Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing
Viable bacteria were found in permafrost core samples from the Kolyma-Indigirka lowland of northeast Siberia. The samples were obtained at different depths; the deepest was about 3 million years old. The average temperature of the permafrost is -10 degrees C. Twenty-nine bacterial isolates were char...
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| Veröffentlicht in: | Microbial ecology 1997-05, Vol.33 (3), p.169-179 |
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| creator | Shi, T. (Florida State University, Tallahassee, FL.) Reeves, R.H Gilichinsky, D.A Friedmann, E.I |
| description | Viable bacteria were found in permafrost core samples from the Kolyma-Indigirka lowland of northeast Siberia. The samples were obtained at different depths; the deepest was about 3 million years old. The average temperature of the permafrost is -10 degrees C. Twenty-nine bacterial isolates were characterized by 165 rDNA sequencing and phylogenetic analysis, cell morphology, Gram staining, endospore formation, and growth at 30 degrees C. The majority of the bacterial isolates were rod shaped and grew well at 30 degrees C; but two of them did not grow at or above 28 degrees C, and had optimum growth temperatures around 20 degrees C. Thirty percent of the isolates could form endospores. Phylogenetic analysis revealed that the isolates fell into four categories: high-GC Gram-positive bacteria, beta-proteobacteria, gamma-proteobacteria, and low-GC Gram-positive bacteria. Most high-GC Gram-positive bacteria and beta-proteobacteria, and all gamma-proteobacteria, came from samples with an estimated age of 1.8-3.0 million years (Olyor suite). Most low-GC Gram-positive bacteria came from samples with an estimated age of 5,000-8,000 years (Alas suite) |
| doi_str_mv | 10.1007/s002489900019 |
| format | Article |
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(Florida State University, Tallahassee, FL.) ; Reeves, R.H ; Gilichinsky, D.A ; Friedmann, E.I</creator><creatorcontrib>Shi, T. (Florida State University, Tallahassee, FL.) ; Reeves, R.H ; Gilichinsky, D.A ; Friedmann, E.I</creatorcontrib><description>Viable bacteria were found in permafrost core samples from the Kolyma-Indigirka lowland of northeast Siberia. The samples were obtained at different depths; the deepest was about 3 million years old. The average temperature of the permafrost is -10 degrees C. Twenty-nine bacterial isolates were characterized by 165 rDNA sequencing and phylogenetic analysis, cell morphology, Gram staining, endospore formation, and growth at 30 degrees C. The majority of the bacterial isolates were rod shaped and grew well at 30 degrees C; but two of them did not grow at or above 28 degrees C, and had optimum growth temperatures around 20 degrees C. Thirty percent of the isolates could form endospores. Phylogenetic analysis revealed that the isolates fell into four categories: high-GC Gram-positive bacteria, beta-proteobacteria, gamma-proteobacteria, and low-GC Gram-positive bacteria. Most high-GC Gram-positive bacteria and beta-proteobacteria, and all gamma-proteobacteria, came from samples with an estimated age of 1.8-3.0 million years (Olyor suite). Most low-GC Gram-positive bacteria came from samples with an estimated age of 5,000-8,000 years (Alas suite)</description><identifier>ISSN: 0095-3628</identifier><identifier>EISSN: 1432-184X</identifier><identifier>DOI: 10.1007/s002489900019</identifier><identifier>PMID: 9115180</identifier><language>eng</language><publisher>Headquarters: Springer-Verlag New York Inc</publisher><subject>ADN ; Arctic Regions ; BACTERIA ; Base Sequence ; Cold Climate ; Confidence limits ; DNA, Bacterial ; DNA, Ribosomal ; Endospores ; FENOTIPOS ; FILOGENIA ; FLORA DEL SUELO ; FLORE DU SOL ; Geologic Sediments - microbiology ; Gram-Positive Bacteria - classification ; Gram-Positive Bacteria - genetics ; Gram-Positive Bacteria - isolation & purification ; Ice ; Life Sciences (General) ; Microorganisms ; Permafrost ; PHENOTYPE ; PHYLOGENIE ; Phylogeny ; Ribosomal DNA ; RIBOSOMAS ; RIBOSOME ; SECUENCIA NUCLEOTIDICA ; Sediments ; SEQUENCE NUCLEOTIDIQUE ; Sequencing ; Siberia ; Soil Microbiology ; Soil microorganisms ; Space life sciences ; ZONAS DE HIELO PERMANENTE ; ZONE DE GEL PERMANENT</subject><ispartof>Microbial ecology, 1997-05, Vol.33 (3), p.169-179</ispartof><rights>Copyright 1997 Springer-Verlag New York Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c446t-1a80964c0a20acdecadc859cd246bb4765999f369ec1bf0e1c56ecd8fbe8ec363</citedby></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/4251486$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/4251486$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>314,780,784,803,27924,27925,58017,58250</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/9115180$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Shi, T. (Florida State University, Tallahassee, FL.)