Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes
A taxonomic and annotated functional description of microbial life was deduced from 53 Mb of metagenomic sequence retrieved from a planktonic fraction of the Neotropical high Andean (3,973 meters above sea level) acidic hot spring El Coquito (EC). A classification of unassembled metagenomic reads us...
Gespeichert in:
| Veröffentlicht in: | PloS one 2012-12, Vol.7 (12), p.e52069 |
|---|---|
| Hauptverfasser: | , , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | |
|---|---|
| container_issue | 12 |
| container_start_page | e52069 |
| container_title | PloS one |
| container_volume | 7 |
| creator | Jiménez, Diego Javier Andreote, Fernando Dini Chaves, Diego Montaña, José Salvador Osorio-Forero, Cesar Junca, Howard Zambrano, María Mercedes Baena, Sandra |
| description | A taxonomic and annotated functional description of microbial life was deduced from 53 Mb of metagenomic sequence retrieved from a planktonic fraction of the Neotropical high Andean (3,973 meters above sea level) acidic hot spring El Coquito (EC). A classification of unassembled metagenomic reads using different databases showed a high proportion of Gammaproteobacteria and Alphaproteobacteria (in total read affiliation), and through taxonomic affiliation of 16S rRNA gene fragments we observed the presence of Proteobacteria, micro-algae chloroplast and Firmicutes. Reads mapped against the genomes Acidiphilium cryptum JF-5, Legionella pneumophila str. Corby and Acidithiobacillus caldus revealed the presence of transposase-like sequences, potentially involved in horizontal gene transfer. Functional annotation and hierarchical comparison with different datasets obtained by pyrosequencing in different ecosystems showed that the microbial community also contained extensive DNA repair systems, possibly to cope with ultraviolet radiation at such high altitudes. Analysis of genes involved in the nitrogen cycle indicated the presence of dissimilatory nitrate reduction to N2 (narGHI, nirS, norBCDQ and nosZ), associated with Proteobacteria-like sequences. Genes involved in the sulfur cycle (cysDN, cysNC and aprA) indicated adenylsulfate and sulfite production that were affiliated to several bacterial species. In summary, metagenomic sequence data provided insight regarding the structure and possible functions of this hot spring microbial community, describing some groups potentially involved in the nitrogen and sulfur cycling in this environment. |
| doi_str_mv | 10.1371/journal.pone.0052069 |
| format | Article |
| fullrecord | <record><control><sourceid>gale_plos_</sourceid><recordid>TN_cdi_plos_journals_1327146287</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><galeid>A477083527</galeid><doaj_id>oai_doaj_org_article_6fc619651d5d40cfbb8662728653cec8</doaj_id><sourcerecordid>A477083527</sourcerecordid><originalsourceid>FETCH-LOGICAL-c692t-b1f9a1bfdd4b29965171eb9a59052420f2b11b6b1a3a0f073d1f785cbae94c613</originalsourceid><addsrcrecordid>eNqNk9-L1DAQgIso3nn6H4gGBMGHXZukTdsXYVn8sXBw4KmvIUmTNmubrE0q3rt_uNPb3rEFBelDS_LNl8l0Jkme43SNaYHf7v04ONGtD97pdZrmJGXVg-QcV5SsGEnpw5Pvs-RJCHuAaMnY4-SMUJJjVhbnye_rOIwqjoPokHA1MqNT0XoQI-uCbdoYkBl8j2KrUa-jaLTzvUbeAI6EsrVVqPURhcNgXYN6qwYvLYQfOuG-R-9gX_m-H52NN-C8FW1953ugHNq4WoenySMjuqCfze-L5OuH91-2n1aXVx93283lSrGKxJXEphJYmrrOJKkqluMCa1mJvILbZyQ1RGIsmcSCitSkBa2xKcpcSaGrTDFML5KXR--h84HPBQwcU1LgjJGyAGJ3JGov9hyu1Ivhhnth-e2CHxouhmhVpzkzoJySqPM6S5WREmpLClKynCqtSnC9m08bZa9rpV2EKi-kyx1nW974n5zmhIAaBK9mweB_jDrEf6Q8U42ArKwzHmSqt0HxTVYUaQm6iVr_hYKn1vDLoIWMhfVFwJtFADBR_4qNGEPgu-vP_89efVuyr0_YVosutsF349R0YQlmRxAaKoRBm_vK4ZRPE3BXDT5NAJ8nAMJenFb9Puiu5ekfctcDFQ</addsrcrecordid><sourcetype>Open Website</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1327146287</pqid></control><display><type>article</type><title>Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes</title><source>Public Library of Science (PLoS) Journals Open Access</source><source>MEDLINE</source><source>DOAJ Directory of Open Access Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><source>Free Full-Text Journals in Chemistry</source><creator>Jiménez, Diego Javier ; Andreote, Fernando Dini ; Chaves, Diego ; Montaña, José Salvador ; Osorio-Forero, Cesar ; Junca, Howard ; Zambrano, María Mercedes ; Baena, Sandra</creator><creatorcontrib>Jiménez, Diego Javier ; Andreote, Fernando Dini ; Chaves, Diego ; Montaña, José Salvador ; Osorio-Forero, Cesar ; Junca, Howard ; Zambrano, María Mercedes ; Baena, Sandra</creatorcontrib><description>A taxonomic and annotated functional description of microbial life was deduced from 53 Mb of metagenomic sequence retrieved from a planktonic fraction of the Neotropical high Andean (3,973 meters above sea level) acidic hot spring El Coquito (EC). A classification of unassembled metagenomic reads using different databases showed a high proportion of Gammaproteobacteria and Alphaproteobacteria (in total read affiliation), and through taxonomic affiliation of 16S rRNA gene fragments we observed the presence of Proteobacteria, micro-algae chloroplast and Firmicutes. Reads mapped against the genomes Acidiphilium cryptum JF-5, Legionella pneumophila str. Corby and Acidithiobacillus caldus revealed the presence of transposase-like sequences, potentially involved in horizontal gene transfer. Functional annotation and hierarchical comparison with different datasets obtained by pyrosequencing in different ecosystems showed that the microbial community also contained extensive DNA repair systems, possibly to cope with ultraviolet radiation at such high altitudes. Analysis of genes involved in the nitrogen cycle indicated the presence of dissimilatory nitrate reduction to N2 (narGHI, nirS, norBCDQ and nosZ), associated with Proteobacteria-like sequences. Genes involved in the sulfur cycle (cysDN, cysNC and aprA) indicated adenylsulfate and sulfite production that were affiliated to several bacterial species. In summary, metagenomic sequence data provided insight regarding the structure and possible functions of this hot spring microbial community, describing some groups potentially involved in the nitrogen and sulfur cycling in this environment.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0052069</identifier><identifier>PMID: 23251687</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Algae ; Annotations ; Bacteria ; Bacteria - classification ; Bacteria - genetics ; Biogeochemical cycles ; Bioinformatics ; Biology ; Chloroplasts - genetics ; Communities ; Deoxyribonucleic acid ; DNA ; DNA repair ; Ecology ; Ecosystem ; Ecosystems ; Gene sequencing ; Gene transfer ; Gene Transfer, Horizontal ; Genes ; Genetics ; Genomes ; Genomics ; High-altitude environments ; Hot springs ; Hot Springs - microbiology ; Legionnaires' disease bacterium ; Measuring instruments ; Metagenome ; Microalgae - genetics ; Microorganisms ; National parks ; Nitrate reduction ; Nitrification ; Nitrogen ; Nitrogen cycle ; Plankton - classification ; Plankton - genetics ; Proteobacteria ; RNA ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Sea level ; Sequence Analysis, DNA - methods ; Soil sciences ; Structure-function relationships ; Studies ; Sulfite ; Sulfur ; Sulfur compounds ; Sulfur cycle ; Taxonomy ; Transposase ; U.V. radiation ; Ultraviolet radiation</subject><ispartof>PloS one, 2012-12, Vol.7 (12), p.e52069</ispartof><rights>COPYRIGHT 2012 Public Library of Science</rights><rights>2012 Jiménez et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2012 Jiménez et al 2012 Jiménez et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-b1f9a1bfdd4b29965171eb9a59052420f2b11b6b1a3a0f073d1f785cbae94c613</citedby><cites>FETCH-LOGICAL-c692t-b1f9a1bfdd4b29965171eb9a59052420f2b11b6b1a3a0f073d1f785cbae94c613</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3522619/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3522619/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79343,79344</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23251687$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Jiménez, Diego Javier</creatorcontrib><creatorcontrib>Andreote, Fernando Dini</creatorcontrib><creatorcontrib>Chaves, Diego</creatorcontrib><creatorcontrib>Montaña, José Salvador</creatorcontrib><creatorcontrib>Osorio-Forero, Cesar</creatorcontrib><creatorcontrib>Junca, Howard</creatorcontrib><creatorcontrib>Zambrano, María