1
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Borsodi AK. Taxonomic diversity of extremophilic prokaryotes adapted to special environmental parameters in Hungary: a review. Biol Futur 2024; 75:183-192. [PMID: 38753295 DOI: 10.1007/s42977-024-00224-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Accepted: 04/26/2024] [Indexed: 06/18/2024]
Abstract
The taxonomic and metabolic diversity of prokaryotes and their adaptability to extreme environmental parameters have allowed extremophiles to find their optimal living conditions under extreme conditions for one or more environmental parameters. Natural habitats abundant in extremophilic microorganisms are relatively rare in Hungary. Nevertheless, alkaliphiles and halophiles can flourish in shallow alkaline lakes (soda pans) and saline (solonetz) soils, where extreme weather conditions favor the development of unique bacterial communities. In addition, the hot springs and thermal wells that supply spas and thermal baths and provide water for energy use are suitable colonization sites for thermophiles and hyperthermophiles. Polyextremophiles, adapted to multiple extreme circumstances, can be found in the aphotic, nutrient-poor and radioactive hypogenic caves of the Buda Thermal Karst, among others. The present article reviews the organization, taxonomic composition, and potential role of different extremophilic bacterial communities in local biogeochemical cycles, based on the most recent studies on extremophiles in Hungary.
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Affiliation(s)
- Andrea K Borsodi
- Department of Microbiology, Institute of Biology, ELTE, Eötvös Loránd University, Pázmány Péter sétány 1/C, Budapest, 1117, Hungary.
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2
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Simona C, Laura L, Francesco V, Marianna V, Cristina MG, Barbara T, Mauro M, Simona R. Effect of the organic loading rate on the PHA-storing microbiome in sequencing batch reactors operated with uncoupled carbon and nitrogen feeding. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 825:153995. [PMID: 35192819 DOI: 10.1016/j.scitotenv.2022.153995] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2021] [Revised: 01/28/2022] [Accepted: 02/15/2022] [Indexed: 06/14/2023]
Abstract
Over the last years, in a search for sustainable and biodegradable alternatives to petrol-based plastics, biotechnological applications turned to the potentialities of mixed microbial cultures (MMC) for producing polyhydroxyalkanoates (PHAs). Under a feast and famine regime, an uncoupled carbon (C) and nitrogen (N)-feeding strategy may be adopted by dosing the C-source at the beginning of the feast and the N-source at the beginning of the famine in order to stimulate a PHA storage response and microbial growth. Even though this strategy has been already successfully applied for the PHA production, very few information is to date available regarding the MMC operating in these systems and the influence of Organic Loading Rate (OLR) on their selection and enrichment. To fill the gap, this study investigated the effect of the OLR on the selection of PHA-accumulating microorganisms in a sequencing batch reactor (SBR) operated with an uncoupled C and N feeding strategy. The SBR cycle length was set at 12 h and four OLRs values (4.25, 8.50, 12.75 and 18 gCOD L-1 d-1) were tested by changing the concentration of the feeding solution, made of a synthetic mixture of acetic (85% of the overall COD) and propionic (15%) acids. The PHA-storage yield increased by increasing the OLR (up to 0.69 COD/COD at 12.75 gCOD L-1 d-1) but significantly decreased (0.27 COD/COD) at 18 gCOD L-1 d-1 concomitantly with a longer feast phase and a lower PHA content in the biomass at the end of the feast phase. The selective pressure induced by the applied OLRs strongly influenced the microbiome composition revealing a high content of putative PHA-storing bacteria, such as Rhodobacter, Thauera and Paracoccus, in the SBR operated at OLRs 4.25, 8.50 and 12.75 g COD L-1 d-1 (up to 97.4% of total reads) and a low content (5.4%) in the SBR at 18 g COD L-1 d-1where the predominance of genus Nitrinicola was instead observed.
