Identification of brain-enriched proteins in the cerebrospinal fluid proteome by LC-MS/MS profiling and mining of the Human Protein Atlas
Identifieur interne : 000326 ( Main/Exploration ); précédent : 000325; suivant : 000327Identification of brain-enriched proteins in the cerebrospinal fluid proteome by LC-MS/MS profiling and mining of the Human Protein Atlas
Auteurs : Ilijana Begcevic [Canada] ; Davor Brinc [Canada] ; Andrei P. Drabovich [Canada] ; Ihor Batruch ; Eleftherios P. Diamandis [Canada]Source :
- Clinical Proteomics [ 1542-6416 ] ; 2016.
Abstract
Cerebrospinal fluid (CSF) is a proximal fluid which communicates closely with brain tissue, contains numerous brain-derived proteins and thus represents a promising fluid for discovery of biomarkers of central nervous system (CNS) diseases. The main purpose of this study was to generate an extensive CSF proteome and define brain-related proteins identified in CSF, suitable for development of diagnostic assays.
Six non-pathological CSF samples from three female and three male individuals were selected for CSF analysis. Samples were first subjected to strong cation exchange chromatography, followed by LC-MS/MS analysis. Secreted and membrane-bound proteins enriched in the brain tissues were retrieved from the Human Protein Atlas.
In total, 2615 proteins were identified in the CSF. The number of proteins identified per individual sample ranged from 1109 to 1421, with inter-individual variability between six samples of 21 %. Based on the Human Protein Atlas, 78 brain-specific proteins found in CSF samples were proposed as a signature of brain-enriched proteins in CSF.
A combination of Human Protein Atlas database and experimental search of proteins in specific body fluid can be applied as an initial step in search for disease biomarkers specific for a particular tissue. This signature may be of significant interest for development of novel diagnostics of CNS diseases and identification of drug targets.
The online version of this article (doi:10.1186/s12014-016-9111-3) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12014-016-9111-3
PubMed: 27186164
PubMed Central: 4868024
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification of brain-enriched proteins in the cerebrospinal fluid proteome by LC-MS/MS profiling and mining of the Human Protein Atlas</title><author><name sortKey="Begcevic, Ilijana" sort="Begcevic, Ilijana" uniqKey="Begcevic I" first="Ilijana" last="Begcevic">Ilijana Begcevic</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Brinc, Davor" sort="Brinc, Davor" uniqKey="Brinc D" first="Davor" last="Brinc">Davor Brinc</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Drabovich, Andrei P" sort="Drabovich, Andrei P" uniqKey="Drabovich A" first="Andrei P." last="Drabovich">Andrei P. Drabovich</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Batruch, Ihor" sort="Batruch, Ihor" uniqKey="Batruch I" first="Ihor" last="Batruch">Ihor Batruch</name><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Diamandis, Eleftherios P" sort="Diamandis, Eleftherios P" uniqKey="Diamandis E" first="Eleftherios P." last="Diamandis">Eleftherios P. Diamandis</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27186164</idno><idno type="pmc">4868024</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4868024</idno><idno type="RBID">PMC:4868024</idno><idno type="doi">10.1186/s12014-016-9111-3</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000247</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000247</idno><idno type="wicri:Area/Pmc/Curation">000247</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000247</idno><idno type="wicri:Area/Pmc/Checkpoint">000110</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000110</idno><idno type="wicri:Area/Ncbi/Merge">001F77</idno><idno type="wicri:Area/Ncbi/Curation">001F77</idno><idno type="wicri:Area/Ncbi/Checkpoint">001F77</idno><idno type="wicri:doubleKey">1542-6416:2016:Begcevic I:identification:of:brain</idno><idno type="wicri:Area/Main/Merge">000327</idno><idno type="wicri:Area/Main/Curation">000326</idno><idno type="wicri:Area/Main/Exploration">000326</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Identification of brain-enriched proteins in the cerebrospinal fluid proteome by LC-MS/MS profiling and mining of the Human Protein Atlas</title><author><name sortKey="Begcevic, Ilijana" sort="Begcevic, Ilijana" uniqKey="Begcevic I" first="Ilijana" last="Begcevic">Ilijana Begcevic</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Brinc, Davor" sort="Brinc, Davor" uniqKey="Brinc D" first="Davor" last="Brinc">Davor Brinc</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Drabovich, Andrei P" sort="Drabovich, Andrei P" uniqKey="Drabovich A" first="Andrei P." last="Drabovich">Andrei P. Drabovich</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Batruch, Ihor" sort="Batruch, Ihor" uniqKey="Batruch I" first="Ihor" last="Batruch">Ihor Batruch</name><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author><author><name sortKey="Diamandis, Eleftherios P" sort="Diamandis, Eleftherios P" uniqKey="Diamandis E" first="Eleftherios P." last="Diamandis">Eleftherios