The GMOseek matrix: a decision support tool for optimizing the detection of genetically modified plants.
Identifieur interne : 000043 ( PubMed/Curation ); précédent : 000042; suivant : 000044The GMOseek matrix: a decision support tool for optimizing the detection of genetically modified plants.
Auteurs : Annette Block [Belgique] ; Frédéric Debode ; Lutz Grohmann ; Julie Hulin ; Isabel Taverniers ; Linda Kluga ; Elodie Barbau-Piednoir ; Sylvia Broeders ; Ingrid Huber ; Marc Van Den Bulcke ; Petra Heinze ; Gilbert Berben ; Ulrich Busch ; Nancy Roosens ; Eric Janssen ; Jana Žel ; Kristina Gruden ; Dany MorissetSource :
- BMC bioinformatics [ 1471-2105 ] ; 2013.
English descriptors
- KwdEn :
- MESH :
- genetics : Plants, Genetically Modified.
- methods : Polymerase Chain Reaction.
- Base Sequence, Decision Support Techniques, Genes, Plant.
Abstract
Since their first commercialization, the diversity of taxa and the genetic composition of transgene sequences in genetically modified plants (GMOs) are constantly increasing. To date, the detection of GMOs and derived products is commonly performed by PCR-based methods targeting specific DNA sequences introduced into the host genome. Information available regarding the GMOs' molecular characterization is dispersed and not appropriately organized. For this reason, GMO testing is very challenging and requires more complex screening strategies and decision making schemes, demanding in return the use of efficient bioinformatics tools relying on reliable information.
DOI: 10.1186/1471-2105-14-256
PubMed: 23965170
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last="Hulin">Julie Hulin</name></author><author><name sortKey="Taverniers, Isabel" sort="Taverniers, Isabel" uniqKey="Taverniers I" first="Isabel" last="Taverniers">Isabel Taverniers</name></author><author><name sortKey="Kluga, Linda" sort="Kluga, Linda" uniqKey="Kluga L" first="Linda" last="Kluga">Linda Kluga</name></author><author><name sortKey="Barbau Piednoir, Elodie" sort="Barbau Piednoir, Elodie" uniqKey="Barbau Piednoir E" first="Elodie" last="Barbau-Piednoir">Elodie Barbau-Piednoir</name></author><author><name sortKey="Broeders, Sylvia" sort="Broeders, Sylvia" uniqKey="Broeders S" first="Sylvia" last="Broeders">Sylvia Broeders</name></author><author><name sortKey="Huber, Ingrid" sort="Huber, Ingrid" uniqKey="Huber I" first="Ingrid" last="Huber">Ingrid Huber</name></author><author><name sortKey="Van Den Bulcke, Marc" sort="Van Den Bulcke, Marc" uniqKey="Van Den Bulcke M" first="Marc" last="Van Den Bulcke">Marc Van Den Bulcke</name></author><author><name sortKey="Heinze, Petra" 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last="Morisset">Dany Morisset</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2013">2013</date><idno type="RBID">pubmed:23965170</idno><idno type="pmid">23965170</idno><idno type="doi">10.1186/1471-2105-14-256</idno><idno type="wicri:Area/PubMed/Corpus">000043</idno><idno type="wicri:Area/PubMed/Curation">000043</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">The GMOseek matrix: a decision support tool for optimizing the detection of genetically modified plants.</title><author><name sortKey="Block, Annette" sort="Block, Annette" uniqKey="Block A" first="Annette" last="Block">Annette Block</name><affiliation wicri:level="1"><nlm:affiliation>Walloon Agricultural Research Centre (CRA-W), Gembloux, Belgium. debode@cra.wallonie.be.</nlm:affiliation><country xml:lang="fr">Belgique</country><wicri:regionArea>Walloon Agricultural Research Centre (CRA-W), Gembloux</wicri:regionArea></affiliation></author><author><name sortKey="Debode, Frederic" sort="Debode, Frederic" uniqKey="Debode F" first="Frédéric" last="Debode">Frédéric Debode</name></author><author><name sortKey="Grohmann, Lutz" sort="Grohmann, Lutz" uniqKey="Grohmann L" first="Lutz" last="Grohmann">Lutz Grohmann</name></author><author><name sortKey="Hulin, Julie" sort="Hulin, Julie" uniqKey="Hulin J" first="Julie" last="Hulin">Julie Hulin</name></author><author><name sortKey="Taverniers, Isabel" sort="Taverniers, Isabel" uniqKey="Taverniers I" first="Isabel" last="Taverniers">Isabel Taverniers</name></author><author><name sortKey="Kluga, Linda" sort="Kluga, Linda" uniqKey="Kluga L" first="Linda" last="Kluga">Linda Kluga</name></author><author><name sortKey="Barbau Piednoir, Elodie" sort="Barbau Piednoir, Elodie" uniqKey="Barbau Piednoir E" first="Elodie" last="Barbau-Piednoir">Elodie Barbau-Piednoir</name></author><author><name