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Analysis of community composition of sulfur-oxidizing bacteria in hypersaline and soda lakes using soxB as a functional molecular marker
Abstract The diversity of soxB gene encoding a key enzyme of the Sox pathway sulfate thiohydrolase has been investigated in pure cultures of various halophilic and haloalkaliphilic sulfur-oxidizing bacteria (SOB) and in salt and soda lakes in southwestern Siberia and Egypt. The gene was detected in...
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Published in: | FEMS microbiology ecology 2013-05, Vol.84 (2), p.280-289 |
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creator | Tourova, Tatjana P. Slobodova, Natalija V. Bumazhkin, Boris K. Kolganova, Tatjana V. Muyzer, Gerard Sorokin, Dimitry Y. |
description | Abstract
The diversity of soxB gene encoding a key enzyme of the Sox pathway sulfate thiohydrolase has been investigated in pure cultures of various halophilic and haloalkaliphilic sulfur-oxidizing bacteria (SOB) and in salt and soda lakes in southwestern Siberia and Egypt. The gene was detected in the majority of strains belonging to eleven SOB genera excluding members of genera Thiohalospira and Thioalkalimicrobium. The uncultured diversity of soxB in salt and soda lakes was low with a majority of detected sequences belonging to autotrophic SOB from the Gammaproteobacteria. In addition, the soxB analysis allowed detection of putative heterotrophic Gamma- and Alphaproteobacterial SOB yet unknown in culture. All clone libraries obtained from soda lakes contained soxB belonging to the genus Thioalkalivibrio in agreement with the cultivation results. Besides, representatives of the genera Halothiobacillus, Marinobacter, and Halochromatium and of the family Rhodobacteraceae have been detected in both type of saline lakes. |
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The diversity of soxB gene encoding a key enzyme of the Sox pathway sulfate thiohydrolase has been investigated in pure cultures of various halophilic and haloalkaliphilic sulfur-oxidizing bacteria (SOB) and in salt and soda lakes in southwestern Siberia and Egypt. The gene was detected in the majority of strains belonging to eleven SOB genera excluding members of genera Thiohalospira and Thioalkalimicrobium. The uncultured diversity of soxB in salt and soda lakes was low with a majority of detected sequences belonging to autotrophic SOB from the Gammaproteobacteria. In addition, the soxB analysis allowed detection of putative heterotrophic Gamma- and Alphaproteobacterial SOB yet unknown in culture. All clone libraries obtained from soda lakes contained soxB belonging to the genus Thioalkalivibrio in agreement with the cultivation results. Besides, representatives of the genera Halothiobacillus, Marinobacter, and Halochromatium and of the family Rhodobacteraceae have been detected in both type of saline lakes.</description><identifier>ISSN: 0168-6496</identifier><identifier>EISSN: 1574-6941</identifier><identifier>DOI: 10.1111/1574-6941.12056</identifier><identifier>PMID: 23237619</identifier><identifier>CODEN: FMECEZ</identifier><language>eng</language><publisher>Oxford, UK: Blackwell Publishing Ltd</publisher><subject>Bacteria - classification ; Bacteria - genetics ; Bacteria - metabolism ; Community composition ; diversity ; Ecology ; Egypt ; Freshwater ; Gammaproteobacteria - classification ; Gammaproteobacteria - genetics ; Gammaproteobacteria - metabolism ; Genes, Bacterial ; Genetic Markers ; Hydrolases - genetics ; Lakes - microbiology ; Microbiology ; Oxidation-Reduction ; phylogeny ; Salinity ; Salt lakes ; Siberia ; soda lakes ; sox B ; Sulfur ; Sulfur - metabolism ; sulfur oxidation ; Thioalkalivibrio</subject><ispartof>FEMS microbiology ecology, 2013-05, Vol.84 (2), p.280-289</ispartof><rights>2012 Federation of European Microbiological Societies 2012</rights><rights>2012 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved</rights><rights>2014 INIST-CNRS</rights><rights>2012 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved.</rights><rights>Copyright © 2013 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27922,27923</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=27216304$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23237619$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Tourova, Tatjana P.