Enhanced In-Source Fragmentation in MALDI-TOF-MS of Oligonucleotides Using 1,5-Diaminonapthalene
The capability to rapidly and confidently determine or confirm the sequences of short oligonucleotides, including native and chemically-modified DNA and RNA, is important for a number of fields. While matrix-assisted laser desorption/ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) has...
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| Veröffentlicht in: | Journal of the American Society for Mass Spectrometry 2012-04, Vol.23 (4), p.773-777 |
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| creator | Hagan, Nathan A. Smith, Christine A. Antoine, Miquel D. Lin, Jeffrey S. Feldman, Andrew B. Demirev, Plamen A. |
| description | The capability to rapidly and confidently determine or confirm the sequences of short oligonucleotides, including native and chemically-modified DNA and RNA, is important for a number of fields. While matrix-assisted laser desorption/ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) has been used previously to sequence short oligonucleotides, the typically low fragmentation efficiency of in-source or post-source decay processes necessitates the accumulation of a large number of spectra, thus limiting the throughput of these methods. Here we introduce a novel matrix, 1,5-diaminonapthalene (DAN), for facile in-source decay (ISD) of DNA and RNA molecular anions, which allows for rapid sequence confirmation.
d
-,
w
-, and
y
-series ions are prominent in the spectra, complementary to the (
a
-B)- and
w
- ions that are typically produced by MALDI post-source decay (PSD). Results are shown for several model DNA and RNA oligonucleotides, including combinations of DAN-induced fragmentation with true tandem TOF MS (MS/MS) for pseudo-MS
3
and “activated-ion PSD.” |
| doi_str_mv | 10.1007/s13361-011-0333-3 |
| format | Article |
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d
-,
w
-, and
y
-series ions are prominent in the spectra, complementary to the (
a
-B)- and
w
- ions that are typically produced by MALDI post-source decay (PSD). Results are shown for several model DNA and RNA oligonucleotides, including combinations of DAN-induced fragmentation with true tandem TOF MS (MS/MS) for pseudo-MS
3
and “activated-ion PSD.”</description><identifier>ISSN: 1044-0305</identifier><identifier>EISSN: 1879-1123</identifier><identifier>DOI: 10.1007/s13361-011-0333-3</identifier><identifier>PMID: 22311728</identifier><language>eng</language><publisher>New York: Springer-Verlag</publisher><subject>2-Naphthylamine - analogs & derivatives ; 2-Naphthylamine - chemistry ; Analytical Chemistry ; Analytical, structural and metabolic biochemistry ; Anions - chemistry ; Application Note ; Bioinformatics ; Biological and medical sciences ; Biotechnology ; Chemistry ; Chemistry and Materials Science ; Decay ; Deoxyribonucleic acid ; Desorption ; DNA ; DNA - chemistry ; Dna, deoxyribonucleoproteins ; Fragmentation ; Fundamental and applied biological sciences. Psychology ; Gene sequencing ; Ionization ; Ions ; Lasers ; Mass spectrometry ; Models, Chemical ; Nucleic acids ; Oligonucleotides ; Oligonucleotides - chemistry ; Organic Chemistry ; Proteomics ; Ribonucleic acid ; RNA ; RNA - chemistry ; Rna, ribonucleoproteins ; Series (mathematics) ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods</subject><ispartof>Journal of the American Society for Mass Spectrometry, 2012-04, Vol.23 (4), p.773-777</ispartof><rights>American Society for Mass Spectrometry 2012</rights><rights>2015 INIST-CNRS</rights><rights>Journal of The American Society for Mass Spectrometry is a copyright of Springer, 2012.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c444t-d790e5aa56106c1bfcad39f0bcf5324e810c28e51e5f20f945b5fa92695a2743</citedby><cites>FETCH-LOGICAL-c444t-d790e5aa56106c1bfcad39f0bcf5324e810c28e51e5f20f945b5fa92695a2743</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/s13361-011-0333-3$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s13361-011-0333-3$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=25794951$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22311728$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Hagan, Nathan A.</creatorcontrib><creatorcontrib>Smith, Christine A.</creatorcontrib><creatorcontrib>Antoine, Miquel D.</creatorcontrib><creatorcontrib>Lin, Jeffrey S.</creatorcontrib><creatorcontrib>Feldman, Andrew B.</creatorcontrib><creatorcontrib>Demirev, Plamen A.</creatorcontrib><title>Enhanced In-Source Fragmentation in MALDI-TOF-MS of Oligonucleotides Using 1,5-Diaminonapthalene</title><title>Journal of the American Society for Mass Spectrometry</title><addtitle>J. Am. Soc. Mass Spectrom</addtitle><addtitle>J Am Soc Mass Spectrom</addtitle><description>The capability to rapidly and confidently determine or confirm the sequences of short oligonucleotides, including native and chemically-modified DNA and RNA, is important for a number of fields. While matrix-assisted laser desorption/ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) has been used previously to sequence short oligonucleotides, the typically low fragmentation efficiency of in-source or post-source decay processes necessitates the accumulation of a large number of spectra, thus limiting the throughput of these methods. Here we introduce a novel matrix, 1,5-diaminonapthalene (DAN), for facile in-source decay (ISD) of DNA and RNA molecular anions, which allows for rapid sequence confirmation.