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Affiliation(s)
- Crognale Simona
- Water Research Institute, National Research Council (IRSA-CNR), Monterotondo, Rome, Italy.
| | - Lorini Laura
- Department of Chemistry, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
| | - Valentino Francesco
- Department of Environmental Sciences, Informatics and Statistics, "Cà Foscari" University of Venice, Via Torino 155, 30170 Mestre-Venice, Italy
| | - Villano Marianna
- Department of Chemistry, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
| | - Marzo Gago Cristina
- Department of Chemistry, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy; Department of Chemical Engineering and Food Technology, Faculty of Science, IVAGRO, University of Cádiz, Puerto Real, Spain
| | - Tonanzi Barbara
- Water Research Institute, National Research Council (IRSA-CNR), Monterotondo, Rome, Italy
| | - Majone Mauro
- Department of Chemistry, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
| | - Rossetti Simona
- Water Research Institute, National Research Council (IRSA-CNR), Monterotondo, Rome, Italy
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3
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Gupta S, Plugge CM, Klok JBM, Muyzer G. Comparative analysis of microbial communities from different full-scale haloalkaline biodesulfurization systems. Appl Microbiol Biotechnol 2022; 106:1759-1776. [PMID: 35147744 PMCID: PMC8882115 DOI: 10.1007/s00253-022-11771-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 12/17/2021] [Accepted: 01/06/2022] [Indexed: 11/28/2022]
Abstract
Abstract In biodesulfurization (BD) at haloalkaline and dO2-limited conditions, sulfide-oxidizing bacteria (SOB) effectively convert sulfide into elemental sulfur that can be used in agriculture as a fertilizer and fungicide. Here we show which bacteria are present in this biotechnological process. 16S rRNA gene amplicon sequencing of biomass from ten reactors sampled in 2018 indicated the presence of 444 bacterial Amplicon Sequence Variants (ASVs). A core microbiome represented by 30 ASVs was found in all ten reactors, with Thioalkalivibrio sulfidiphilus as the most dominant species. The majority of these ASVs are phylogenetically related to bacteria previously identified in haloalkaline BD processes and in natural haloalkaline ecosystems. The source and composition of the feed gas had a great impact on the microbial community composition followed by alkalinity, sulfate, and thiosulfate concentrations. The halophilic SOB of the genus Guyparkeria (formerly known as Halothiobacillus) and heterotrophic SOB of the genus Halomonas were identified as potential indicator organisms of sulfate and thiosulfate accumulation in the BD process. Key points • Biodesulfurization (BD) reactors share a core microbiome • The source and composition of the feed gas affects the microbial composition in the BD reactors • Guyparkeria and Halomonas indicate high concentrations of sulfate and thiosulfate in the BD process Supplementary Information The online version contains supplementary material available at 10.1007/s00253-022-11771-y.
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Affiliation(s)
- Suyash Gupta
- Wetsus, European Centre of Excellence for Sustainable Water Technology, Leeuwarden, The Netherlands.,Microbial Systems Ecology, Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
| | - Caroline M Plugge
- Wetsus, European Centre of Excellence for Sustainable Water Technology, Leeuwarden, The Netherlands.,Laboratory of Microbiology, Wageningen University & Research, Wageningen, The Netherlands
| | - Johannes B M Klok
- Wetsus, European Centre of Excellence for Sustainable Water Technology, Leeuwarden, The Netherlands.,Paqell B.V, Utrecht, The Netherlands
| | - Gerard Muyzer
- Microbial Systems Ecology, Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands.
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4
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Csitári B, Bedics A, Felföldi T, Boros E, Nagy H, Máthé I, Székely AJ. Anion-type modulates the effect of salt stress on saline lake bacteria. Extremophiles 2022; 26:12. [PMID: 35137260 PMCID: PMC8825391 DOI: 10.1007/s00792-022-01260-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Accepted: 01/10/2022] [Indexed: 11/29/2022]
Abstract
Beside sodium chloride, inland saline aquatic systems often contain other anions than chloride such as hydrogen carbonate and sulfate. Our understanding of the biological effects of salt composition diversity is limited; therefore, the aim of this study was to examine the effect of different anions on the growth of halophilic bacteria. Accordingly, the salt composition and concentration preference of 172 strains isolated from saline and soda lakes that differed in ionic composition was tested using media containing either carbonate, chloride or sulfate as anion in concentration values ranging from 0 to 0.40 mol/L. Differences in salt-type preference among bacterial strains were observed in relationship to the salt composition of the natural habitat they were isolated from indicating specific salt-type adaptation. Sodium carbonate represented the strongest selective force, while majority of strains was well-adapted to growth even at high concentrations of sodium sulfate. Salt preference was to some extent associated with taxonomy, although variations even within the same bacterial species were also identified. Our results suggest that the extent of the effect of dissolved salts in saline lakes is not limited to their concentration but the type of anion also substantially impacts the growth and survival of individual microorganisms.
