Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China
Indigenous oil-degrading bacteria play an important role in efficient remediation of polluted marine environments. In this study, we investigated the diversity and abundance of indigenous oil-degrading bacteria and functional genes in crude oil-contaminated seawater of the Dalian coast. The gene cop...
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| Veröffentlicht in: | Applied microbiology and biotechnology 2014-08, Vol.98 (16), p.7253-7269 |
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| creator | Wang, Wanpeng Zhong, Rongqiu Shan, Dapeng Shao, Zongze |
| description | Indigenous oil-degrading bacteria play an important role in efficient remediation of polluted marine environments. In this study, we investigated the diversity and abundance of indigenous oil-degrading bacteria and functional genes in crude oil-contaminated seawater of the Dalian coast. The gene copy number bacterial 16S rRNA in total were determined to be about 10¹⁰ copies L⁻¹ in contaminated seawater and 10⁹ copies L⁻¹ in uncontaminated seawater. Bacteria of Alcanivorax, Marinobacter, Novosphingobium, Rhodococcus, and Pseudoalteromonas were found to be predominant oil-degrading bacteria in the polluted seawater in situ. In addition, bacteria belonging to Algoriphagus, Aestuariibacter, Celeribacter, Fabibacter, Zobellia, Tenacibaculum, Citreicella, Roseivirga, Winogradskyella, Thioclava, Polaribacter, and Pelagibaca were confirmed to be the first time as an oil-degrading bacterium. The indigenous functional enzymes, including AlkB or polycyclic aromatic hydrocarbons ring-hydroxylating dioxygenases α (PAH-RHDα) coding genes from Gram-positive (GP) and Gram-negative bacteria (GN), were revealed and quite diverse. About 10¹⁰ to 10¹¹ copies L⁻¹ for the expression of alkB genes were recovered and showed that the two-thirds of all the AlkB sequences were closely related to widely distributed Alcanivorax and Marinobacter isolates. About 10⁹ copies L⁻¹ seawater for the expression of RHDαGN genes in contaminated seawater and showed that almost all RHDαGN sequences were closely related to an uncultured bacterium; however, RHDαGP genes represented only about 10⁵ copies L⁻¹ seawater for the expression of genes in contaminated seawater, and the naphthalene dioxygenase sequences from Rhodococcus and Mycobacterium species were most abundant. Together, their data provide evidence that there exists an active aerobic microbial community indigenous to the coastal area of the Yellow sea that is capable of degrading petroleum hydrocarbons. |
| doi_str_mv | 10.1007/s00253-014-5817-1 |
| format | Article |
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In this study, we investigated the diversity and abundance of indigenous oil-degrading bacteria and functional genes in crude oil-contaminated seawater of the Dalian coast. The gene copy number bacterial 16S rRNA in total were determined to be about 10¹⁰ copies L⁻¹ in contaminated seawater and 10⁹ copies L⁻¹ in uncontaminated seawater. Bacteria of Alcanivorax, Marinobacter, Novosphingobium, Rhodococcus, and Pseudoalteromonas were found to be predominant oil-degrading bacteria in the polluted seawater in situ. In addition, bacteria belonging to Algoriphagus, Aestuariibacter, Celeribacter, Fabibacter, Zobellia, Tenacibaculum, Citreicella, Roseivirga, Winogradskyella, Thioclava, Polaribacter, and Pelagibaca were confirmed to be the first time as an oil-degrading bacterium. The indigenous functional enzymes, including AlkB or polycyclic aromatic hydrocarbons ring-hydroxylating dioxygenases α (PAH-RHDα) coding genes from Gram-positive (GP) and Gram-negative bacteria (GN), were revealed and quite diverse. About 10¹⁰ to 10¹¹ copies L⁻¹ for the expression of alkB genes were recovered and showed that the two-thirds of all the AlkB sequences were closely related to widely distributed