d
-,
w
-, and
y
-series ions are prominent in the spectra, complementary to the (
a
-B)- and
w
- ions that are typically produced by MALDI post-source decay (PSD). Results are shown for several model DNA and RNA oligonucleotides, including combinations of DAN-induced fragmentation with true tandem TOF MS (MS/MS) for pseudo-MS
3
and “activated-ion PSD.”</description><subject>2-Naphthylamine - analogs & derivatives</subject><subject>2-Naphthylamine - chemistry</subject><subject>Analytical Chemistry</subject><subject>Analytical, structural and metabolic biochemistry</subject><subject>Anions - chemistry</subject><subject>Application Note</subject><subject>Bioinformatics</subject><subject>Biological and medical sciences</subject><subject>Biotechnology</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Decay</subject><subject>Deoxyribonucleic acid</subject><subject>Desorption</subject><subject>DNA</subject><subject>DNA - chemistry</subject><subject>Dna, deoxyribonucleoproteins</subject><subject>Fragmentation</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene sequencing</subject><subject>Ionization</subject><subject>Ions</subject><subject>Lasers</subject><subject>Mass spectrometry</subject><subject>Models, Chemical</subject><subject>Nucleic acids</subject><subject>Oligonucleotides</subject><subject>Oligonucleotides - chemistry</subject><subject>Organic Chemistry</subject><subject>Proteomics</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>RNA - chemistry</subject><subject>Rna, ribonucleoproteins</subject><subject>Series (mathematics)</subject><subject>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods</subject><issn>1044-0305</issn><issn>1879-1123</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>BENPR</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNp1kMtOAjEUQBujUUQ_wI2ZxLiz2tsHQ5dERUkgLMB1LZ0WS4YOtsPCv7cGfGxcNLfJPfd1ELoAcguElHcJGOsBJpAfYwyzA9SBfikxAGWH-U84zxkiTtBpSitCoCSyPEYnlDKAkvY76PUxvOlgbFWMAp4122hsMYx6ubah1a1vQuFDMRmMH0Z4Ph3iyaxoXDGt_bIJW1PbpvWVTcVL8mFZwI3AD16vfWiC3rRvurbBnqEjp-tkz_exi-bDx_n9Mx5Pn0b3gzE2nPMWV6UkVmgtekB6BhbO6IpJRxbGCUa57QMxtG8FWOEocZKLhXBa0p4UmpacddHVru0mNu9bm1q1yseEPFGBFETKfLDMFOwoE5uUonVqE_1axw8FRH0pVTulKitVX0oVyzWX-87bxdpWPxXfDjNwvQd0Mrp2Mfv06ZcTpeRSQObojks5FZY2_lnx3-mfV_qMHg</recordid><startdate>20120401</startdate><enddate>20120401</enddate><creator>Hagan, Nathan A.</creator><creator>Smith, Christine A.</creator><creator>Antoine, Miquel D.</creator><creator>Lin, Jeffrey S.</creator><creator>Feldman, Andrew B.</creator><creator>Demirev, Plamen A.</creator><general>Springer-Verlag</general><general>Elsevier</general><general>Springer Nature B.V</general><scope>IQODW</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>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FE</scope><scope>8FG</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>MBDVC</scope><scope>P5Z</scope><scope>P62</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope></search><sort><creationdate>20120401</creationdate><title>Enhanced In-Source Fragmentation in MALDI-TOF-MS of Oligonucleotides Using 1,5-Diaminonapthalene</title><author>Hagan, Nathan A. ; Smith, Christine A. ; Antoine, Miquel D. ; Lin, Jeffrey S. ; Feldman, Andrew B. ; Demirev, Plamen A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c444t-d790e5aa56106c1bfcad39f0bcf5324e810c28e51e5f20f945b5fa92695a2743</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>2-Naphthylamine - analogs & derivatives</topic><topic>2-Naphthylamine - chemistry</topic><topic>Analytical Chemistry</topic><topic>Analytical, structural and metabolic biochemistry</topic><topic>Anions - chemistry</topic><topic>Application Note</topic><topic>Bioinformatics</topic><topic>Biological and medical sciences</topic><topic>Biotechnology</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Decay</topic><topic>Deoxyribonucleic acid</topic><topic>Desorption</topic><topic>DNA</topic><topic>DNA - chemistry</topic><topic>Dna, deoxyribonucleoproteins</topic><topic>Fragmentation</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gene sequencing</topic><topic>Ionization</topic><topic>Ions</topic><topic>Lasers</topic><topic>Mass spectrometry</topic><topic>Models, Chemical</topic><topic>Nucleic acids</topic><topic>Oligonucleotides</topic><topic>Oligonucleotides - chemistry</topic><topic>Organic Chemistry</topic><topic>Proteomics</topic><topic>Ribonucleic acid</topic><topic>RNA</topic><topic>RNA - chemistry</topic><topic>Rna, ribonucleoproteins</topic><topic>Series (mathematics)</topic><topic>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Hagan, Nathan A.