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Affiliation(s)
- Bianka Csitári
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c, 1117, Budapest, Hungary
- Department of Ecology and Genetics/Limnology, Uppsala University EBC, Norbyvägen 18D, 75236, Uppsala, Sweden
- Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Solnavägen 9, 17165, Stockholm, Sweden
| | - Anna Bedics
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c, 1117, Budapest, Hungary
- Depatment of Molecular Ecology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agriculture and Life Sciences, Páter Károly utca 1, 2100, Gödöllő, Hungary
| | - Tamás Felföldi
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c, 1117, Budapest, Hungary
- Institute of Aquatic Ecology, Centre for Ecological Research, Karolina u. 29, 1113, Budapest, Hungary
| | - Emil Boros
- Institute of Aquatic Ecology, Centre for Ecological Research, Karolina u. 29, 1113, Budapest, Hungary
| | - Hajnalka Nagy
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c, 1117, Budapest, Hungary
| | - István Máthé
- Department of Bioengineering, Sapientia Hungarian University of Transylvania, Piaţa Libertăţii 1, 530104, Miercurea Ciuc, Romania
| | - Anna J Székely
- Department of Ecology and Genetics/Limnology, Uppsala University EBC, Norbyvägen 18D, 75236, Uppsala, Sweden.
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), Box 7050, 75007, Uppsala, Sweden.
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5
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Roman VL, Merlin C, Baron S, Larvor E, Le Devendec L, Virta MPJ, Bellanger X. Abundance and environmental host range of the SXT/R391 ICEs in aquatic environmental communities. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 288:117673. [PMID: 34218080 DOI: 10.1016/j.envpol.2021.117673] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Revised: 06/23/2021] [Accepted: 06/27/2021] [Indexed: 06/13/2023]
Abstract
Mobile genetic elements (MGEs) such as plasmids or integrative conjugative elements (ICEs) are widely involved in the horizontal transfer of antibiotic resistant genes (ARGs), but their environmental host-range and reservoirs remain poorly known, as mainly assessed through the analysis of culturable and clinical bacterial isolates. In this study, we used a gradual approach for determining the environmental abundance and host-range of ICEs belonging to the SXT/R391 family, otherwise well known to bring ARGs in Vibrio spp. epidemic clones and other pathogens. First, by screening a set of aquatic bacteria libraries covering 1794 strains, we found that almost 1% of the isolates hosted an SXT/R391 element, all belonging to a narrow group of non-O1/non-O139 Vibrio cholerae. However, when SXT/R391 ICEs were then quantified in various aquatic communities, they appeared to be ubiquitous and relatively abundant, from 10-6 to 10-3 ICE copies per 16 S rDNA. Finally, the molecular exploration of the SXT/R391 host-range in two river ecosystems impacted by anthropogenic activities, using the single-cell genomic approach epicPCR, revealed several new SXT/R391 hosts mostly in the Proteobacteria phylum. Some, such as the pathogen Arcobacter cryaerophilus (Campylobacteraceae), have only been encountered in discharged treated wastewaters and downstream river waters, thus revealing a likely anthropogenic origin. Others, such as the non-pathogenic bacterium Neptunomonas acidivorans (Oceanospirillaceae), were solely identified in rivers waters upstream and downstream the treated wastewaters discharge points and may intrinsically belong to the SXT/R391 environmental reservoir. This work points out that not only the ICEs of the SXT/R391 family are more abundant in the environment than anticipated, but also that a variety of unsuspected hosts may well represent a missing link in the environmental dissemination of MGEs from and to bacteria of anthropogenic origin.