Alcanivorax and Marinobacter isolates. About 10⁹ copies L⁻¹ seawater for the expression of RHDαGN genes in contaminated seawater and showed that almost all RHDαGN sequences were closely related to an uncultured bacterium; however, RHDαGP genes represented only about 10⁵ copies L⁻¹ seawater for the expression of genes in contaminated seawater, and the naphthalene dioxygenase sequences from Rhodococcus and Mycobacterium species were most abundant. Together, their data provide evidence that there exists an active aerobic microbial community indigenous to the coastal area of the Yellow sea that is capable of degrading petroleum hydrocarbons.</description><identifier>ISSN: 0175-7598</identifier><identifier>EISSN: 1432-0614</identifier><identifier>DOI: 10.1007/s00253-014-5817-1</identifier><identifier>PMID: 24866944</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer-Verlag</publisher><subject>Alcanivorax ; Analysis ; Bacteria ; Bacteria - classification ; Bacteria - genetics ; Bacteria - isolation & purification ; Biodegradation ; Biodiversity ; Biomedical and Life Sciences ; Bioremediation ; Biotechnology ; China ; Cloning ; Cluster Analysis ; Coastal zone ; Coasts ; Contamination ; Crude oil ; Dioxygenases - genetics ; DNA, Bacterial - chemistry ; DNA, Bacterial - genetics ; DNA, Ribosomal - chemistry ; DNA, Ribosomal - genetics ; Environmental aspects ; Environmental Biotechnology ; enzymes ; Explosions ; Gene expression ; Gene sequencing ; Genes ; Genetic aspects ; Gram-negative bacteria ; Hydrocarbons ; Laboratories ; Life Sciences ; Marine environment ; Marine pollution ; Marinobacter ; microbial communities ; Microbial Genetics and Genomics ; Microbiology ; Mixed Function Oxygenases - genetics ; Molecular Sequence Data ; Mycobacterium ; Naphthalene ; Novosphingobium ; Oceanography ; Oil pollution ; Oil spills ; Petroleum ; Petroleum hydrocarbons ; Phylogeny ; Pipelines ; Polaribacter ; Polycyclic aromatic hydrocarbons ; Ports ; Pseudoalteromonas ; remediation ; Reproduction ; Rhodococcus ; ribosomal RNA ; RNA, Ribosomal, 16S - genetics ; Sea water ; Seawater ; Seawater - chemistry ; Seawater - microbiology ; Sequence Analysis, DNA ; Sphingomonas ; Studies ; Tenacibaculum ; Water Pollutants, Chemical ; Zobellia</subject><ispartof>Applied microbiology and biotechnology, 2014-08, Vol.98 (16), p.7253-7269</ispartof><rights>Springer-Verlag Berlin Heidelberg 2014</rights><rights>COPYRIGHT 2014 Springer</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c633t-e09a31713c8230c1c5338a08c9dfa0d4682b6d385d863636e97d8cfbd6e0ab8a3</citedby><cites>FETCH-LOGICAL-c633t-e09a31713c8230c1c5338a08c9dfa0d4682b6d385d863636e97d8cfbd6e0ab8a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00253-014-5817-1$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00253-014-5817-1$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,777,781,27905,27906,41469,42538,51300</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24866944$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Wang, Wanpeng</creatorcontrib><creatorcontrib>Zhong, Rongqiu</creatorcontrib><creatorcontrib>Shan, Dapeng</creatorcontrib><creatorcontrib>Shao, Zongze</creatorcontrib><title>Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China</title><title>Applied microbiology and biotechnology</title><addtitle>Appl Microbiol Biotechnol</addtitle><addtitle>Appl Microbiol Biotechnol</addtitle><description>Indigenous oil-degrading bacteria play an important role in efficient remediation of polluted marine environments. In this study, we investigated the diversity and abundance of indigenous oil-degrading bacteria and functional genes in crude oil-contaminated seawater of the Dalian coast. The gene copy number bacterial 16S rRNA in total were determined to be about 10¹⁰ copies L⁻¹ in contaminated seawater and 10⁹ copies L⁻¹ in uncontaminated seawater. Bacteria of