</creatorcontrib><creatorcontrib>Slobodova, Natalija V.</creatorcontrib><creatorcontrib>Bumazhkin, Boris K.</creatorcontrib><creatorcontrib>Kolganova, Tatjana V.</creatorcontrib><creatorcontrib>Muyzer, Gerard</creatorcontrib><creatorcontrib>Sorokin, Dimitry Y.</creatorcontrib><title>Analysis of community composition of sulfur-oxidizing bacteria in hypersaline and soda lakes using soxB as a functional molecular marker</title><title>FEMS microbiology ecology</title><addtitle>FEMS Microbiol Ecol</addtitle><description>Abstract
The diversity of soxB gene encoding a key enzyme of the Sox pathway sulfate thiohydrolase has been investigated in pure cultures of various halophilic and haloalkaliphilic sulfur-oxidizing bacteria (SOB) and in salt and soda lakes in southwestern Siberia and Egypt. The gene was detected in the majority of strains belonging to eleven SOB genera excluding members of genera Thiohalospira and Thioalkalimicrobium. The uncultured diversity of soxB in salt and soda lakes was low with a majority of detected sequences belonging to autotrophic SOB from the Gammaproteobacteria. In addition, the soxB analysis allowed detection of putative heterotrophic Gamma- and Alphaproteobacterial SOB yet unknown in culture. All clone libraries obtained from soda lakes contained soxB belonging to the genus Thioalkalivibrio in agreement with the cultivation results. Besides, representatives of the genera Halothiobacillus, Marinobacter, and Halochromatium and of the family Rhodobacteraceae have been detected in both type of saline lakes.</description><subject>Bacteria - classification</subject><subject>Bacteria - genetics</subject><subject>Bacteria - metabolism</subject><subject>Community composition</subject><subject>diversity</subject><subject>Ecology</subject><subject>Egypt</subject><subject>Freshwater</subject><subject>Gammaproteobacteria - classification</subject><subject>Gammaproteobacteria - genetics</subject><subject>Gammaproteobacteria - metabolism</subject><subject>Genes, Bacterial</subject><subject>Genetic Markers</subject><subject>Hydrolases - genetics</subject><subject>Lakes - microbiology</subject><subject>Microbiology</subject><subject>Oxidation-Reduction</subject><subject>phylogeny</subject><subject>Salinity</subject><subject>Salt lakes</subject><subject>Siberia</subject><subject>soda lakes</subject><subject>sox B</subject><subject>Sulfur</subject><subject>Sulfur - metabolism</subject><subject>sulfur oxidation</subject><subject>Thioalkalivibrio</subject><issn>0168-6496</issn><issn>1574-6941</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><recordid>eNqNkk1rFTEUhoMo9lpdu5OACCJMzffMLGtpVWhxo-tw7kxG02aSMbmhnf6C_mwz915bEBcN-TjJed4Dh7wIvabkiJbxkcpaVKoV9IgyItUTtLp_eYpWhKqmUqJVB-hFSpeEUMkFeY4OGGe8VrRdobtjD25ONuEw4C6MY_Z2My_RFJLd2OCXRMpuyLEKN7a3t9b_xGvoNiZawNbjX_NkYgJnvcHge5xCD9jBlUk4pwVO4eYThoQBD9l3S01weAzOdNlBxCPEKxNfomcDuGRe7c9D9OPs9PvJl-r82-evJ8fnVeANV5URzDBherFueNsyCpRDWeUmSduIvucK6obWUDPT1KbrRM8p6ZVsyrauW36I3u_qTjH8ziZt9GhTZ5wDb0JOmnLRiKatuXwEyiTnhEtW0Lf_oJchx9LnlhJS0DIL9WZP5fVoej1FW5qf9d_vKMC7PQCpAzdE8J1ND1zNqOJEFE7uuGvrzHyfp0QvrtCLB_TiAb11hT47vdgGRfdhpwt5-q-qelDxP5SFtPQ</recordid><startdate>201305</startdate><enddate>201305</enddate><creator>Tourova, Tatjana P.</creator><creator>Slobodova, Natalija V.</creator><creator>Bumazhkin, Boris K.</creator><creator>Kolganova, Tatjana V.</creator><creator>Muyzer, Gerard</creator><creator>Sorokin, Dimitry Y.</creator><general>Blackwell Publishing Ltd</general><general>Blackwell</general><general>Oxford University Press</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7SN</scope><scope>7T7</scope><scope>7TK</scope><scope>7TM</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>K9.</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>7UA</scope><scope>F1W</scope><scope>H95</scope><scope>L.G</scope></search><sort><creationdate>201305</creationdate><title>Analysis of community composition of sulfur-oxidizing bacteria in hypersaline and soda lakes using soxB as a functional molecular marker</title><author>Tourova, Tatjana P. ; Slobodova, Natalija V. ; Bumazhkin, Boris K. ; Kolganova, Tatjana V. ; Muyzer, Gerard ; Sorokin, Dimitry Y.