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Affiliation(s)
| | | | - Sandrine Baron
- Mycoplasmology-Bacteriology and Antimicrobial Resistance Unit, Ploufragan-Plouzané-Niort Laboratory, French Agency for Food, Environmental and Occupational Health and Safety (Anses), Ploufragan, France
| | - Emeline Larvor
- Mycoplasmology-Bacteriology and Antimicrobial Resistance Unit, Ploufragan-Plouzané-Niort Laboratory, French Agency for Food, Environmental and Occupational Health and Safety (Anses), Ploufragan, France
| | - Laetitia Le Devendec
- Mycoplasmology-Bacteriology and Antimicrobial Resistance Unit, Ploufragan-Plouzané-Niort Laboratory, French Agency for Food, Environmental and Occupational Health and Safety (Anses), Ploufragan, France
| | - Marko P J Virta
- Department of Microbiology, University of Helsinki, Helsinki, Finland
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6
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Mao Z, Cheng S, Sun Y, Lin Z, Li L, Yu Z. Enhancing stability and resilience of electromethanogenesis system by acclimating biocathode with intermittent step-up voltage. BIORESOURCE TECHNOLOGY 2021; 337:125376. [PMID: 34116281 DOI: 10.1016/j.biortech.2021.125376] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2021] [Revised: 05/29/2021] [Accepted: 05/31/2021] [Indexed: 06/12/2023]
Abstract
Electromethanogenesis (EMG) system could efficiently convert CO2 to CH4 by using excess renewable electricity. However, the fluctuation and interruption of renewable electricity will adversely affect the biocathode and therefore the CH4 production of the EMG system. In this work, a novel biocathode acclimation strategy with intermittent step-up voltage (ISUV) was proposed to improve the stability and resilience of the EMG system against the unstable input of renewable power. Compared with the intermittent application of constant voltage (IACV), the ISUV increased the rate of CH4 production by 11.7 times with the improvement of the stability and resilience by 56% and 500%, respectively. Morphology and microflora structure analysis revealed that the biofilm enriched with ISUV exhibited a compact microflora structure with high-density cells and nanowires interconnected. This study provided a novel effective strategy to regulate the biofilm structure and enhance the performance of the EMG system.
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Affiliation(s)
- Zhengzhong Mao
- State Key Laboratory of Clean Energy, Department of Energy Engineering, Zhejiang University, Hangzhou 310027, PR China
| | - Shaoan Cheng
- State Key Laboratory of Clean Energy, Department of Energy Engineering, Zhejiang University, Hangzhou 310027, PR China.
| | - Yi Sun
- Powerchina Huadong Engineering Corporation Limited, Hangzhou 311122, PR China
| | - Zhufan Lin
- State Key Laboratory of Clean Energy, Department of Energy Engineering, Zhejiang University, Hangzhou 310027, PR China
| | - Longxin Li
- State Key Laboratory of Clean Energy, Department of Energy Engineering, Zhejiang University, Hangzhou 310027, PR China
| | - Zhen Yu
- State Key Laboratory of Clean Energy, Department of Energy Engineering, Zhejiang University, Hangzhou 310027, PR China
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7
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Felföldi T. Microbial communities of soda lakes and pans in the Carpathian Basin: a review. Biol Futur 2021; 71:393-404. [PMID: 34554457 DOI: 10.1007/s42977-020-00034-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Accepted: 07/20/2020] [Indexed: 11/25/2022]
Abstract
In this review, I would like to summarize the current knowledge on the microbiology of soda lakes and pans of the Carpathian Basin. First, the characteristic physical and chemical features of these sites are described. Most of the microbiological information presented deals with prokaryotes and algae, but protists and viruses are also mentioned. Planktonic bacterial communities are dominated by members of the phyla Actinobacteria, Bacteroidetes and Proteobacteria; small-sized trebouxiophycean green algae and Synechococcus/Cyanobium picocyanobacteria are the most important components of phytoplankton. Based on the current knowledge, it seems that mainly temperature, salinity, turbidity and grazing pressure regulate community composition and the abundance of individual microbial groups, but the external nutrient load from birds also has a significant impact on the ecological processes.