P. Diamandis</name><affiliation wicri:level="4"><nlm:aff id="Aff1">Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON Canada</nlm:aff><orgName type="university">Université de Toronto</orgName><country>Canada</country><placeName><settlement type="city">Toronto</settlement><region type="state">Ontario</region></placeName></affiliation><affiliation><nlm:aff id="Aff2">Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Department of Clinical Biochemistry, University Health Network, Toronto, ON Canada</nlm:aff><wicri:noCountry code="subfield">ON Canada</wicri:noCountry></affiliation></author></analytic><series><title level="j">Clinical Proteomics</title><idno type="ISSN">1542-6416</idno><idno type="eISSN">1559-0275</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Cerebrospinal fluid (CSF) is a proximal fluid which communicates closely with brain tissue, contains numerous brain-derived proteins and thus represents a promising fluid for discovery of biomarkers of central nervous system (CNS) diseases. The main purpose of this study was to generate an extensive CSF proteome and define brain-related proteins identified in CSF, suitable for development of diagnostic assays.</p></sec><sec><title>Methods</title><p>Six non-pathological CSF samples from three female and three male individuals were selected for CSF analysis. Samples were first subjected to strong cation exchange chromatography, followed by LC-MS/MS analysis. Secreted and membrane-bound proteins enriched in the brain tissues were retrieved from the Human Protein Atlas.</p></sec><sec><title>Results</title><p>In total, 2615 proteins were identified in the CSF. The number of proteins identified per individual sample ranged from 1109 to 1421, with inter-individual variability between six samples of 21 %. Based on the Human Protein Atlas, 78 brain-specific proteins found in CSF samples were proposed as a signature of brain-enriched proteins in CSF.</p></sec><sec><title>Conclusion</title><p>A combination of Human Protein Atlas database and experimental search of proteins in specific body fluid can be applied as an initial step in search for disease biomarkers specific for a particular tissue. This signature may be of significant interest for development of novel diagnostics of CNS diseases and identification of drug targets.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12014-016-9111-3) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Kroksveen, Ac" uniqKey="Kroksveen A">AC Kroksveen</name></author><author><name sortKey="Opsahl, Ja" uniqKey="Opsahl J">JA Opsahl</name></author><author><name sortKey="Aye, Tt" uniqKey="Aye T">TT Aye</name></author><author><name sortKey="Ulvik, Rj" uniqKey="Ulvik R">RJ Ulvik</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Oreskovic, D" uniqKey="Oreskovic D">D Oreskovic</name></author><author><name sortKey="Klarica, M" uniqKey="Klarica M">M 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uniqKey="Schalamberidze N">N Schalamberidze</name></author><author><name sortKey="Melms, A" uniqKey="Melms A">A Melms</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Carecchio, M" uniqKey="Carecchio M">M Carecchio</name></author><author><name sortKey="Comi, C" uniqKey="Comi C">C Comi</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sinclair, C" uniqKey="Sinclair C">C Sinclair</name></author><author><name sortKey="Mirakhur, M" uniqKey="Mirakhur M">M Mirakhur</name></author><author><name sortKey="Kirk, J" uniqKey="Kirk J">J Kirk</name></author><author><name sortKey="Farrell, M" uniqKey="Farrell M">M Farrell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sun, Y" uniqKey="Sun Y">Y Sun</name></author><author><name sortKey="Yin, Xs" uniqKey="Yin X">XS Yin</name></author><author><name sortKey="Guo, H" uniqKey="Guo H">H Guo</name></author><author><name sortKey="Han, Rk" uniqKey="Han R">RK Han</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Housley, Wj" uniqKey="Housley W">WJ Housley</name></author><author><name sortKey="Pitt, D" uniqKey="Pitt D">D Pitt</name></author><author><name sortKey="Hafler, Da" uniqKey="Hafler D">DA Hafler</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Canada</li></country><region><li>Ontario</li></region><settlement><li>Toronto</li></settlement><orgName><li>Université de Toronto</li></orgName></list><tree><noCountry><name sortKey="Batruch, Ihor" sort="Batruch, Ihor" uniqKey="Batruch I" first="Ihor" last="Batruch">Ihor Batruch</name></noCountry><country name="Canada"><region name="Ontario"><name sortKey="Begcevic, Ilijana" sort="Begcevic, Ilijana" uniqKey="Begcevic I" first="Ilijana" last="Begcevic">Ilijana Begcevic</name></region><name sortKey="Brinc, Davor" sort="Brinc, Davor" uniqKey="Brinc D" first="Davor" last="Brinc">Davor Brinc</name><name sortKey="Diamandis, Eleftherios P" sort="Diamandis, Eleftherios P" uniqKey="Diamandis E" first="Eleftherios P." last="Diamandis">Eleftherios P. Diamandis</name><name sortKey="Drabovich, Andrei P" sort="Drabovich, Andrei P" uniqKey="Drabovich A" first="Andrei P." last="Drabovich">Andrei P. Drabovich</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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