Alcanivorax, Marinobacter, Novosphingobium, Rhodococcus, and Pseudoalteromonas were found to be predominant oil-degrading bacteria in the polluted seawater in situ. In addition, bacteria belonging to Algoriphagus, Aestuariibacter, Celeribacter, Fabibacter, Zobellia, Tenacibaculum, Citreicella, Roseivirga, Winogradskyella, Thioclava, Polaribacter, and Pelagibaca were confirmed to be the first time as an oil-degrading bacterium. The indigenous functional enzymes, including AlkB or polycyclic aromatic hydrocarbons ring-hydroxylating dioxygenases α (PAH-RHDα) coding genes from Gram-positive (GP) and Gram-negative bacteria (GN), were revealed and quite diverse. About 10¹⁰ to 10¹¹ copies L⁻¹ for the expression of alkB genes were recovered and showed that the two-thirds of all the AlkB sequences were closely related to widely distributed Alcanivorax and Marinobacter isolates. About 10⁹ copies L⁻¹ seawater for the expression of RHDαGN genes in contaminated seawater and showed that almost all RHDαGN sequences were closely related to an uncultured bacterium; however, RHDαGP genes represented only about 10⁵ copies L⁻¹ seawater for the expression of genes in contaminated seawater, and the naphthalene dioxygenase sequences from Rhodococcus and Mycobacterium species were most abundant. Together, their data provide evidence that there exists an active aerobic microbial community indigenous to the coastal area of the Yellow sea that is capable of degrading petroleum hydrocarbons.</description><subject>Alcanivorax</subject><subject>Analysis</subject><subject>Bacteria</subject><subject>Bacteria - classification</subject><subject>Bacteria - genetics</subject><subject>Bacteria - isolation & purification</subject><subject>Biodegradation</subject><subject>Biodiversity</subject><subject>Biomedical and Life Sciences</subject><subject>Bioremediation</subject><subject>Biotechnology</subject><subject>China</subject><subject>Cloning</subject><subject>Cluster Analysis</subject><subject>Coastal zone</subject><subject>Coasts</subject><subject>Contamination</subject><subject>Crude oil</subject><subject>Dioxygenases - genetics</subject><subject>DNA, Bacterial - chemistry</subject><subject>DNA, Bacterial - genetics</subject><subject>DNA, Ribosomal - chemistry</subject><subject>DNA, Ribosomal - genetics</subject><subject>Environmental aspects</subject><subject>Environmental Biotechnology</subject><subject>enzymes</subject><subject>Explosions</subject><subject>Gene expression</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Gram-negative bacteria</subject><subject>Hydrocarbons</subject><subject>Laboratories</subject><subject>Life Sciences</subject><subject>Marine environment</subject><subject>Marine pollution</subject><subject>Marinobacter</subject><subject>microbial communities</subject><subject>Microbial Genetics and Genomics</subject><subject>Microbiology</subject><subject>Mixed Function Oxygenases - genetics</subject><subject>Molecular Sequence Data</subject><subject>Mycobacterium</subject><subject>Naphthalene</subject><subject>Novosphingobium</subject><subject>Oceanography</subject><subject>Oil pollution</subject><subject>Oil spills</subject><subject>Petroleum</subject><subject>Petroleum hydrocarbons</subject><subject>Phylogeny</subject><subject>Pipelines</subject><subject>Polaribacter</subject><subject>Polycyclic aromatic hydrocarbons</subject><subject>Ports</subject><subject>Pseudoalteromonas</subject><subject>remediation</subject><subject>Reproduction</subject><subject>Rhodococcus</subject><subject>ribosomal RNA</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Sea water</subject><subject>Seawater</subject><subject>Seawater - chemistry</subject><subject>Seawater - microbiology</subject><subject>Sequence Analysis, DNA</subject><subject>Sphingomonas</subject><subject>Studies</subject><subject>Tenacibaculum</subject><subject>Water