sortKey="Broeders, Sylvia" sort="Broeders, Sylvia" uniqKey="Broeders S" first="Sylvia" last="Broeders">Sylvia Broeders</name></author><author><name sortKey="Huber, Ingrid" sort="Huber, Ingrid" uniqKey="Huber I" first="Ingrid" last="Huber">Ingrid Huber</name></author><author><name sortKey="Van Den Bulcke, Marc" sort="Van Den Bulcke, Marc" uniqKey="Van Den Bulcke M" first="Marc" last="Van Den Bulcke">Marc Van Den Bulcke</name></author><author><name sortKey="Heinze, Petra" sort="Heinze, Petra" uniqKey="Heinze P" first="Petra" last="Heinze">Petra Heinze</name></author><author><name sortKey="Berben, Gilbert" sort="Berben, Gilbert" uniqKey="Berben G" first="Gilbert" last="Berben">Gilbert Berben</name></author><author><name sortKey="Busch, Ulrich" sort="Busch, Ulrich" uniqKey="Busch U" first="Ulrich" last="Busch">Ulrich Busch</name></author><author><name sortKey="Roosens, Nancy" sort="Roosens, Nancy" uniqKey="Roosens N" first="Nancy" last="Roosens">Nancy Roosens</name></author><author><name sortKey="Janssen, Eric" sort="Janssen, Eric" uniqKey="Janssen E" first="Eric" last="Janssen">Eric Janssen</name></author><author><name sortKey="Zel, Jana" sort="Zel, Jana" uniqKey="Zel J" first="Jana" last="Žel">Jana Žel</name></author><author><name sortKey="Gruden, Kristina" sort="Gruden, Kristina" uniqKey="Gruden K" first="Kristina" last="Gruden">Kristina Gruden</name></author><author><name sortKey="Morisset, Dany" sort="Morisset, Dany" uniqKey="Morisset D" first="Dany" last="Morisset">Dany Morisset</name></author></analytic><series><title level="j">BMC bioinformatics</title><idno type="eISSN">1471-2105</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence</term><term>Decision Support Techniques</term><term>Genes, Plant</term><term>Plants, Genetically Modified (genetics)</term><term>Polymerase Chain Reaction (methods)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plants, Genetically Modified</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Decision Support Techniques</term><term>Genes, Plant</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Since their first commercialization, the diversity of taxa and the genetic composition of transgene sequences in genetically modified plants (GMOs) are constantly increasing. To date, the detection of GMOs and derived products is commonly performed by PCR-based methods targeting specific DNA sequences introduced into the host genome. Information available regarding the GMOs' molecular characterization is dispersed and not appropriately organized. For this reason, GMO testing is very challenging and requires more complex screening strategies and decision making schemes, demanding in return the use of efficient bioinformatics tools relying on reliable information.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23965170</PMID><DateCreated><Year>2013</Year><Month>8</Month><Day>27</Day></DateCreated><DateCompleted><Year>2014</Year><Month>02</Month><Day>28</Day></DateCompleted><DateRevised><Year>2015</Year><Month>4</Month><Day>23</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2105</ISSN><JournalIssue CitedMedium="Internet"><Volume>14</Volume><PubDate><Year>2013</Year><Month>Aug</Month><Day>22</Day></PubDate></JournalIssue><Title>BMC bioinformatics</Title><ISOAbbreviation>BMC Bioinformatics</ISOAbbreviation></Journal><ArticleTitle>The GMOseek matrix: a decision support tool for optimizing the detection of genetically modified plants.</ArticleTitle><Pagination><MedlinePgn>256</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2105-14-256</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Since their first commercialization, the diversity of taxa and the genetic composition of transgene sequences in genetically modified plants (GMOs) are constantly increasing. To date, the detection of GMOs and derived products is commonly performed by PCR-based methods targeting specific DNA sequences introduced into the host genome. Information available regarding the GMOs' molecular characterization is dispersed and not appropriately organized. For this reason, GMO testing is very challenging and requires more complex screening strategies and decision making schemes, demanding in return the use of efficient bioinformatics tools relying on reliable information.