Mercedes</creatorcontrib><creatorcontrib>Baena, Sandra</creatorcontrib><title>Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>A taxonomic and annotated functional description of microbial life was deduced from 53 Mb of metagenomic sequence retrieved from a planktonic fraction of the Neotropical high Andean (3,973 meters above sea level) acidic hot spring El Coquito (EC). A classification of unassembled metagenomic reads using different databases showed a high proportion of Gammaproteobacteria and Alphaproteobacteria (in total read affiliation), and through taxonomic affiliation of 16S rRNA gene fragments we observed the presence of Proteobacteria, micro-algae chloroplast and Firmicutes. Reads mapped against the genomes Acidiphilium cryptum JF-5, Legionella pneumophila str. Corby and Acidithiobacillus caldus revealed the presence of transposase-like sequences, potentially involved in horizontal gene transfer. Functional annotation and hierarchical comparison with different datasets obtained by pyrosequencing in different ecosystems showed that the microbial community also contained extensive DNA repair systems, possibly to cope with ultraviolet radiation at such high altitudes. Analysis of genes involved in the nitrogen cycle indicated the presence of dissimilatory nitrate reduction to N2 (narGHI, nirS, norBCDQ and nosZ), associated with Proteobacteria-like sequences. Genes involved in the sulfur cycle (cysDN, cysNC and aprA) indicated adenylsulfate and sulfite production that were affiliated to several bacterial species. In summary, metagenomic sequence data provided insight regarding the structure and possible functions of this hot spring microbial community, describing some groups potentially involved in the nitrogen and sulfur cycling in this environment.</description><subject>Algae</subject><subject>Annotations</subject><subject>Bacteria</subject><subject>Bacteria - classification</subject><subject>Bacteria - genetics</subject><subject>Biogeochemical cycles</subject><subject>Bioinformatics</subject><subject>Biology</subject><subject>Chloroplasts - genetics</subject><subject>Communities</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA repair</subject><subject>Ecology</subject><subject>Ecosystem</subject><subject>Ecosystems</subject><subject>Gene sequencing</subject><subject>Gene transfer</subject><subject>Gene Transfer, Horizontal</subject><subject>Genes</subject><subject>Genetics</subject><subject>Genomes</subject><subject>Genomics</subject><subject>High-altitude environments</subject><subject>Hot springs</subject><subject>Hot Springs - microbiology</subject><subject>Legionnaires' disease bacterium</subject><subject>Measuring instruments</subject><subject>Metagenome</subject><subject>Microalgae - genetics</subject><subject>Microorganisms</subject><subject>National parks</subject><subject>Nitrate reduction</subject><subject>Nitrification</subject><subject>Nitrogen</subject><subject>Nitrogen cycle</subject><subject>Plankton - classification</subject><subject>Plankton - genetics</subject><subject>Proteobacteria</subject><subject>RNA</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>rRNA 16S</subject><subject>Sea level</subject><subject>Sequence Analysis, DNA - methods</subject><subject>Soil sciences</subject><subject>Structure-function relationships</subject><subject>Studies</subject><subject>Sulfite</subject><subject>Sulfur</subject><subject>Sulfur compounds</subject><subject>Sulfur cycle</subject><subject>Taxonomy</subject><subject>Transposase</subject><subject>U.V. radiation</subject><subject>Ultraviolet radiation</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk9-L1DAQgIso3nn6H4gGBMGHXZukTdsXYVn8sXBw4KmvIUmTNmubrE0q3rt_uNPb3rEFBelDS_LNl8l0Jkme43SNaYHf7v04ONGtD97pdZrmJGXVg-QcV5SsGEnpw5Pvs-RJCHuAaMnY4-SMUJJjVhbnye_rOIwqjoPokHA1MqNT0XoQI-uCbdoYkBl8j2KrUa-jaLTzvUbeAI6EsrVVqPURhcNgXYN6qwYvLYQfOuG-R-9gX_m-H52NN-C8FW1953ugHNq4WoenySMjuqCfze-L5OuH91-2n1aXVx93283lSrGKxJXEphJYmrrOJKkqluMCa1mJvILbZyQ1RGIsmcSCitSkBa2xKcpcSaGrTDFML5KXR--h84HPBQwcU1LgjJGyAGJ3JGov9hyu1Ivhhnth-e2CHxouhmhVpzkzoJySqPM6S5WREmpLClKynCqtSnC9m08bZa9rpV2EKi-kyx1nW974n5zmhIAaBK9mweB_jDrEf6Q8U42ArKwzHmSqt0HxTVYUaQm6iVr_hYKn1vDLoIWMhfVFwJtFADBR_4qNGEPgu-vP_89efVuyr0_YVosutsF349R0YQlmRxAaKoRBm_vK4ZRPE3BXDT5NAJ8nAMJenFb9Puiu5ekfctcDFQ</recordid><startdate>20121214</startdate><enddate>20121214</enddate><creator>Jiménez, Diego