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Liu T, Liu X, Zhu J, Tang Q, Wang W, Zhu L, Zhang Z, Zhang Z, Jiang L, Huang H. Characterization of Radiation-Resistant Yeast Isolated from Radiation-Polluted Areas and Its Potential Application in Bioremediation. APPL BIOCHEM MICRO+ 2020. [DOI: 10.1134/s0003683820050117] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Simachew A, Lanzén A, Gessesse A, Øvreås L. Prokaryotic Community Diversity Along an Increasing Salt Gradient in a Soda Ash Concentration Pond. MICROBIAL ECOLOGY 2016; 71:326-338. [PMID: 26408190 DOI: 10.1007/s00248-015-0675-7] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2014] [Accepted: 09/09/2015] [Indexed: 06/05/2023]
Abstract
The effect of salinity on prokaryotic community diversity in Abijata-Shalla Soda Ash Concentration Pond system was investigated by using high-throughput 16S rRNA gene 454 pyrosequencing. Surface water and brine samples from five sites spanning a salinity range of 3.4 % (Lake Abijata) to 32 % (SP230F, crystallizer pond) were analyzed. Overall, 33 prokaryotic phyla were detected, and the dominant prokaryotic phyla accounted for more than 95 % of the reads consisting of Planctomycetes, Bacteroidetes, candidate division TM7, Deinococcus-Thermus, Firmicutes, Actinobacteria, Proteobacteria, and Euryarchaeota. Diversity indices indicated that operational taxonomic unit (OTU) richness decreases drastically with increasing salinity in the pond system. A total of 471 OTUs were found at 3.4 % salinity whereas 49 OTUs were detected in pond SP211 (25 % salinity), and only 19 OTUs in the crystallization pond at 32 % salinity (SP230F). Along the salinity gradient, archaeal community gradually replaced bacterial community. Thus, archaeal community accounted for 0.4 % in Lake Abijata while 99.0 % in pond SP230F. This study demonstrates that salinity appears to be the key environmental parameter in structuring the prokaryotic communities of haloalkaline environments. Further, it confirmed that the prokaryotic diversity in Lake Abijata is high and it harbors taxa with low or no phylogenetic similarities to existing prokaryotic taxa and thus represents novel microorganisms.
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Affiliation(s)
| | - Anders Lanzén
- Department of Ecology and Natural Resources, NEIKER-Tecnalia, Derio, Spain
| | | | - Lise Øvreås
- Department of Biology, University of Bergen, Bergen, Norway
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The Identification and Quantification of Phospholipids from Thermus and Meiothermus Bacteria. Lipids 2014; 49:1133-41. [DOI: 10.1007/s11745-014-3946-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2014] [Accepted: 08/22/2014] [Indexed: 10/24/2022]
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Dsouza M, Taylor MW, Ryan J, MacKenzie A, Lagutin K, Anderson RF, Turner SJ, Aislabie J. Paenibacillus darwinianus sp. nov., isolated from gamma-irradiated Antarctic soil. Int J Syst Evol Microbiol 2014; 64:1406-1411. [PMID: 24449790 DOI: 10.1099/ijs.0.056697-0] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterium, strain Br(T), was isolated from gamma-irradiated soils of the Britannia drift, Lake Wellman Region, Antarctica. This isolate was rod-shaped, endospore forming, Gram-stain-variable, catalase-positive, oxidase-negative and strictly aerobic. Cells possessed a monotrichous flagellum. Optimal growth was observed at 18 °C, pH 7.0 in PYGV or R2A broth. The major cellular fatty acid was anteiso-C15 : 0 (63.4 %). Primary identified lipids included phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. Total phospholipid was 60 % (w/w) of the total lipid extract. MK-7 was the dominant isoprenoid quinone. The genomic DNA G+C content was 55.6 mol%. Based on 16S rRNA gene sequence similarity, strain Br(T) clusters within the genus Paenibacillus with similarity values ranging from 93.9 to 95.1 %. Phylogenetic analyses by maximum-likelihood, maximum-parsimony and neighbour-joining methods revealed that strain Br(T) clusters with Paenibacillus daejeonensis (AF290916), Paenibacillus tarimensis (EF125184) and Paenibacillus pinihumi (GQ423057), albeit with weak bootstrap support. On the basis of phenotypic, chemotaxonomic and phylogenetic characteristics, we propose that strain Br(T) represents a novel species, Paenibacillus darwinianus sp. nov. The type strain is Br(T) ( = DSM 27245(T) = ICMP 19912(T)).