</AbstractText><AbstractText Label="DESCRIPTION" NlmCategory="METHODS">The GMOseek matrix was built as a comprehensive, online open-access tabulated database which provides a reliable, comprehensive and user-friendly overview of 328 GMO events and 247 different genetic elements (status: 18/07/2013). The GMOseek matrix is aiming to facilitate GMO detection from plant origin at different phases of the analysis. It assists in selecting the targets for a screening analysis, interpreting the screening results, checking the occurrence of a screening element in a group of selected GMOs, identifying gaps in the available pool of GMO detection methods, and designing a decision tree. The GMOseek matrix is an independent database with effective functionalities in a format facilitating transferability to other platforms. Data were collected from all available sources and experimentally tested where detection methods and certified reference materials (CRMs) were available.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">The GMOseek matrix is currently a unique and very valuable tool with reliable information on GMOs from plant origin and their present genetic elements that enables further development of appropriate strategies for GMO detection. It is flexible enough to be further updated with new information and integrated in different applications and platforms.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Block</LastName><ForeName>Annette</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Walloon Agricultural Research Centre (CRA-W), Gembloux, Belgium. debode@cra.wallonie.be.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Debode</LastName><ForeName>Frédéric</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Grohmann</LastName><ForeName>Lutz</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Hulin</LastName><ForeName>Julie</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Taverniers</LastName><ForeName>Isabel</ForeName><Initials>I</Initials></Author><Author ValidYN="Y"><LastName>Kluga</LastName><ForeName>Linda</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Barbau-Piednoir</LastName><ForeName>Elodie</ForeName><Initials>E</Initials></Author><Author ValidYN="Y"><LastName>Broeders</LastName><ForeName>Sylvia</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Huber</LastName><ForeName>Ingrid</ForeName><Initials>I</Initials></Author><Author ValidYN="Y"><LastName>Van den Bulcke</LastName><ForeName>Marc</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Heinze</LastName><ForeName>Petra</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Berben</LastName><ForeName>Gilbert</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Busch</LastName><ForeName>Ulrich</ForeName><Initials>U</Initials></Author><Author ValidYN="Y"><LastName>Roosens</LastName><ForeName>Nancy</ForeName><Initials>N</Initials></Author><Author ValidYN="Y"><LastName>Janssen</LastName><ForeName>Eric</ForeName><Initials>E</Initials></Author><Author ValidYN="Y"><LastName>Žel</LastName><ForeName>Jana</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Gruden</LastName><ForeName>Kristina</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Morisset</LastName><ForeName>Dany</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>2013</Year><Month>Aug</Month><Day>22</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Bioinformatics</MedlineTA><NlmUniqueID>100965194</NlmUniqueID><ISSNLinking>1471-2105</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><CommentsCorrectionsList><CommentsCorrections RefType="Cites"><RefSource>J AOAC Int. 2002 May-Jun;85(3):646-53</RefSource><PMID 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Modified</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016133" MajorTopicYN="N">Polymerase Chain Reaction</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading></MeshHeadingList><OtherID Source="NLM">PMC3765097</OtherID></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2013</Year><Month>2</Month><Day>14</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2013</Year><Month>8</Month><Day>6</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2013</Year><Month>8</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2013</Year><Month>8</Month><Day>24</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2014</Year><Month>3</Month><Day>1</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">23965170</ArticleId><ArticleId IdType="pii">1471-2105-14-256</ArticleId><ArticleId IdType="doi">10.1186/1471-2105-14-256</ArticleId><ArticleId IdType="pmc">PMC3765097</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
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