Conservation and divergence of chemical defense system in the tunicate Oikopleura dioica revealed by genome wide response to two xenobiotics.
Identifieur interne : 000585 ( PubMed/Corpus ); précédent : 000584; suivant : 000586Conservation and divergence of chemical defense system in the tunicate Oikopleura dioica revealed by genome wide response to two xenobiotics.
Auteurs : Fekadu Yadetie ; Stephen Butcher ; Hilde E. F Rde ; Coen Campsteijn ; Jean-Marie Bouquet ; Odd A. Karlsen ; France Denoeud ; Raghu Metpally ; Eric M. Thompson ; J Robert Manak ; Anders Goks Yr ; Daniel ChourroutSource :
- BMC genomics [ 1471-2164 ] ; 2012.
English descriptors
- KwdEn :
- Animals, Benzo(a)pyrene (pharmacology), Clofibrate (pharmacology), Cytochrome P-450 Enzyme System (classification), Cytochrome P-450 Enzyme System (genetics), Cytochrome P-450 Enzyme System (metabolism), Databases, Genetic, Gene Expression Regulation (drug effects), Gene Regulatory Networks, Genome, Inactivation, Metabolic (genetics), Urochordata (drug effects), Urochordata (genetics), Urochordata (metabolism), Xenobiotics (pharmacology).
- MESH :
- chemical , classification : Cytochrome P-450 Enzyme System.
- chemical , genetics : Cytochrome P-450 Enzyme System.
- chemical , metabolism : Cytochrome P-450 Enzyme System.
- chemical , pharmacology : Benzo(a)pyrene, Clofibrate, Xenobiotics.
- drug effects : Gene Expression Regulation, Urochordata.
- genetics : Inactivation, Metabolic, Urochordata.
- metabolism : Urochordata.
- Animals, Databases, Genetic, Gene Regulatory Networks, Genome.
Abstract
Animals have developed extensive mechanisms of response to xenobiotic chemical attacks. Although recent genome surveys have suggested a broad conservation of the chemical defensome across metazoans, global gene expression responses to xenobiotics have not been well investigated in most invertebrates. Here, we performed genome survey for key defensome genes in Oikopleura dioica genome, and explored genome-wide gene expression using high density tiling arrays with over 2 million probes, in response to two model xenobiotic chemicals - the carcinogenic polycyclic aromatic hydrocarbon benzo[a]pyrene (BaP) the pharmaceutical compound Clofibrate (Clo).
DOI: 10.1186/1471-2164-13-55
PubMed: 22300585
Links to Exploration step
pubmed:22300585Le document en format XML
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F Rde</name></author><author><name sortKey="Campsteijn, Coen" sort="Campsteijn, Coen" uniqKey="Campsteijn C" first="Coen" last="Campsteijn">Coen Campsteijn</name></author><author><name sortKey="Bouquet, Jean Marie" sort="Bouquet, Jean Marie" uniqKey="Bouquet J" first="Jean-Marie" last="Bouquet">Jean-Marie Bouquet</name></author><author><name sortKey="Karlsen, Odd A" sort="Karlsen, Odd A" uniqKey="Karlsen O" first="Odd A" last="Karlsen">Odd A. Karlsen</name></author><author><name sortKey="Denoeud, France" sort="Denoeud, France" uniqKey="Denoeud F" first="France" last="Denoeud">France Denoeud</name></author><author><name sortKey="Metpally, Raghu" sort="Metpally, Raghu" uniqKey="Metpally R" first="Raghu" last="Metpally">Raghu Metpally</name></author><author><name sortKey="Thompson, Eric M" sort="Thompson, Eric M" uniqKey="Thompson E" first="Eric M" last="Thompson">Eric M. Thompson</name></author><author><name sortKey="Manak, J Robert" sort="Manak, J Robert" uniqKey="Manak J" first="J Robert" last="Manak">J Robert Manak</name></author><author><name sortKey="Goks Yr, Anders" sort="Goks Yr, Anders" uniqKey="Goks Yr A" first="Anders" last="Goks Yr">Anders Goks Yr</name></author><author><name sortKey="Chourrout, Daniel" sort="Chourrout, Daniel" uniqKey="Chourrout D" first="Daniel" last="Chourrout">Daniel Chourrout</name></author></analytic><series><title level="j">BMC genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2012" type="published">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Benzo(a)pyrene (pharmacology)</term><term>Clofibrate (pharmacology)</term><term>Cytochrome P-450 Enzyme System (classification)</term><term>Cytochrome P-450 Enzyme System (genetics)</term><term>Cytochrome P-450 Enzyme System (metabolism)</term><term>Databases, Genetic</term><term>Gene Expression Regulation (drug effects)</term><term>Gene Regulatory Networks</term><term>Genome</term><term>Inactivation, Metabolic (genetics)</term><term>Urochordata (drug effects)</term><term>Urochordata (genetics)</term><term>Urochordata (metabolism)</term><term>Xenobiotics (pharmacology)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="classification" xml:lang="en"><term>Cytochrome P-450 Enzyme System</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Cytochrome P-450 Enzyme System</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Cytochrome P-450 Enzyme System</term></keywords><keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Benzo(a)pyrene</term><term>Clofibrate</term><term>Xenobiotics</term></keywords><keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Gene Expression Regulation</term><term>Urochordata</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Inactivation, Metabolic</term><term>Urochordata</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Urochordata</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Databases, Genetic</term><term>Gene Regulatory Networks</term><term>Genome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Animals have developed extensive mechanisms of response to xenobiotic chemical attacks. Although recent genome surveys have suggested a broad conservation of the chemical defensome across metazoans, global gene expression responses to xenobiotics have not been well investigated in most invertebrates. Here, we performed genome survey for key defensome genes in Oikopleura dioica genome, and explored genome-wide gene expression using high density tiling arrays with over 2 million probes, in response to two model xenobiotic chemicals - the carcinogenic polycyclic aromatic hydrocarbon benzo[a]pyrene (BaP) the pharmaceutical compound Clofibrate (Clo).