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Affiliation(s)
- Tamás Felföldi
- Department of Microbiology, Institute of Biology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary.
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8
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Zhang H, Wang H, Chen H, Sun Q, Zhong Z, Wang M, Cao L, Lian C, Zhou L, Li C. Nitrincola iocasae sp. nov., a bacterium isolated from sediment collected at a cold seep field in the South China Sea. Int J Syst Evol Microbiol 2020; 70:4897-4902. [PMID: 32735211 DOI: 10.1099/ijsem.0.004352] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterium, designated strain KXZD1103T, was isolated from sediment collected at a cold seep field of the Formosa Ridge in the South China Sea. Cells were Gram-stain-negative, facultatively anaerobic, motile, oxidase- and catalase-positive, and grew optimally at 28 °C, pH 6.0-pH 7.0 and in the presence of 1-3 % (w/v) NaCl. The major cellular fatty acids were summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c) and C16 : 0. The major respiratory ubiquinone was Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Analysis of 16S rRNA gene sequences revealed that strain KXZD1103T grouped with members of the genus Nitrincola, with Nitrincola lacisaponensis 4CAT (98.1 % sequence similarity) and Nitrincola schmidtii R4-8T (97.7 %) as its closest neighbours. Genome sequencing revealed a genome size of 4.17 Mb and a DNA G+C content of 50.1 %. Genomic average nucleotide identity values for strain KXZD1103T with the type strains within the genus Nitrincola ranged from 71.0 to 75.7 %, while the in silico DNA-DNA hybridization values for strain KXZD1103T with these strains ranged from 16.1 to 21.6 %. On the basis of the results of phylogenetic, phenotypic and chemotaxonomic analyses, strain KXZD1103T is considered to represent a novel species of the genus Nitrincola, for which the name Nitrincola iocasae sp. nov. is proposed. The type strain is KXZD1103T (=KCTC 72678T=MCCC 1K04283T).
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Affiliation(s)
- Huan Zhang
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Hao Wang
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Hao Chen
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Qinglei Sun
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, PR China.,Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Zhaoshan Zhong
- University of Chinese Academy of Sciences, Beijing 100049, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Minxiao Wang
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Lei Cao
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Chao Lian
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Li Zhou
- Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
| | - Chaolun Li
- University of Chinese Academy of Sciences, Beijing 100049, PR China.,Key Laboratory of Marine Ecology and Environmental Sciences, Chinese Academy of Sciences, Qingdao 266071, PR China.,Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China.,Center for Ocean Mega-Science, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao 266071, PR China
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9
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Joshi A, Thite S, Dhotre D, Moorthy M, Joseph N, Ramana VV, Shouche Y. Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake. Int J Syst Evol Microbiol 2019; 70:1106-1111. [PMID: 31751193 DOI: 10.1099/ijsem.0.003883] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-stain-negative bacterial strain designated as MEB193T was isolated from a sediment sample collected from Lonar Lake, India. The cells were motile, non-spore-forming and rod-shaped. The strain was oxidase- and catalase-positive. It grew optimally at pH 9.0 and at 1 % (w/v) NaCl concentration at 30 °C. Based on 16S rRNA gene sequence similarity, MEB193T belongs to genus Nitrincola, with Nitrincola alkalilacustris ZV-19T (95.89 %) and Nitrincola lacisaponensis 4CAT (95.87 %) as its closest neighbours. The major fatty acid was summed feature 8 comprising C18:1ω7c/C18:1ω6c (52 %) followed by C16 : 0 (25 %). Phosphatidylglycerol (PG) and diphosphatidylglycerol (DPG) were present as the major polar lipids. The draft genome obtained in this study was 2 793 747 bp and the G+C content was 50.79 mol%. Average nucleotide identity (71.76 %) and DNA-DNA hybridization (<20 %) values between strain MEB193T and Nitrincola lacisaponensis 4CAT confirmed the novelty of this new species. Based on phenotypic including chemotaxonomic and genotypic characterization data, strain MEB193T represents a new species of the genus Nitrincola for which the name Nitrincola tapanii sp. nov. is proposed. The type strain is MEB193T (=MCC 2863T=JCM 31570 T=KCTC 52390 T).