</creatorcontrib><creatorcontrib>Smith, Christine A.</creatorcontrib><creatorcontrib>Antoine, Miquel D.</creatorcontrib><creatorcontrib>Lin, Jeffrey S.</creatorcontrib><creatorcontrib>Feldman, Andrew B.</creatorcontrib><creatorcontrib>Demirev, Plamen A.</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>ProQuest Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Research Library (Alumni Edition)</collection><collection>ProQuest Central (Alumni)</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Database (1962 - current)</collection><collection>ProQuest Central Essentials</collection><collection>ProQuest Central</collection><collection>Technology Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>Research Library Prep</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>PML(ProQuest Medical Library)</collection><collection>ProQuest Research Library</collection><collection>Research Library (Corporate)</collection><collection>ProQuest advanced technologies & aerospace journals</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</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>ProQuest Central Basic</collection><jtitle>Journal of the American Society for Mass Spectrometry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Hagan, Nathan A.</au><au>Smith, Christine A.</au><au>Antoine, Miquel D.</au><au>Lin, Jeffrey S.</au><au>Feldman, Andrew B.</au><au>Demirev, Plamen A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Enhanced In-Source Fragmentation in MALDI-TOF-MS of Oligonucleotides Using 1,5-Diaminonapthalene</atitle><jtitle>Journal of the American Society for Mass Spectrometry</jtitle><stitle>J. Am. Soc. Mass Spectrom</stitle><addtitle>J Am Soc Mass Spectrom</addtitle><date>2012-04-01</date><risdate>2012</risdate><volume>23</volume><issue>4</issue><spage>773</spage><epage>777</epage><pages>773-777</pages><issn>1044-0305</issn><eissn>1879-1123</eissn><abstract>The capability to rapidly and confidently determine or confirm the sequences of short oligonucleotides, including native and chemically-modified DNA and RNA, is important for a number of fields. While matrix-assisted laser desorption/ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) has been used previously to sequence short oligonucleotides, the typically low fragmentation efficiency of in-source or post-source decay processes necessitates the accumulation of a large number of spectra, thus limiting the throughput of these methods. Here we introduce a novel matrix, 1,5-diaminonapthalene (DAN), for facile in-source decay (ISD) of DNA and RNA molecular anions, which allows for rapid sequence confirmation.
d
-,
w
-, and
y
-series ions are prominent in the spectra, complementary to the (
a
-B)- and
w
- ions that are typically produced by MALDI post-source decay (PSD). Results are shown for several model DNA and RNA oligonucleotides, including combinations of DAN-induced fragmentation with true tandem TOF MS (MS/MS) for pseudo-MS
3
and “activated-ion PSD.”</abstract><cop>New York</cop><pub>Springer-Verlag</pub><pmid>22311728</pmid><doi>10.1007/s13361-011-0333-3</doi><tpages>5</tpages><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 1044-0305 |
| ispartof | Journal of the American Society for Mass Spectrometry, 2012-04, Vol.23 (4), p.773-777 |
| issn | 1044-0305 1879-1123 |
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| subjects | 2-Naphthylamine - analogs & derivatives 2-Naphthylamine - chemistry Analytical Chemistry Analytical, structural and metabolic biochemistry Anions - chemistry Application Note Bioinformatics Biological and medical sciences Biotechnology Chemistry Chemistry and Materials Science Decay Deoxyribonucleic acid Desorption DNA DNA - chemistry Dna, deoxyribonucleoproteins Fragmentation Fundamental and applied biological sciences. Psychology Gene sequencing Ionization Ions Lasers Mass spectrometry Models, Chemical Nucleic acids Oligonucleotides Oligonucleotides - chemistry Organic Chemistry Proteomics Ribonucleic acid RNA RNA - chemistry Rna, ribonucleoproteins Series (mathematics) Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods |
| title | Enhanced In-Source Fragmentation in MALDI-TOF-MS of Oligonucleotides Using 1,5-Diaminonapthalene |
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