Javier</creator><creator>Andreote, Fernando Dini</creator><creator>Chaves, Diego</creator><creator>Montaña, José Salvador</creator><creator>Osorio-Forero, Cesar</creator><creator>Junca, Howard</creator><creator>Zambrano, María Mercedes</creator><creator>Baena, Sandra</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><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>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20121214</creationdate><title>Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes</title><author>Jiménez, Diego Javier ; Andreote, Fernando Dini ; Chaves, Diego ; Montaña, José Salvador ; Osorio-Forero, Cesar ; Junca, Howard ; Zambrano, María Mercedes ; Baena, Sandra</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-b1f9a1bfdd4b29965171eb9a59052420f2b11b6b1a3a0f073d1f785cbae94c613</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Algae</topic><topic>Annotations</topic><topic>Bacteria</topic><topic>Bacteria - classification</topic><topic>Bacteria - genetics</topic><topic>Biogeochemical cycles</topic><topic>Bioinformatics</topic><topic>Biology</topic><topic>Chloroplasts - genetics</topic><topic>Communities</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA repair</topic><topic>Ecology</topic><topic>Ecosystem</topic><topic>Ecosystems</topic><topic>Gene sequencing</topic><topic>Gene transfer</topic><topic>Gene Transfer, Horizontal</topic><topic>Genes</topic><topic>Genetics</topic><topic>Genomes</topic><topic>Genomics</topic><topic>High-altitude environments</topic><topic>Hot springs</topic><topic>Hot Springs - microbiology</topic><topic>Legionnaires' disease bacterium</topic><topic>Measuring instruments</topic><topic>Metagenome</topic><topic>Microalgae - genetics</topic><topic>Microorganisms</topic><topic>National parks</topic><topic>Nitrate reduction</topic><topic>Nitrification</topic><topic>Nitrogen</topic><topic>Nitrogen cycle</topic><topic>Plankton - classification</topic><topic>Plankton - genetics</topic><topic>Proteobacteria</topic><topic>RNA</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>rRNA 16S</topic><topic>Sea level</topic><topic>Sequence Analysis, DNA - methods</topic><topic>Soil sciences</topic><topic>Structure-function relationships</topic><topic>Studies</topic><topic>Sulfite</topic><topic>Sulfur</topic><topic>Sulfur compounds</topic><topic>Sulfur cycle</topic><topic>Taxonomy</topic><topic>Transposase</topic><topic>U.V. radiation</topic><topic>Ultraviolet radiation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Jiménez, Diego Javier</creatorcontrib><creatorcontrib>Andreote, Fernando Dini</creatorcontrib><creatorcontrib>Chaves, Diego</creatorcontrib><creatorcontrib>Montaña, José Salvador</creatorcontrib><creatorcontrib>Osorio-Forero, Cesar</creatorcontrib><creatorcontrib>Junca, Howard</creatorcontrib><creatorcontrib>Zambrano, María Mercedes</creatorcontrib><creatorcontrib>Baena, Sandra</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Opposing Viewpoints in Context (Gale)</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Proquest Nursing & Allied Health Source</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Meteorological & Geoastrophysical Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Materials Science & Engineering Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Materials Science Collection</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Materials Science Database</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Meteorological & Geoastrophysical Abstracts - Academic</collection><collection>ProQuest Engineering Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Engineering Database</collection><collection>Nursing & Allied Health Premium</collection><collection>Advanced Technologies & Aerospace Database</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental Science Database</collection><collection>Materials Science Collection</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Engineering Collection</collection><collection>Environmental Science Collection</collection><collection>Genetics Abstracts</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Jiménez, Diego