</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">22300585</PMID><DateCompleted><Year>2012</Year><Month>05</Month><Day>23</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2164</ISSN><JournalIssue CitedMedium="Internet"><Volume>13</Volume><PubDate><Year>2012</Year><Month>Feb</Month><Day>02</Day></PubDate></JournalIssue><Title>BMC genomics</Title><ISOAbbreviation>BMC Genomics</ISOAbbreviation></Journal><ArticleTitle>Conservation and divergence of chemical defense system in the tunicate Oikopleura dioica revealed by genome wide response to two xenobiotics.</ArticleTitle><Pagination><MedlinePgn>55</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2164-13-55</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Animals have developed extensive mechanisms of response to xenobiotic chemical attacks. Although recent genome surveys have suggested a broad conservation of the chemical defensome across metazoans, global gene expression responses to xenobiotics have not been well investigated in most invertebrates. Here, we performed genome survey for key defensome genes in Oikopleura dioica genome, and explored genome-wide gene expression using high density tiling arrays with over 2 million probes, in response to two model xenobiotic chemicals - the carcinogenic polycyclic aromatic hydrocarbon benzo[a]pyrene (BaP) the pharmaceutical compound Clofibrate (Clo).</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">Oikopleura genome surveys for key genes of the chemical defensome suggested a reduced repertoire. Not more than 23 cytochrome P450 (CYP) genes could be identified, and neither CYP1 family genes nor their transcriptional activator AhR was detected. These two genes were present in deuterostome ancestors. As in vertebrates, the genotoxic compound BaP induced xenobiotic biotransformation and oxidative stress responsive genes. Notable exceptions were genes of the aryl hydrocarbon receptor (AhR) signaling pathway. Clo also affected the expression of many biotransformation genes and markedly repressed genes involved in energy metabolism and muscle contraction pathways.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Oikopleura has the smallest number of CYP genes among sequenced animal genomes and lacks the AhR signaling pathway. However it appears to have basic xenobiotic inducible biotransformation genes such as a conserved genotoxic stress response gene set. Our genome survey and expression study does not support a role of AhR signaling pathway in the chemical defense of metazoans prior to the emergence of vertebrates.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yadetie</LastName><ForeName>Fekadu</ForeName><Initials>F</Initials><AffiliationInfo><Affiliation>Sars International Centre for Marine Molecular Biology, University of Bergen, Bergen, Norway.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Butcher</LastName><ForeName>Stephen</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Førde</LastName><ForeName>Hilde E</ForeName><Initials>HE</Initials></Author><Author ValidYN="Y"><LastName>Campsteijn</LastName><ForeName>Coen</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Bouquet</LastName><ForeName>Jean-Marie</ForeName><Initials>JM</Initials></Author><Author ValidYN="Y"><LastName>Karlsen</LastName><ForeName>Odd A</ForeName><Initials>OA</Initials></Author><Author ValidYN="Y"><LastName>Denoeud</LastName><ForeName>France</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Metpally</LastName><ForeName>Raghu</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Thompson</LastName><ForeName>Eric M</ForeName><Initials>EM</Initials></Author><Author ValidYN="Y"><LastName>Manak</LastName><ForeName>J Robert</ForeName><Initials>JR</Initials></Author><Author ValidYN="Y"><LastName>Goksøyr</LastName><ForeName>Anders</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Chourrout</LastName><ForeName>Daniel</ForeName><Initials>D</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2012</Year><Month>02</Month><Day>02</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Genomics</MedlineTA><NlmUniqueID>100965258</NlmUniqueID><ISSNLinking>1471-2164</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D015262">Xenobiotics</NameOfSubstance></Chemical><Chemical><RegistryNumber>3417WMA06D</RegistryNumber><NameOfSubstance UI="D001564">Benzo(a)pyrene</NameOfSubstance></Chemical><Chemical><RegistryNumber>9035-51-2</RegistryNumber><NameOfSubstance UI="D003577">Cytochrome P-450 Enzyme System</NameOfSubstance></Chemical><Chemical><RegistryNumber>HPN91K7FU3</RegistryNumber><NameOfSubstance UI="D002994">Clofibrate</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000818" MajorTopicYN="N">Animals</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001564" MajorTopicYN="N">Benzo(a)pyrene</DescriptorName><QualifierName UI="Q000494" MajorTopicYN="Y">pharmacology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D002994" MajorTopicYN="N">Clofibrate</DescriptorName><QualifierName UI="Q000494" MajorTopicYN="Y">pharmacology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D003577" MajorTopicYN="N">Cytochrome P-450 Enzyme System</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D030541" MajorTopicYN="N">Databases, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005786" MajorTopicYN="N">Gene Expression Regulation</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="Y">drug effects</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D053263" MajorTopicYN="N">Gene Regulatory Networks</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016678" MajorTopicYN="Y">Genome</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008658" MajorTopicYN="N">Inactivation, Metabolic</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014561" MajorTopicYN="Y">Urochordata</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="N">drug effects</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015262" MajorTopicYN="N">Xenobiotics</DescriptorName><QualifierName UI="Q000494" MajorTopicYN="Y">pharmacology</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate 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