Analysis of the distribution and diversity in recent Hawaiian volcanic deposits of a putative carbon monoxide dehydrogenase large subunit gene
Summary A putative carbon monoxide dehydrogenase large subunit gene (BMS putative coxL) was amplified from genomic DNA extracts of four recent (42–300 year old) Hawaiian volcanic deposits by polymerase chain reaction (PCR). Sequence databases derived from clone libraries constructed using PCR produc...
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| Veröffentlicht in: | Environmental microbiology 2005-09, Vol.7 (9), p.1405-1412 |
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| container_title | Environmental microbiology |
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| creator | Dunfield, Kari E. King, Gary M. |
| description | Summary
A putative carbon monoxide dehydrogenase large subunit gene (BMS putative coxL) was amplified from genomic DNA extracts of four recent (42–300 year old) Hawaiian volcanic deposits by polymerase chain reaction (PCR). Sequence databases derived from clone libraries constructed using PCR products were analysed phylogenetically and statistically. These analyses indicated that each of the deposits supported distinct BMS putative coxL gene assemblages. Statistical analyses also showed that the youngest deposit (42 years old) contained the least diverse sequences (P |
| doi_str_mv | 10.1111/j.1462-2920.2005.00827.x |
| format | Article |
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A putative carbon monoxide dehydrogenase large subunit gene (BMS putative coxL) was amplified from genomic DNA extracts of four recent (42–300 year old) Hawaiian volcanic deposits by polymerase chain reaction (PCR). Sequence databases derived from clone libraries constructed using PCR products were analysed phylogenetically and statistically. These analyses indicated that each of the deposits supported distinct BMS putative coxL gene assemblages. Statistical analyses also showed that the youngest deposit (42 years old) contained the least diverse sequences (P < 0.05), but that diversity did not vary significantly among three older deposits with ages from about 108–300 years. Although diversity indices did not vary among the older deposits, mismatch analyses suggested population structures increased in complexity with increasing deposit age. At each of the sites, most of the clone sequences appeared to originate from Proteobacteria not currently represented in culture or recognized as CO oxidizers.</description><identifier>ISSN: 1462-2912</identifier><identifier>EISSN: 1462-2920</identifier><identifier>DOI: 10.1111/j.1462-2920.2005.00827.x</identifier><identifier>PMID: 16104863</identifier><language>eng</language><publisher>Oxford, UK: Blackwell Science Ltd</publisher><subject>Aldehyde Oxidoreductases - genetics ; Bacterial Proteins - genetics ; Base Sequence ; DNA, Bacterial - analysis ; Genetic Variation ; Geologic Sediments - microbiology ; Hawaii ; Molecular Sequence Data ; Multienzyme Complexes - genetics ; Phylogeny ; Polymerase Chain Reaction ; Protein Subunits - genetics ; Proteobacteria - classification ; Proteobacteria - enzymology ; Proteobacteria - genetics ; Time Factors ; Volcanic Eruptions</subject><ispartof>Environmental microbiology, 2005-09, Vol.7 (9), p.1405-1412</ispartof><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4857-42abac5a75573f3a758dcf9216571e375f34de77d5e097412e47915ee89d552e3</citedby><cites>FETCH-LOGICAL-c4857-42abac5a75573f3a758dcf9216571e375f34de77d5e097412e47915ee89d552e3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1111%2Fj.1462-2920.2005.00827.x$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1111%2Fj.1462-2920.2005.00827.x$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1417,27924,27925,45574,45575</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16104863$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Dunfield, Kari E.</creatorcontrib><creatorcontrib>King, Gary M.</creatorcontrib><title>Analysis of the distribution and diversity in recent Hawaiian volcanic deposits of a putative carbon monoxide dehydrogenase large subunit gene</title><title>Environmental microbiology</title><addtitle>Environ Microbiol</addtitle><description>Summary
A putative carbon monoxide dehydrogenase large subunit gene (BMS putative coxL) was amplified from genomic DNA extracts of four recent (42–300 year old) Hawaiian volcanic deposits by polymerase chain reaction (PCR). Sequence databases derived from clone libraries constructed using PCR products were analysed phylogenetically and statistically. These analyses indicated that each of the deposits supported distinct BMS putative coxL gene assemblages. Statistical analyses also showed that the youngest deposit (42 years old) contained the least diverse sequences (P < 0.05), but that diversity did not vary significantly among three older deposits with ages from about 108–300 years. Although diversity indices did not vary among the older deposits, mismatch analyses suggested population structures increased in complexity with increasing deposit age. At each of the sites, most of the clone sequences appeared to originate from Proteobacteria not currently represented in culture or recognized as CO oxidizers.