Electron transfer followed by collision-induced dissociation (NET-CID) for generating sequence information from backbone-modified oligonucleotide anions.
Identifieur interne : 000A12 ( Ncbi/Merge ); précédent : 000A11; suivant : 000A13Electron transfer followed by collision-induced dissociation (NET-CID) for generating sequence information from backbone-modified oligonucleotide anions.
Auteurs : Yang Gao [États-Unis] ; Scott A. McluckeySource :
- Rapid communications in mass spectrometry : RCM [ 1097-0231 ] ; 2013.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , chemistry : Anions, Oligonucleotides.
- methods : Tandem Mass Spectrometry.
- Models, Molecular.
Abstract
Oligonucleotides with 2'-modifications and/or phosphorothioate (PS) backbones are prone to undergo limited backbone fragmentation upon ion trap collision-induced dissociation (CID). For better identification and characterization of chemically modified oligonucleotides, a more universal fragmentation method is desirable.
DOI: 10.1002/rcm.6428
PubMed: 23239339
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Electron transfer followed by collision-induced dissociation (NET-CID) for generating sequence information from backbone-modified oligonucleotide anions.</title><author><name sortKey="Gao, Yang" sort="Gao, Yang" uniqKey="Gao Y" first="Yang" last="Gao">Yang Gao</name><affiliation wicri:level="2"><nlm:affiliation>Department of Chemistry, Purdue University, West Lafayette, IN 47907-2084, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Chemistry, Purdue University, West Lafayette, IN 47907-2084</wicri:regionArea><placeName><region type="state">Indiana</region></placeName></affiliation></author><author><name sortKey="Mcluckey, Scott A" sort="Mcluckey, Scott A" uniqKey="Mcluckey S" first="Scott A" last="Mcluckey">Scott A. Mcluckey</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2013">2013</date><idno type="RBID">pubmed:23239339</idno><idno type="pmid">23239339</idno><idno type="doi">10.1002/rcm.6428</idno><idno type="wicri:Area/PubMed/Corpus">001D32</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001D32</idno><idno type="wicri:Area/PubMed/Curation">001D32</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001D32</idno><idno type="wicri:Area/PubMed/Checkpoint">001B57</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001B57</idno><idno type="wicri:Area/Ncbi/Merge">000A12</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Electron transfer followed by collision-induced dissociation (NET-CID) for generating sequence information from backbone-modified oligonucleotide anions.</title><author><name sortKey="Gao, Yang" sort="Gao, Yang" uniqKey="Gao Y" first="Yang" last="Gao">Yang Gao</name><affiliation wicri:level="2"><nlm:affiliation>Department of Chemistry, Purdue University, West Lafayette, IN 47907-2084, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Chemistry, Purdue University, West Lafayette, IN 47907-2084</wicri:regionArea><placeName><region type="state">Indiana</region></placeName></affiliation></author><author><name sortKey="Mcluckey, Scott A" sort="Mcluckey, Scott A" uniqKey="Mcluckey S" first="Scott A" last="Mcluckey">Scott A. Mcluckey</name></author></analytic><series><title level="j">Rapid communications in mass spectrometry : RCM</title><idno type="eISSN">1097-0231</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Anions (chemistry)</term><term>Models, Molecular</term><term>Oligonucleotides (chemistry)</term><term>Tandem Mass Spectrometry (methods)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Anions ()</term><term>Modèles moléculaires</term><term>Oligonucléotides ()</term><term>Spectrométrie de masse en tandem ()</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Anions</term><term>Oligonucleotides</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Tandem Mass Spectrometry</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Models, Molecular</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Anions</term><term>Modèles moléculaires</term><term>Oligonucléotides</term><term>Spectrométrie de masse en tandem</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Oligonucleotides with 2'-modifications and/or phosphorothioate (PS) backbones are prone to undergo limited backbone fragmentation upon ion trap collision-induced dissociation (CID). For better identification and characterization of chemically modified oligonucleotides, a more universal fragmentation method is desirable.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23239339</PMID><DateCompleted><Year>2013</Year><Month>04</Month><Day>29</Day></DateCompleted><DateRevised><Year>2012</Year><Month>12</Month><Day>14</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1097-0231</ISSN><JournalIssue CitedMedium="Internet"><Volume>27</Volume><Issue>1</Issue><PubDate><Year>2013</Year><Month>Jan</Month><Day>15</Day></PubDate></JournalIssue><Title>Rapid communications in mass spectrometry : RCM</Title><ISOAbbreviation>Rapid Commun. Mass Spectrom.