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Affiliation(s)
- Amaraja Joshi
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - Sonia Thite
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - Dhiraj Dhotre
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - Manju Moorthy
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - Neetha Joseph
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - V Venkata Ramana
- Present address: Microbial Type Culture Collection and Gene Bank (MTCC), CSIR-Institute of Microbial Technology, Sector 39-A, Chandigarh - 160036, India.,National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
| | - Yogesh Shouche
- National Centre for Microbial Resource (NCMR), National Centre for Cell Science, Sai Trinity Complex, Sus road, Pashan, Pune, 411021, Maharashtra, India
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10
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Vavourakis CD, Mehrshad M, Balkema C, van Hall R, Andrei AŞ, Ghai R, Sorokin DY, Muyzer G. Metagenomes and metatranscriptomes shed new light on the microbial-mediated sulfur cycle in a Siberian soda lake. BMC Biol 2019; 17:69. [PMID: 31438955 PMCID: PMC6704655 DOI: 10.1186/s12915-019-0688-7] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 08/09/2019] [Indexed: 01/22/2023] Open
Abstract
BACKGROUND The planetary sulfur cycle is a complex web of chemical reactions that can be microbial-mediated or can occur spontaneously in the environment, depending on the temperature and pH. Inorganic sulfur compounds can serve as energy sources for specialized prokaryotes and are important substrates for microbial growth in general. Here, we investigate dissimilatory sulfur cycling in the brine and sediments of a southwestern Siberian soda lake characterized by an extremely high pH and salinity, combining meta-omics analyses of its uniquely adapted highly diverse prokaryote communities with biogeochemical profiling to identify key microbial players and expand our understanding of sulfur cycling under haloalkaline conditions. RESULTS Peak microbial activity was found in the top 4 cm of the sediments, a layer with a steep drop in oxygen concentration and redox potential. The majority of sulfur was present as sulfate or iron sulfide. Thiosulfate was readily oxidized by microbes in the presence of oxygen, but oxidation was partially inhibited by light. We obtained 1032 metagenome-assembled genomes, including novel population genomes of characterized colorless sulfur-oxidizing bacteria (SOB), anoxygenic purple sulfur bacteria, heterotrophic SOB, and highly active lithoautotrophic sulfate reducers. Surprisingly, we discovered the potential for nitrogen fixation in a new genus of colorless SOB, carbon fixation in a new species of phototrophic Gemmatimonadetes, and elemental sulfur/sulfite reduction in the "Candidatus Woesearchaeota." Polysulfide/thiosulfate and tetrathionate reductases were actively transcribed by various (facultative) anaerobes. CONCLUSIONS The recovery of over 200 genomes that encoded enzymes capable of catalyzing key reactions in the inorganic sulfur cycle indicates complete cycling between sulfate and sulfide at moderately hypersaline and extreme alkaline conditions. Our results suggest that more taxonomic groups are involved in sulfur dissimilation than previously assumed.