</creatorcontrib><creatorcontrib>Reeves, R.H</creatorcontrib><creatorcontrib>Gilichinsky, D.A</creatorcontrib><creatorcontrib>Friedmann, E.I</creatorcontrib><title>Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing</title><title>Microbial ecology</title><addtitle>Microb Ecol</addtitle><description>Viable bacteria were found in permafrost core samples from the Kolyma-Indigirka lowland of northeast Siberia. The samples were obtained at different depths; the deepest was about 3 million years old. The average temperature of the permafrost is -10 degrees C. Twenty-nine bacterial isolates were characterized by 165 rDNA sequencing and phylogenetic analysis, cell morphology, Gram staining, endospore formation, and growth at 30 degrees C. The majority of the bacterial isolates were rod shaped and grew well at 30 degrees C; but two of them did not grow at or above 28 degrees C, and had optimum growth temperatures around 20 degrees C. Thirty percent of the isolates could form endospores. Phylogenetic analysis revealed that the isolates fell into four categories: high-GC Gram-positive bacteria, beta-proteobacteria, gamma-proteobacteria, and low-GC Gram-positive bacteria. Most high-GC Gram-positive bacteria and beta-proteobacteria, and all gamma-proteobacteria, came from samples with an estimated age of 1.8-3.0 million years (Olyor suite). Most low-GC Gram-positive bacteria came from samples with an estimated age of 5,000-8,000 years (Alas suite)</description><subject>ADN</subject><subject>Arctic Regions</subject><subject>BACTERIA</subject><subject>Base Sequence</subject><subject>Cold Climate</subject><subject>Confidence limits</subject><subject>DNA, Bacterial</subject><subject>DNA, Ribosomal</subject><subject>Endospores</subject><subject>FENOTIPOS</subject><subject>FILOGENIA</subject><subject>FLORA DEL SUELO</subject><subject>FLORE DU SOL</subject><subject>Geologic Sediments - microbiology</subject><subject>Gram-Positive Bacteria - classification</subject><subject>Gram-Positive Bacteria - genetics</subject><subject>Gram-Positive Bacteria - isolation & purification</subject><subject>Ice</subject><subject>Life Sciences (General)</subject><subject>Microorganisms</subject><subject>Permafrost</subject><subject>PHENOTYPE</subject><subject>PHYLOGENIE</subject><subject>Phylogeny</subject><subject>Ribosomal DNA</subject><subject>RIBOSOMAS</subject><subject>RIBOSOME</subject><subject>SECUENCIA NUCLEOTIDICA</subject><subject>Sediments</subject><subject>SEQUENCE NUCLEOTIDIQUE</subject><subject>Sequencing</subject><subject>Siberia</subject><subject>Soil Microbiology</subject><subject>Soil microorganisms</subject><subject>Space life sciences</subject><subject>ZONAS DE HIELO PERMANENTE</subject><subject>ZONE DE GEL PERMANENT</subject><issn>0095-3628</issn><issn>1432-184X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1997</creationdate><recordtype>article</recordtype><sourceid>CYI</sourceid><sourceid>EIF</sourceid><recordid>eNqFkc1v1DAQxS0EKtvCkQsCyafeAjO249jHavmUqvawVOJmjR2npNoki51Fav_6epVVESdO1sz7-dnzhrE3CB8QoPmYAYQy1gIA2mdshUqKCo36-ZytAGxdSS3MS3aa810hGi3kCTuxiDUaWLHN-hclCnNM_QPN_TTyqeN_evLbyP3SJ96laeCb3h-Kke9iGqi08sz9PUe94enT1QXP8fc-jqEfb1-xFx1tc3x9PM_YzZfPP9bfqsvrr9_XF5dVUErPFZIBq1UAEkChjYHaYGobWqG096rRtbW2k9rGgL6DiKHWMbSm89HEILU8Y-eL7y5N5e08u6HPIW63NMZpn11T3KWs1X9B1AIVqgNYLWAo4-UUO7dL_UDp3iG4Q9run7QL__5ovPdDbJ_oY7xFf7foI2Vy45yyEwCqrEFYi3_luzxP6em2EjUqc5jv7SJ3NDm6TX12NxvblH9qlI-lGJQZ</recordid><startdate>19970501</startdate><enddate>19970501</enddate><creator>Shi, T. (Florida State University, Tallahassee, FL.)</creator><creator>Reeves, R.H</creator><creator>Gilichinsky, D.A</creator><creator>Friedmann, E.I</creator><general>Springer-Verlag New York Inc</general><scope>FBQ</scope><scope>CYE</scope><scope>CYI</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7SN</scope><scope>7T7</scope><scope>7UA</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>P64</scope><scope>7X8</scope></search><sort><creationdate>19970501</creationdate><title>Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing</title><author>Shi, T. (Florida State University, Tallahassee, FL.) ; Reeves, R.H ; Gilichinsky, D.A ; Friedmann, E.I</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c446t-1a80964c0a20acdecadc859cd246bb4765999f369ec1bf0e1c56ecd8fbe8ec363</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1997</creationdate><topic>ADN</topic><topic>Arctic