaminants in both aquifers and soil, their elimination is in the primary focus of environmental studies. Microorganisms are key components in biological removal of pollutants. Strains capable to utilize hydrocarbons usually appear at the contaminated sites, but their metabolic activities are often restricted by the lack of nutrients and/or they can only utilize one or two components of a mixture. We isolated a novel Rhodococcus sp. MK1 strain capable to degrade the components of diesel oil simultaneously. The draft genome of the strain was determined and besides the chromosome, the presence of one plasmid could be revealed. Numerous routes for oxidation of aliphatic and aromatic compounds were identified. The strain was tested in ex situ applications aiming to compare alternative solutions for microbial degradation of hydrocarbons. The results of bioaugmentation and biostimulation experiments clearly demonstrated that – in certain cases – the indigenous microbial community could be exploited for bioremediation of oil-contaminated soils. Biostimulation seems to be efficient for removal of aged contaminations at lower concentration range, whereas bioaugmentation is necessary for the treatment of freshly and highly polluted sites.
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Affiliation(s)
- Ágnes Erdeiné Kis
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
- 2 Institute of Biophysics, Biological Research Centre Hungarian Academy of Sciences, Szeged, Hungary
- 3 Institute of Environmental and Technological Sciences, University of Szeged, Szeged, Hungary
| | - Krisztián Laczi
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Szilvia Zsíros
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Péter Kós
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
- 4 Institute of Plant Biology, Biological Research Centre Hungarian Academy of Sciences, Szeged, Hungary
| | - Roland Tengölics
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Naila Bounedjoum
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Tamás Kovács
- 5 Department of Biotechnology, Nanophagetherapy Center, Enviroinvest Corporation, H-Pécs, Hungary
| | - Gábor Rákhely
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
- 2 Institute of Biophysics, Biological Research Centre Hungarian Academy of Sciences, Szeged, Hungary
- 3 Institute of Environmental and Technological Sciences, University of Szeged, Szeged, Hungary
| | - Katalin Perei
- 1 Department of Biotechnology, University of Szeged, Szeged, Hungary
- 3 Institute of Environmental and Technological Sciences, University of Szeged, Szeged, Hungary
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Borbély G, Surányi G, Kós P. Stress responses of cyanobacteria and the pleiotropic effects of light deprivation. FEMS Microbiol Ecol 2011. [DOI: 10.1111/j.1574-6941.1990.tb01680.x] [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: 11/28/2022] Open
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Yukawa H, Omumasaba CA, Nonaka H, Kós P, Okai N, Suzuki N, Suda M, Tsuge Y, Watanabe J, Ikeda Y, Vertès AA, Inui M. Comparative analysis of the Corynebacterium glutamicum group and complete genome sequence of strain R. Microbiology (Reading) 2007; 153:1042-1058. [PMID: 17379713 DOI: 10.1099/mic.0.2006/003657-0] [Citation(s) in RCA: 210] [Impact Index Per Article: 12.4] [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: 11/18/2022] Open
Abstract
The complete genome sequence of Corynebacterium glutamicum strain R was determined to allow its comparative analysis with other corynebacteria. The biology of corynebacteria was explored by refining the definition of the subset of genes that constitutes the corynebacterial core as well as those characteristic of saprophytic and pathogenic ecological niches. In addition, the relative scarcity of corynebacterial sigma factors and the plasticity of their two-component system machinery reflect their relatively exacting nutritional requirements and reduced membrane-associated and secreted proteins. The conservation of key genes and pathways between corynebacteria, mycobacteria and Nocardia validates the use of C. glutamicum to study fundamental processes that are conserved in slow-growing mycobacteria, including pathogenesis-associated mechanisms. The discovery of 39 novel genes in C. glutamicum R that have not been previously reported in other corynebacteria supports the rationale for sequencing additional corynebacterial genomes to better define the corynebacterial pan-genome and identify previously undetected metabolic pathways in these organisms.
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Affiliation(s)
- Hideaki Yukawa
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Crispinus A Omumasaba
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Hiroshi Nonaka
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Péter Kós
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Naoko Okai
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Nobuaki Suzuki
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Masako Suda
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Yota Tsuge
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Junko Watanabe
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Yoko Ikeda
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Alain A Vertès
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
| | - Masayuki Inui
- Microbiology Research Group, Research Institute of Innovative Technology for the Earth (RITE), Soraku, Kyoto 619-0292, Japan
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Kós P, Gorzó G, Surányi G, Borbély G. Simple and efficient method for isolation and measurement of cyanobacterial hepatotoxins by plant tests (Sinapis alba L.). Anal Biochem 1995; 225:49-53. [PMID: 7778786 DOI: 10.1006/abio.1995.1106] [Citation(s) in RCA: 79] [Impact Index Per Article: 2.7] [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: 01/27/2023]
Abstract
A simple and cost-effective method for isolating and assaying microcystins, cyanobacterial toxins, by C-18 cartridges, DEAE-cellulose (DE-52) chromatography, and a mustard (Sinapis alba L.) plant seedling test is described. The procedure results in a purity of up to 95-97% microcystin without the need for an HPLC system and justifies the use of the S. alba L. seedling test in the quantitative assessment of the toxin with an IC50 of 3 micrograms ml-1 instead of the mouse intraperitoneal test.
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Affiliation(s)
- P Kós
- Institute of Plant Biology, Biological Research Center, Szeged, Hungary
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