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Affiliation(s)
- Charlotte D Vavourakis
- Microbial Systems Ecology, Department of Freshwater and Marine Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, P.O. Box 94240, 1090 GE, Amsterdam, the Netherlands
| | - Maliheh Mehrshad
- Department of Aquatic Microbial Ecology, Institute of Hydrobiology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice, Czech Republic
| | - Cherel Balkema
- Microbial Systems Ecology, Department of Freshwater and Marine Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, P.O. Box 94240, 1090 GE, Amsterdam, the Netherlands
| | - Rutger van Hall
- Department of Ecosystem & Landscape Dynamics, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, the Netherlands
| | - Adrian-Ştefan Andrei
- Department of Aquatic Microbial Ecology, Institute of Hydrobiology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice, Czech Republic
| | - Rohit Ghai
- Department of Aquatic Microbial Ecology, Institute of Hydrobiology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice, Czech Republic
| | - Dimitry Y Sorokin
- Winogradsky Institute of Microbiology, Research Centre of Biotechnology, Russian Academy of Sciences, Moscow, Russian Federation
- Department of Biotechnology, Environmental Biotechnology, Delft University of Technology, Delft, the Netherlands
| | - Gerard Muyzer
- Microbial Systems Ecology, Department of Freshwater and Marine Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, P.O. Box 94240, 1090 GE, Amsterdam, the Netherlands.
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Korponai K, Szabó A, Somogyi B, Boros E, Borsodi AK, Jurecska L, Vörös L, Felföldi T. Dual bloom of green algae and purple bacteria in an extremely shallow soda pan. Extremophiles 2019; 23:467-477. [PMID: 31087168 PMCID: PMC6557878 DOI: 10.1007/s00792-019-01098-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2019] [Accepted: 04/29/2019] [Indexed: 11/29/2022]
Abstract
In April 2014, dual bloom of green algae and purple bacteria occurred in a shallow, alkaline soda pan (Kiskunság National Park, Hungary). The water was only 5 cm deep, in which an upper green layer was clearly separated from a near-sediment purple one. Based on microscopy and DNA-based identification, the upper was inhabited by a dense population of the planktonic green alga, Oocystis submarina Lagerheim, while the deeper layer was formed by purple, bacteriochlorophyll-containing bacteria, predominated by Thiorhodospira and Rhodobaca. Additional bacterial taxa with a presumed capability of anoxygenic phototrophic growth belonged to the genera Loktanella and Porphyrobacter. Comparing the bacterial community of the purple layer with a former blooming event in a nearby soda pan, similar functional but different taxonomic composition was revealed. Members from many dominant bacterial groups were successfully cultivated including potentially new species, which could be the result of the application of newly designed media.
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Affiliation(s)
- Kristóf Korponai
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary
| | - Attila Szabó
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary
| | - Boglárka Somogyi
- Balaton Limnological Institute, MTA Centre for Ecological Research, Klebelsberg Kuno u. 3., Tihany, 8237, Hungary
| | - Emil Boros
- Balaton Limnological Institute, MTA Centre for Ecological Research, Klebelsberg Kuno u. 3., Tihany, 8237, Hungary
| | - Andrea K Borsodi
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary
| | - Laura Jurecska
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary
| | - Lajos Vörös
- Balaton Limnological Institute, MTA Centre for Ecological Research, Klebelsberg Kuno u. 3., Tihany, 8237, Hungary
| | - Tamás Felföldi
- Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter stny. 1/c., Budapest, 1117, Hungary.
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12
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Challenges and Adaptations of Life in Alkaline Habitats. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2019; 172:85-133. [DOI: 10.1007/10_2019_97] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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13
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Phurbu D, Pema Y, Ma C, Lu H, Li H, Tian Y, Xing P. Nitrincola tibetensis sp. nov., isolated from Lake XuguoCo on the Tibetan Plateau. Int J Syst Evol Microbiol 2019; 69:123-128. [DOI: 10.1099/ijsem.0.003111] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Dorji Phurbu
- 1Tibet Plateau Institute of Biology, Lhasa 850000, PR China
| | - Yangzom Pema
- 1Tibet Plateau Institute of Biology, Lhasa 850000, PR China
| | - Chao Ma
- 1Tibet Plateau Institute of Biology, Lhasa 850000, PR China
| | - Huibin Lu
- 2State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China
- 3University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Huabing Li
- 2State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China
| | - Yanling Tian
- 4College of Life Sciences, Nanjing Normal University, Nanjing 210046, PR China
| | - Peng Xing
- 2State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China
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Kevbrin VV. Isolation and Cultivation of Alkaliphiles. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2019; 172:53-84. [DOI: 10.1007/10_2018_84] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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