Pollutants, Chemical</subject><subject>Zobellia</subject><issn>0175-7598</issn><issn>1432-0614</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqNkstu1TAQhi0EoofCA7CBSGyKRIoviWMvq6MCR6qEROmCBbIce5K6SuxiJyq8PQ4pl4MQIC_Gmvlm7N_-EXpM8DHBuHmZMKY1KzGpylqQpiR30IZUjJaYk-ou2mDS1GVTS3GAHqR0hTGhgvP76IBWOcqq2qCPO29dDz7MqQhuKC30UVvn-6LVZoLodOF8YeJs4VvdBD_p0Xk9gS0S6Ju8iUXoiukSig8wDOFmSb8otpcZeojudXpI8Og2HqKLV6fvt2_Ks7evd9uTs9JwxqYSsNSMNIQZQRk2xNSMCY2FkbbT2FZc0JZbJmorOMsLZGOF6VrLAetWaHaIjta51zF8miFNanTJ5NtoD1mZIryijFEu6b_RmudnIrzG_4HWhNGGCpLRZ7-hV2GOPmteKJyPlxL_pHo9gHK-C1PUZhmqTrI6zGVDq0wd_4HKy8Lo8vtD53J-r-H5XsPyR_B56vWcktqdv9tnycqaGFKK0Knr6EYdvyiC1WIqtZpKZVOpxVRqEffkVtzcjmB_dHx3UQboCqRc8j3EX9T_ZerTtanTQek-uqQuzmkGsk15wyRnXwEIW9tj</recordid><startdate>20140801</startdate><enddate>20140801</enddate><creator>Wang, Wanpeng</creator><creator>Zhong, Rongqiu</creator><creator>Shan, Dapeng</creator><creator>Shao, Zongze</creator><general>Springer-Verlag</general><general>Springer Berlin Heidelberg</general><general>Springer</general><general>Springer Nature B.V</general><scope>FBQ</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>ISR</scope><scope>3V.</scope><scope>7QL</scope><scope>7T7</scope><scope>7WY</scope><scope>7WZ</scope><scope>7X7</scope><scope>7XB</scope><scope>87Z</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8FL</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BEZIV</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FRNLG</scope><scope>FYUFA</scope><scope>F~G</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K60</scope><scope>K6~</scope><scope>K9.</scope><scope>L.-</scope><scope>LK8</scope><scope>M0C</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQBIZ</scope><scope>PQBZA</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>7X8</scope><scope>7QO</scope><scope>7TV</scope><scope>7SU</scope><scope>7U5</scope><scope>F28</scope><scope>KR7</scope><scope>L7M</scope></search><sort><creationdate>20140801</creationdate><title>Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China</title><author>Wang, Wanpeng ; Zhong, Rongqiu ; Shan, Dapeng ; Shao, Zongze</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c633t-e09a31713c8230c1c5338a08c9dfa0d4682b6d385d863636e97d8cfbd6e0ab8a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2014</creationdate><topic>Alcanivorax</topic><topic>Analysis</topic><topic>Bacteria</topic><topic>Bacteria - classification</topic><topic>Bacteria - genetics</topic><topic>Bacteria - isolation & purification</topic><topic>Biodegradation</topic><topic>Biodiversity</topic><topic>Biomedical and Life Sciences</topic><topic>Bioremediation</topic><topic>Biotechnology</topic><topic>China</topic><topic>Cloning</topic><topic>Cluster Analysis</topic><topic>Coastal zone</topic><topic>Coasts</topic><topic>Contamination</topic><topic>Crude oil</topic><topic>Dioxygenases - genetics</topic><topic>DNA, Bacterial - chemistry</topic><topic>DNA, Bacterial - genetics</topic><topic>DNA, Ribosomal - chemistry</topic><topic>DNA, Ribosomal - genetics</topic><topic>Environmental aspects</topic><topic>Environmental Biotechnology</topic><topic>enzymes</topic><topic>Explosions</topic><topic>Gene expression</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Gram-negative bacteria</topic><topic>Hydrocarbons</topic><topic>Laboratories</topic><topic>Life Sciences</topic><topic>Marine environment</topic><topic>Marine pollution</topic><topic>Marinobacter</topic><topic>microbial communities</topic><topic>Microbial Genetics and Genomics</topic><topic>Microbiology</topic><topic>Mixed Function Oxygenases - 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In this study, we investigated the diversity and abundance of indigenous oil-degrading bacteria and functional genes in crude oil-contaminated seawater of the Dalian coast. The gene copy number bacterial 16S rRNA in total were determined to be about 10¹⁰ copies L⁻¹ in contaminated seawater and 10⁹ copies L⁻¹ in uncontaminated seawater. Bacteria