Regions</topic><topic>BACTERIA</topic><topic>Base Sequence</topic><topic>Cold Climate</topic><topic>Confidence limits</topic><topic>DNA, Bacterial</topic><topic>DNA, Ribosomal</topic><topic>Endospores</topic><topic>FENOTIPOS</topic><topic>FILOGENIA</topic><topic>FLORA DEL SUELO</topic><topic>FLORE DU SOL</topic><topic>Geologic Sediments - microbiology</topic><topic>Gram-Positive Bacteria - classification</topic><topic>Gram-Positive Bacteria - genetics</topic><topic>Gram-Positive Bacteria - isolation & purification</topic><topic>Ice</topic><topic>Life Sciences (General)</topic><topic>Microorganisms</topic><topic>Permafrost</topic><topic>PHENOTYPE</topic><topic>PHYLOGENIE</topic><topic>Phylogeny</topic><topic>Ribosomal DNA</topic><topic>RIBOSOMAS</topic><topic>RIBOSOME</topic><topic>SECUENCIA NUCLEOTIDICA</topic><topic>Sediments</topic><topic>SEQUENCE NUCLEOTIDIQUE</topic><topic>Sequencing</topic><topic>Siberia</topic><topic>Soil Microbiology</topic><topic>Soil microorganisms</topic><topic>Space life sciences</topic><topic>ZONAS DE HIELO PERMANENTE</topic><topic>ZONE DE GEL PERMANENT</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Shi, T. (Florida State University, Tallahassee, FL.)</creatorcontrib><creatorcontrib>Reeves, R.H</creatorcontrib><creatorcontrib>Gilichinsky, D.A</creatorcontrib><creatorcontrib>Friedmann, E.I</creatorcontrib><collection>AGRIS</collection><collection>NASA Scientific and Technical Information</collection><collection>NASA Technical Reports Server</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Ecology Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Water Resources Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Microbial ecology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Shi, T. (Florida State University, Tallahassee, FL.)</au><au>Reeves, R.H</au><au>Gilichinsky, D.A</au><au>Friedmann, E.I</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing</atitle><jtitle>Microbial ecology</jtitle><addtitle>Microb Ecol</addtitle><date>1997-05-01</date><risdate>1997</risdate><volume>33</volume><issue>3</issue><spage>169</spage><epage>179</epage><pages>169-179</pages><issn>0095-3628</issn><eissn>1432-184X</eissn><abstract>Viable bacteria were found in permafrost core samples from the Kolyma-Indigirka lowland of northeast Siberia. The samples were obtained at different depths; the deepest was about 3 million years old. The average temperature of the permafrost is -10 degrees C. Twenty-nine bacterial isolates were characterized by 165 rDNA sequencing and phylogenetic analysis, cell morphology, Gram staining, endospore formation, and growth at 30 degrees C. The majority of the bacterial isolates were rod shaped and grew well at 30 degrees C; but two of them did not grow at or above 28 degrees C, and had optimum growth temperatures around 20 degrees C. Thirty percent of the isolates could form endospores. Phylogenetic analysis revealed that the isolates fell into four categories: high-GC Gram-positive bacteria, beta-proteobacteria, gamma-proteobacteria, and low-GC Gram-positive bacteria. Most high-GC Gram-positive bacteria and beta-proteobacteria, and all gamma-proteobacteria, came from samples with an estimated age of 1.8-3.0 million years (Olyor suite). Most low-GC Gram-positive bacteria came from samples with an estimated age of 5,000-8,000 years (Alas suite)</abstract><cop>Headquarters</cop><pub>Springer-Verlag New York Inc</pub><pmid>9115180</pmid><doi>10.1007/s002489900019</doi><tpages>11</tpages></addata></record> |
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| ispartof | Microbial ecology, 1997-05, Vol.33 (3), p.169-179 |
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| language | eng |
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| source | MEDLINE; JSTOR Archive Collection A-Z Listing; NASA Technical Reports Server; SpringerLink Journals - AutoHoldings |
| subjects | ADN Arctic Regions BACTERIA Base Sequence Cold Climate Confidence limits DNA, Bacterial DNA, Ribosomal Endospores FENOTIPOS FILOGENIA FLORA DEL SUELO FLORE DU SOL Geologic Sediments - microbiology Gram-Positive Bacteria - classification Gram-Positive Bacteria - genetics Gram-Positive Bacteria - isolation & purification Ice Life Sciences (General) Microorganisms Permafrost PHENOTYPE PHYLOGENIE Phylogeny Ribosomal DNA RIBOSOMAS RIBOSOME SECUENCIA NUCLEOTIDICA Sediments SEQUENCE NUCLEOTIDIQUE Sequencing Siberia Soil Microbiology Soil microorganisms Space life sciences ZONAS DE HIELO PERMANENTE ZONE DE GEL PERMANENT |
| title | Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing |
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