Javier</au><au>Andreote, Fernando Dini</au><au>Chaves, Diego</au><au>Montaña, José Salvador</au><au>Osorio-Forero, Cesar</au><au>Junca, Howard</au><au>Zambrano, María Mercedes</au><au>Baena, Sandra</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2012-12-14</date><risdate>2012</risdate><volume>7</volume><issue>12</issue><spage>e52069</spage><pages>e52069-</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>A taxonomic and annotated functional description of microbial life was deduced from 53 Mb of metagenomic sequence retrieved from a planktonic fraction of the Neotropical high Andean (3,973 meters above sea level) acidic hot spring El Coquito (EC). A classification of unassembled metagenomic reads using different databases showed a high proportion of Gammaproteobacteria and Alphaproteobacteria (in total read affiliation), and through taxonomic affiliation of 16S rRNA gene fragments we observed the presence of Proteobacteria, micro-algae chloroplast and Firmicutes. Reads mapped against the genomes Acidiphilium cryptum JF-5, Legionella pneumophila str. Corby and Acidithiobacillus caldus revealed the presence of transposase-like sequences, potentially involved in horizontal gene transfer. Functional annotation and hierarchical comparison with different datasets obtained by pyrosequencing in different ecosystems showed that the microbial community also contained extensive DNA repair systems, possibly to cope with ultraviolet radiation at such high altitudes. Analysis of genes involved in the nitrogen cycle indicated the presence of dissimilatory nitrate reduction to N2 (narGHI, nirS, norBCDQ and nosZ), associated with Proteobacteria-like sequences. Genes involved in the sulfur cycle (cysDN, cysNC and aprA) indicated adenylsulfate and sulfite production that were affiliated to several bacterial species. In summary, metagenomic sequence data provided insight regarding the structure and possible functions of this hot spring microbial community, describing some groups potentially involved in the nitrogen and sulfur cycling in this environment.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>23251687</pmid><doi>10.1371/journal.pone.0052069</doi><tpages>e52069</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2012-12, Vol.7 (12), p.e52069 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1327146287 |
| source | Public Library of Science (PLoS) Journals Open Access; MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Algae Annotations Bacteria Bacteria - classification Bacteria - genetics Biogeochemical cycles Bioinformatics Biology Chloroplasts - genetics Communities Deoxyribonucleic acid DNA DNA repair Ecology Ecosystem Ecosystems Gene sequencing Gene transfer Gene Transfer, Horizontal Genes Genetics Genomes Genomics High-altitude environments Hot springs Hot Springs - microbiology Legionnaires' disease bacterium Measuring instruments Metagenome Microalgae - genetics Microorganisms National parks Nitrate reduction Nitrification Nitrogen Nitrogen cycle Plankton - classification Plankton - genetics Proteobacteria RNA RNA, Ribosomal, 16S - genetics rRNA 16S Sea level Sequence Analysis, DNA - methods Soil sciences Structure-function relationships Studies Sulfite Sulfur Sulfur compounds Sulfur cycle Taxonomy Transposase U.V. radiation Ultraviolet radiation |
| title | Structural and functional insights from the metagenome of an acidic hot spring microbial planktonic community in the Colombian Andes |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-01T13%3A01%3A58IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Structural%20and%20functional%20insights%20from%20the%20metagenome%20of%20an%20acidic%20hot%20spring%20microbial%20planktonic%20community%20in%20the%20Colombian%20Andes&rft.jtitle=PloS%20one&rft.au=Jim%C3%A9nez,%20Diego%20Javier&rft.date=2012-12-14&rft.volume=7&rft.issue=12&rft.spage=e52069&rft.pages=e52069-&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0052069&rft_dat=%3Cgale_plos_%3EA477083527%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1327146287&rft_id=info:pmid/23251687&rft_galeid=A477083527&rft_doaj_id=oai_doaj_org_article_6fc619651d5d40cfbb8662728653cec8&rfr_iscdi=true |