of Alcanivorax, Marinobacter, Novosphingobium, Rhodococcus, and Pseudoalteromonas were found to be predominant oil-degrading bacteria in the polluted seawater in situ. In addition, bacteria belonging to Algoriphagus, Aestuariibacter, Celeribacter, Fabibacter, Zobellia, Tenacibaculum, Citreicella, Roseivirga, Winogradskyella, Thioclava, Polaribacter, and Pelagibaca were confirmed to be the first time as an oil-degrading bacterium. The indigenous functional enzymes, including AlkB or polycyclic aromatic hydrocarbons ring-hydroxylating dioxygenases α (PAH-RHDα) coding genes from Gram-positive (GP) and Gram-negative bacteria (GN), were revealed and quite diverse. About 10¹⁰ to 10¹¹ copies L⁻¹ for the expression of alkB genes were recovered and showed that the two-thirds of all the AlkB sequences were closely related to widely distributed Alcanivorax and Marinobacter isolates. About 10⁹ copies L⁻¹ seawater for the expression of RHDαGN genes in contaminated seawater and showed that almost all RHDαGN sequences were closely related to an uncultured bacterium; however, RHDαGP genes represented only about 10⁵ copies L⁻¹ seawater for the expression of genes in contaminated seawater, and the naphthalene dioxygenase sequences from Rhodococcus and Mycobacterium species were most abundant. Together, their data provide evidence that there exists an active aerobic microbial community indigenous to the coastal area of the Yellow sea that is capable of degrading petroleum hydrocarbons.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer-Verlag</pub><pmid>24866944</pmid><doi>10.1007/s00253-014-5817-1</doi><tpages>17</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0175-7598 |
| ispartof | Applied microbiology and biotechnology, 2014-08, Vol.98 (16), p.7253-7269 |
| issn | 0175-7598 1432-0614 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_1642332692 |
| source | MEDLINE; Springer Nature - Complete Springer Journals |
| subjects | Alcanivorax Analysis Bacteria Bacteria - classification Bacteria - genetics Bacteria - isolation & purification Biodegradation Biodiversity Biomedical and Life Sciences Bioremediation Biotechnology China Cloning Cluster Analysis Coastal zone Coasts Contamination Crude oil Dioxygenases - genetics DNA, Bacterial - chemistry DNA, Bacterial - genetics DNA, Ribosomal - chemistry DNA, Ribosomal - genetics Environmental aspects Environmental Biotechnology enzymes Explosions Gene expression Gene sequencing Genes Genetic aspects Gram-negative bacteria Hydrocarbons Laboratories Life Sciences Marine environment Marine pollution Marinobacter microbial communities Microbial Genetics and Genomics Microbiology Mixed Function Oxygenases - genetics Molecular Sequence Data Mycobacterium Naphthalene Novosphingobium Oceanography Oil pollution Oil spills Petroleum Petroleum hydrocarbons Phylogeny Pipelines Polaribacter Polycyclic aromatic hydrocarbons Ports Pseudoalteromonas remediation Reproduction Rhodococcus ribosomal RNA RNA, Ribosomal, 16S - genetics Sea water Seawater Seawater - chemistry Seawater - microbiology Sequence Analysis, DNA Sphingomonas Studies Tenacibaculum Water Pollutants, Chemical Zobellia |
| title | Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-20T07%3A31%3A54IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_proqu&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Indigenous%20oil-degrading%20bacteria%20in%20crude%20oil-contaminated%20seawater%20of%20the%20Yellow%20sea,%20China&rft.jtitle=Applied%20microbiology%20and%20biotechnology&rft.au=Wang,%20Wanpeng&rft.date=2014-08-01&rft.volume=98&rft.issue=16&rft.spage=7253&rft.epage=7269&rft.pages=7253-7269&rft.issn=0175-7598&rft.eissn=1432-0614&rft_id=info:doi/10.1007/s00253-014-5817-1&rft_dat=%3Cgale_proqu%3EA385069724%3C/gale_proqu%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1550642990&rft_id=info:pmid/24866944&rft_galeid=A385069724&rfr_iscdi=true |