Transcriptome sequencing and development of an expression microarray platform for the domestic ferret
Identifieur interne : 000D03 ( Main/Exploration ); précédent : 000D02; suivant : 000D04Transcriptome sequencing and development of an expression microarray platform for the domestic ferret
Auteurs : Carl E. Bruder [États-Unis] ; Suxia Yao [États-Unis] ; Francis Larson [États-Unis] ; Jeremy V. Camp [États-Unis] ; Ronald Tapp [États-Unis] ; Alexis Mcbrayer [États-Unis] ; Nicholas Powers [États-Unis] ; Willy Valdivia Granda [États-Unis] ; Colleen B. Jonsson [États-Unis]Source :
- BMC Genomics [ 1471-2164 ] ; 2010.
Abstract
The ferret (
We produced more than 500000 sequence reads that were assembled into 16000 partial ferret genes. These genes were combined with the available ferret sequences in the GenBank to develop a ferret specific microarray platform. Using this array, we detected tissue specific expression patterns which were confirmed by quantitative real time PCR assays. We also present a set of 41 ferret genes with even transcription profiles across the tested tissues, indicating their usefulness as housekeeping genes.
The tools developed in this study allow for functional genomic analysis and make further development of reagents for the ferret model possible.
Url:
DOI: 10.1186/1471-2164-11-251
PubMed: 20403183
PubMed Central: 2873475
Affiliations:
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Bruder</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Yao, Suxia" sort="Yao, Suxia" uniqKey="Yao S" first="Suxia" last="Yao">Suxia Yao</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Larson, Francis" sort="Larson, Francis" uniqKey="Larson F" first="Francis" last="Larson">Francis Larson</name><affiliation wicri:level="1"><nlm:aff id="I2">Orion Integrated Biosciences Inc, 265 Centre Ave, Suite 1R, New Rochelle, NY 10805, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Orion Integrated Biosciences Inc, 265 Centre Ave, Suite 1R, New Rochelle, NY 10805</wicri:regionArea><wicri:noRegion>NY 10805</wicri:noRegion></affiliation></author><author><name sortKey="Camp, Jeremy V" sort="Camp, Jeremy V" uniqKey="Camp J" first="Jeremy V" last="Camp">Jeremy V. Camp</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Tapp, Ronald" sort="Tapp, Ronald" uniqKey="Tapp R" first="Ronald" last="Tapp">Ronald Tapp</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Mcbrayer, Alexis" sort="Mcbrayer, Alexis" uniqKey="Mcbrayer A" first="Alexis" last="Mcbrayer">Alexis Mcbrayer</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Powers, Nicholas" sort="Powers, Nicholas" uniqKey="Powers N" first="Nicholas" last="Powers">Nicholas Powers</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation></author><author><name sortKey="Valdivia Granda, Willy" sort="Valdivia Granda, Willy" uniqKey="Valdivia Granda W" first="Willy" last="Valdivia Granda">Willy Valdivia Granda</name><affiliation wicri:level="1"><nlm:aff id="I2">Orion Integrated Biosciences Inc, 265 Centre Ave, Suite 1R, New Rochelle, NY 10805, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Orion Integrated Biosciences Inc, 265 Centre Ave, Suite 1R, New Rochelle, NY 10805</wicri:regionArea><wicri:noRegion>NY 10805</wicri:noRegion></affiliation></author><author><name sortKey="Jonsson, Colleen B" sort="Jonsson, Colleen B" uniqKey="Jonsson C" first="Colleen B" last="Jonsson">Colleen B. Jonsson</name><affiliation wicri:level="1"><nlm:aff id="I1">Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Southern Research Institute, 2000 Ninth Ave South, Birmingham, AL 35205</wicri:regionArea><wicri:noRegion>AL 35205</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="I3">Center for Predictive Medicine For Biodefense and Emerging Infectious Disease, University of Louisville, KY 40292, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Predictive Medicine For Biodefense and Emerging Infectious Disease, University of Louisville, KY 40292</wicri:regionArea><wicri:noRegion>KY 40292</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>The ferret (<italic>Mustela putorius furo</italic>) represents an attractive animal model for the study of respiratory diseases, including influenza. Despite its importance for biomedical research, the number of reagents for molecular and immunological analysis is restricted. We present here a parallel sequencing effort to produce an extensive EST (expressed sequence tags) dataset derived from a normalized ferret cDNA library made from mRNA from ferret blood, liver, lung, spleen and brain.</p></sec><sec><title>Results</title><p>We produced more than 500000 sequence reads that were assembled into 16000 partial ferret genes. These genes were combined with the available ferret sequences in the GenBank to develop a ferret specific microarray platform. Using this array, we detected tissue specific expression patterns which were confirmed by quantitative real time PCR assays. We also present a set of 41 ferret genes with even transcription profiles across the tested tissues, indicating their usefulness as housekeeping genes.</p></sec><sec><title>Conclusion</title><p>The tools developed in this study allow for functional genomic analysis and make further development of reagents for the ferret model possible.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Chu, Yk" uniqKey="Chu Y">YK Chu</name></author><author><name sortKey="Ali, Gd" uniqKey="Ali G">GD Ali</name></author><author><name sortKey="Jia, F" uniqKey="Jia F">F Jia</name></author><author><name sortKey="Li, Q" uniqKey="Li Q">Q Li</name></author><author><name sortKey="Kelvin, D" uniqKey="Kelvin D">D Kelvin</name></author><author><name sortKey="Couch, Rc" uniqKey="Couch R">RC Couch</name></author><author><name sortKey="Harrod, Ks" uniqKey="Harrod K">KS Harrod</name></author><author><name sortKey="Hutt, Ja" uniqKey="Hutt J">JA 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Bruder</name></noRegion><name sortKey="Camp, Jeremy V" sort="Camp, Jeremy V" uniqKey="Camp J" first="Jeremy V" last="Camp">Jeremy V. Camp</name><name sortKey="Jonsson, Colleen B" sort="Jonsson, Colleen B" uniqKey="Jonsson C" first="Colleen B" last="Jonsson">Colleen B. Jonsson</name><name sortKey="Jonsson, Colleen B" sort="Jonsson, Colleen B" uniqKey="Jonsson C" first="Colleen B" last="Jonsson">Colleen B. Jonsson</name><name sortKey="Larson, Francis" sort="Larson, Francis" uniqKey="Larson F" first="Francis" last="Larson">Francis Larson</name><name sortKey="Mcbrayer, Alexis" sort="Mcbrayer, Alexis" uniqKey="Mcbrayer A" first="Alexis" last="Mcbrayer">Alexis Mcbrayer</name><name sortKey="Powers, Nicholas" sort="Powers, Nicholas" uniqKey="Powers N" first="Nicholas" last="Powers">Nicholas Powers</name><name sortKey="Tapp, Ronald" sort="Tapp, Ronald" uniqKey="Tapp R" first="Ronald" last="Tapp">Ronald Tapp</name><name sortKey="Valdivia Granda, Willy" sort="Valdivia Granda, Willy" uniqKey="Valdivia Granda W" first="Willy" last="Valdivia Granda">Willy Valdivia Granda</name><name sortKey="Yao, Suxia" sort="Yao, Suxia" uniqKey="Yao S" first="Suxia" last="Yao">Suxia Yao</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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