</ISOAbbreviation></Journal><ArticleTitle>Electron transfer followed by collision-induced dissociation (NET-CID) for generating sequence information from backbone-modified oligonucleotide anions.</ArticleTitle><Pagination><MedlinePgn>249-57</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1002/rcm.6428</ELocationID><Abstract><AbstractText Label="RATIONALE" NlmCategory="BACKGROUND">Oligonucleotides with 2'-modifications and/or phosphorothioate (PS) backbones are prone to undergo limited backbone fragmentation upon ion trap collision-induced dissociation (CID). For better identification and characterization of chemically modified oligonucleotides, a more universal fragmentation method is desirable.</AbstractText><AbstractText Label="METHODS" NlmCategory="METHODS">Gas-phase dissociation of various 2'-position-modified oligonucleotides and mixed-backbone oligonucleotides (MBOs) has been studied by ion trap CID of the radical anion species formed via electron transfer ion/ion reactions.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">For 2'-modified mix-mer radical anions, complete sequence information was generated with non-complementary d/w-ion series, while a/z-ions were observed randomly with relatively low intensity. The 2'-position modification, which has been observed to affect CID patterns of oligonucleotide anions, did not exhibit any observable influence on the dissociation patterns of oligonucleotide radical anions. For MBOs comprised of DNA nucleotides, ion trap CID of even-electron species generated complementary a-B/w-type ions and multiple fragment types at the phosphorothioate (PS) linkages. For MBOs comprised of 2'-OMe-modified nucleotides, only PS bond cleavage was observed for ion trap CID of doubly deprotonated precursor ions. Negative electron transfer reaction with or without supplemental activation of MBOs gave rise to a/d/w-type fragments similar to those of the 2'-modified mix-mers. PS bonds were observed to be more fragile under the electron detachment process, and phosphodiester (PO) bond cleavages were noted upon further collisional activation.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">NET-CID proved to be an efficient method of generating full sequence information for 2'-modifications and/or mixed-backbone oligonucleotides.</AbstractText><CopyrightInformation>Copyright © 2012 John Wiley & Sons, Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Gao</LastName><ForeName>Yang</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Department of Chemistry, Purdue University, West Lafayette, IN 47907-2084, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>McLuckey</LastName><ForeName>Scott A</ForeName><Initials>SA</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Rapid Commun Mass Spectrom</MedlineTA><NlmUniqueID>8802365</NlmUniqueID><ISSNLinking>0951-4198</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D000838">Anions</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D009841">Oligonucleotides</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000838" MajorTopicYN="N">Anions</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008958" MajorTopicYN="N">Models, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009841" MajorTopicYN="N">Oligonucleotides</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D053719" MajorTopicYN="N">Tandem Mass Spectrometry</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2012</Year><Month>08</Month><Day>09</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2012</Year><Month>09</Month><Day>28</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2012</Year><Month>09</Month><Day>29</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2012</Year><Month>12</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2012</Year><Month>12</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2013</Year><Month>4</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">23239339</ArticleId><ArticleId IdType="doi">10.1002/rcm.6428</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Indiana</li></region></list><tree><noCountry><name sortKey="Mcluckey, Scott A" sort="Mcluckey, Scott A" uniqKey="Mcluckey S" first="Scott A" last="Mcluckey">Scott A. Mcluckey</name></noCountry><country name="États-Unis"><region name="Indiana"><name sortKey="Gao, Yang" sort="Gao, Yang" uniqKey="Gao Y" first="Yang" last="Gao">Yang Gao</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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