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Affiliation(s)
- Melissa Dsouza
- Centre for Microbial Innovation, School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
| | - Michael W. Taylor
- Centre for Microbial Innovation, School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
| | - Jason Ryan
- Callaghan Innovation Limited, PO Box 31310, Lower Hutt 5040, New Zealand
| | - Andrew MacKenzie
- Callaghan Innovation Limited, PO Box 31310, Lower Hutt 5040, New Zealand
| | - Kirill Lagutin
- Callaghan Innovation Limited, PO Box 31310, Lower Hutt 5040, New Zealand
| | - Robert F. Anderson
- School of Chemical Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
| | - Susan J. Turner
- BioDiscovery New Zealand Limited, Parnell, Auckland, New Zealand
- Centre for Microbial Innovation, School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
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Theodorakopoulos N, Bachar D, Christen R, Alain K, Chapon V. Exploration of Deinococcus-Thermus molecular diversity by novel group-specific PCR primers. Microbiologyopen 2013; 2:862-72. [PMID: 23996915 PMCID: PMC3831646 DOI: 10.1002/mbo3.119] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2013] [Revised: 07/04/2013] [Accepted: 07/05/2013] [Indexed: 11/07/2022] Open
Abstract
The deeply branching Deinococcus-Thermus lineage is recognized as one of the most extremophilic phylum of bacteria. In previous studies, the presence of Deinococcus-related bacteria in the hot arid Tunisian desert of Tataouine was demonstrated through combined molecular and culture-based approaches. Similarly, Thermus-related bacteria have been detected in Tunisian geothermal springs. The present work was conducted to explore the molecular diversity within the Deinococcus-Thermus phylum in these extreme environments. A set of specific primers was designed in silico on the basis of 16S rRNA gene sequences, validated for the specific detection of reference strains, and used for the polymerase chain reaction (PCR) amplification of metagenomic DNA retrieved from the Tataouine desert sand and Tunisian hot spring water samples. These analyses have revealed the presence of previously undescribed Deinococcus-Thermus bacterial sequences within these extreme environments. The primers designed in this study thus represent a powerful tool for the rapid detection of Deinococcus-Thermus in environmental samples and could also be applicable to clarify the biogeography of the Deinococcus-Thermus phylum.
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Affiliation(s)
- Nicolas Theodorakopoulos
- CEA, DSV, IBEB, SBVME, LIPM, F-13108, Saint-Paul-lez-Durance, France; CNRS, UMR 7265, F-13108, Saint-Paul-lez-Durance, France; Université d'Aix-Marseille, F-13108, Saint-Paul-lez-Durance, France; IRSN, PRP-ENV, SERIS, L2BT, F-13115, Saint Paul-lez-Durance, France
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Pati A, Zhang X, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Hauser L, Jeffries CD, Brambilla EM, Röhl A, Mwirichia R, Rohde M, Tindall BJ, Sikorski J, Wirth R, Göker M, Woyke T, Detter JC, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP, Land M. Complete genome sequence of Oceanithermus profundus type strain (506). Stand Genomic Sci 2011; 4:210-20. [PMID: 21677858 PMCID: PMC3111992 DOI: 10.4056/sigs.1734292] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023] Open
Abstract
Oceanithermus profundus Miroshnichenko et al. 2003 is the type species of the genus Oceanithermus, which belongs to the family Thermaceae. The genus currently comprises two species whose members are thermophilic and are able to reduce sulfur compounds and nitrite. The organism is adapted to the salinity of sea water, is able to utilize a broad range of carbohydrates, some proteinaceous substrates, organic acids and alcohols. This is the first completed genome sequence of a member of the genus Oceanithermus and the fourth sequence from the family Thermaceae. The 2,439,291 bp long genome with its 2,391 protein-coding and 54 RNA genes consists of one chromosome and a 135,351 bp long plasmid, and is a part of the Genomic Encyclopedia of Bacteria and Archaea project.
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