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-o3836-e42e24ed4b839921a13aa13b8350984dd36a7817a72e87ecc4d310d6580d6b793</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>Bacteria - classification</topic><topic>Bacteria - genetics</topic><topic>Bacteria - metabolism</topic><topic>Community composition</topic><topic>diversity</topic><topic>Ecology</topic><topic>Egypt</topic><topic>Freshwater</topic><topic>Gammaproteobacteria - classification</topic><topic>Gammaproteobacteria - genetics</topic><topic>Gammaproteobacteria - metabolism</topic><topic>Genes, Bacterial</topic><topic>Genetic Markers</topic><topic>Hydrolases - genetics</topic><topic>Lakes - microbiology</topic><topic>Microbiology</topic><topic>Oxidation-Reduction</topic><topic>phylogeny</topic><topic>Salinity</topic><topic>Salt lakes</topic><topic>Siberia</topic><topic>soda lakes</topic><topic>sox B</topic><topic>Sulfur</topic><topic>Sulfur - metabolism</topic><topic>sulfur oxidation</topic><topic>Thioalkalivibrio</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tourova, Tatjana P.</creatorcontrib><creatorcontrib>Slobodova, Natalija V.</creatorcontrib><creatorcontrib>Bumazhkin, Boris K.</creatorcontrib><creatorcontrib>Kolganova, Tatjana V.</creatorcontrib><creatorcontrib>Muyzer, Gerard</creatorcontrib><creatorcontrib>Sorokin, Dimitry Y.</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Ecology Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>Water Resources Abstracts</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 1: Biological Sciences & Living Resources</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><jtitle>FEMS microbiology ecology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tourova, Tatjana P.</au><au>Slobodova, Natalija V.</au><au>Bumazhkin, Boris K.</au><au>Kolganova, Tatjana V.</au><au>Muyzer, Gerard</au><au>Sorokin, Dimitry Y.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysis of community composition of sulfur-oxidizing bacteria in hypersaline and soda lakes using soxB as a functional molecular marker</atitle><jtitle>FEMS microbiology ecology</jtitle><addtitle>FEMS Microbiol Ecol</addtitle><date>2013-05</date><risdate>2013</risdate><volume>84</volume><issue>2</issue><spage>280</spage><epage>289</epage><pages>280-289</pages><issn>0168-6496</issn><eissn>1574-6941</eissn><coden>FMECEZ</coden><abstract>Abstract
The diversity of soxB gene encoding a key enzyme of the Sox pathway sulfate thiohydrolase has been investigated in pure cultures of various halophilic and haloalkaliphilic sulfur-oxidizing bacteria (SOB) and in salt and soda lakes in southwestern Siberia and Egypt. The gene was detected in the majority of strains belonging to eleven SOB genera excluding members of genera Thiohalospira and Thioalkalimicrobium. The uncultured diversity of soxB in salt and soda lakes was low with a majority of detected sequences belonging to autotrophic SOB from the Gammaproteobacteria. In addition, the soxB analysis allowed detection of putative heterotrophic Gamma- and Alphaproteobacterial SOB yet unknown in culture. All clone libraries obtained from soda lakes contained soxB belonging to the genus Thioalkalivibrio in agreement with the cultivation results. Besides, representatives of the genera Halothiobacillus, Marinobacter, and Halochromatium and of the family Rhodobacteraceae have been detected in both type of saline lakes.</abstract><cop>Oxford, UK</cop><pub>Blackwell Publishing Ltd</pub><pmid>23237619</pmid><doi>10.1111/1574-6941.12056</doi><tpages>10</tpages></addata></record> |
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subjects | Bacteria - classification Bacteria - genetics Bacteria - metabolism Community composition diversity Ecology Egypt Freshwater Gammaproteobacteria - classification Gammaproteobacteria - genetics Gammaproteobacteria - metabolism Genes, Bacterial Genetic Markers Hydrolases - genetics Lakes - microbiology Microbiology Oxidation-Reduction phylogeny Salinity Salt lakes Siberia soda lakes sox B Sulfur Sulfur - metabolism sulfur oxidation Thioalkalivibrio |
title | Analysis of community composition of sulfur-oxidizing bacteria in hypersaline and soda lakes using soxB as a functional molecular marker |
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