</description><subject>Aldehyde Oxidoreductases - genetics</subject><subject>Bacterial Proteins - genetics</subject><subject>Base Sequence</subject><subject>DNA, Bacterial - analysis</subject><subject>Genetic Variation</subject><subject>Geologic Sediments - microbiology</subject><subject>Hawaii</subject><subject>Molecular Sequence Data</subject><subject>Multienzyme Complexes - genetics</subject><subject>Phylogeny</subject><subject>Polymerase Chain Reaction</subject><subject>Protein Subunits - genetics</subject><subject>Proteobacteria - classification</subject><subject>Proteobacteria - enzymology</subject><subject>Proteobacteria - genetics</subject><subject>Time Factors</subject><subject>Volcanic Eruptions</subject><issn>1462-2912</issn><issn>1462-2920</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkstu1DAUhiNERUvhFZBX7BJ8jROJTal6Q6UIiYvExnLsk9ZDxp7aSTt5CZ4ZT2c0LOFsztE5__978bkoEMEVyfVuURFe05K2FFcUY1Fh3FBZrZ8VR_vD8_1M6GHxMqUFxkQyiV8Uh6QmmDc1Oyp-n3g9zMklFHo03gGyLo3RddPogkfa27x4gJjcOCPnUQQDfkSX-lE7pz16CIPR3hlkYRWy6ClGo9U06jH7kNGxyznL4MPa2ZwOd7ON4Ra8ToAGHW8BpambvBtRXsKr4qDXQ4LXu35cfDs_-3p6WV5_vrg6PbkuDW-ELDnVnTZCSyEk61nujTV9S0ktJAEmRc-4BSmtANxKTihw2RIB0LRWCArsuHi7zV3FcD9BGtXSJQPDoD2EKam64S2mov6nkMiayYY0WdhshSaGlCL0ahXdUsdZEaw20NRCbXioDRu1gaaeoKl1tr7ZvTF1S7B_jTtKWfB-K3h0A8z_HazOPl3lIdvLrT2jhfXeruMvVecPIdSPmwuFv7Qfzn_yj-o7-wMzbbbg</recordid><startdate>200509</startdate><enddate>200509</enddate><creator>Dunfield, Kari E.</creator><creator>King, Gary M.</creator><general>Blackwell Science Ltd</general><scope>BSCLL</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>7QL</scope><scope>C1K</scope><scope>7X8</scope></search><sort><creationdate>200509</creationdate><title>Analysis of the distribution and diversity in recent Hawaiian volcanic deposits of a putative carbon monoxide dehydrogenase large subunit gene</title><author>Dunfield, Kari E. ; King, Gary M.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4857-42abac5a75573f3a758dcf9216571e375f34de77d5e097412e47915ee89d552e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Aldehyde Oxidoreductases - genetics</topic><topic>Bacterial Proteins - genetics</topic><topic>Base Sequence</topic><topic>DNA, Bacterial - analysis</topic><topic>Genetic Variation</topic><topic>Geologic Sediments - microbiology</topic><topic>Hawaii</topic><topic>Molecular Sequence Data</topic><topic>Multienzyme Complexes - genetics</topic><topic>Phylogeny</topic><topic>Polymerase Chain Reaction</topic><topic>Protein Subunits - genetics</topic><topic>Proteobacteria - classification</topic><topic>Proteobacteria - enzymology</topic><topic>Proteobacteria - genetics</topic><topic>Time Factors</topic><topic>Volcanic Eruptions</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Dunfield, Kari E.</creatorcontrib><creatorcontrib>King, Gary M.</creatorcontrib><collection>Istex</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Environmental Sciences and Pollution Management</collection><collection>MEDLINE - Academic</collection><jtitle>Environmental microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Dunfield, Kari E.</au><au>King, Gary M.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysis of the distribution and diversity in recent Hawaiian volcanic deposits of a putative carbon monoxide dehydrogenase large subunit gene</atitle><jtitle>Environmental microbiology</jtitle><addtitle>Environ Microbiol</addtitle><date>2005-09</date><risdate>2005</risdate><volume>7</volume><issue>9</issue><spage>1405</spage><epage>1412</epage><pages>1405-1412</pages><issn>1462-2912</issn><eissn>1462-2920</eissn><abstract>Summary
A putative carbon monoxide dehydrogenase large subunit gene (BMS putative coxL) was amplified from genomic DNA extracts of four recent (42–300 year old) Hawaiian volcanic deposits by polymerase chain reaction (PCR). Sequence databases derived from clone libraries constructed using PCR products were analysed phylogenetically and statistically. These analyses indicated that each of the deposits supported distinct BMS putative coxL gene assemblages. Statistical analyses also showed that the youngest deposit (42 years old) contained the least diverse sequences (P < 0.05), but that diversity did not vary significantly among three older deposits with ages from about 108–300 years. Although diversity indices did not vary among the older deposits, mismatch analyses suggested population structures increased in complexity with increasing deposit age. At each of the sites, most of the clone sequences appeared to originate from Proteobacteria not currently represented in culture or recognized as CO oxidizers.</abstract><cop>Oxford, UK</cop><pub>Blackwell Science Ltd</pub><pmid>16104863</pmid><doi>10.1111/j.1462-2920.2005.00827.x</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Environmental microbiology, 2005-09, Vol.7 (9), p.1405-1412 |
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| language | eng |
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| source | MEDLINE; Wiley Journals |
| subjects | Aldehyde Oxidoreductases - genetics Bacterial Proteins - genetics Base Sequence DNA, Bacterial - analysis Genetic Variation Geologic Sediments - microbiology Hawaii Molecular Sequence Data Multienzyme Complexes - genetics Phylogeny Polymerase Chain Reaction Protein Subunits - genetics Proteobacteria - classification Proteobacteria - enzymology Proteobacteria - genetics Time Factors Volcanic Eruptions |
| title | Analysis of the distribution and diversity in recent Hawaiian volcanic deposits of a putative carbon monoxide dehydrogenase large subunit gene |
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