Annotation and analysis of expressed sequence tags (ESTs) from Chinese sturgeon (Acipenser sinensis) pituitary cDNA library.
Identifieur interne : 000608 ( Main/Merge ); précédent : 000607; suivant : 000609Annotation and analysis of expressed sequence tags (ESTs) from Chinese sturgeon (Acipenser sinensis) pituitary cDNA library.
Auteurs : Jing Ma [République populaire de Chine] ; Tao Zhang ; Ping Zhuang ; Long Z. Zhang ; Ting LiuSource :
- Marine genomics [ 1876-7478 ] ; 2011.
English descriptors
- KwdEn :
- MESH :
- genetics : Fishes.
- metabolism : Fishes, Pituitary Gland.
- physiology : Gene Expression Regulation.
- Animals, Expressed Sequence Tags, Gene Library, Molecular Sequence Data, Phylogeny.
Abstract
Chinese sturgeon Acipenser sinensis belongs to the family Acipenseridae, an ancient species of actinopterygian fishes. In order to advance molecular research on its reproduction, ontogenetic development, we were seeking for genomic information in the NCBI expressed sequence tag (EST database). We found 3384 indentified cDNA sequences which were assembled into 861 unigenes. Blast analysis revealed 301 unigenes shared high similarity with genes in the public databases, and these were classified into three groups: 202 known genes, 81 putative genes and 8 unknown genes. The remainder (560 genes) had no significant match to any protein sequence. Further, 255 unigenes and 333 unmatched unigenes were annotated with Gene Ontology (GO), which could be classified into cellular component, molecular function, and biological process. Among the known genes, the hormone genes pomc A (proopiomelanocortin), pomc B, GtH alpha I subunit (gonadotropin hormone), GtH alpha II subunit and GH (growth hormone) were present in this library. Comparison of the Chinese sturgeon proteins (GH, GtH alpha subunit and POMC) to proteins of other species showed higher levels of homology among sturgeon species. We performed five hormone related genes including GnRHRI (gonadotropin-releasing hormone receptor I), cpH (carboxypeptidase H), ppiB (peptidylprolyl isomerase B), stmn3 (stathmin-like 3), 7B2 (neuroendocrine protein 7B2), and four novel genes (contig 192, 177, 170 and 168) a semi-quantitative RT-PCR on different tissues from Chinese sturgeon.
DOI: 10.1016/j.margen.2011.04.002
PubMed: 21867969
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Zhang</name></author><author><name sortKey="Liu, Ting" sort="Liu, Ting" uniqKey="Liu T" first="Ting" last="Liu">Ting Liu</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2011">2011</date><idno type="RBID">pubmed:21867969</idno><idno type="pmid">21867969</idno><idno type="doi">10.1016/j.margen.2011.04.002</idno><idno type="wicri:Area/PubMed/Corpus">000347</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000347</idno><idno type="wicri:Area/PubMed/Curation">000347</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000347</idno><idno type="wicri:Area/PubMed/Checkpoint">000347</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000347</idno><idno type="wicri:Area/Ncbi/Merge">000396</idno><idno type="wicri:Area/Ncbi/Curation">000396</idno><idno type="wicri:Area/Ncbi/Checkpoint">000396</idno><idno type="wicri:Area/Main/Merge">000608</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Annotation and analysis of expressed sequence tags (ESTs) from Chinese sturgeon (Acipenser sinensis) pituitary cDNA library.</title><author><name sortKey="Ma, Jing" sort="Ma, Jing" uniqKey="Ma J" first="Jing" last="Ma">Jing Ma</name><affiliation wicri:level="1"><nlm:affiliation>School of Life Science, East China Normal University, Shanghai 200062, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Life Science, East China Normal University, Shanghai 200062</wicri:regionArea><wicri:noRegion>Shanghai 200062</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Tao" sort="Zhang, Tao" uniqKey="Zhang T" first="Tao" last="Zhang">Tao Zhang</name></author><author><name sortKey="Zhuang, Ping" sort="Zhuang, Ping" uniqKey="Zhuang P" first="Ping" last="Zhuang">Ping Zhuang</name></author><author><name sortKey="Zhang, Long Z" sort="Zhang, Long Z" uniqKey="Zhang L" first="Long Z" last="Zhang">Long Z. Zhang</name></author><author><name sortKey="Liu, Ting" sort="Liu, Ting" uniqKey="Liu T" first="Ting" last="Liu">Ting Liu</name></author></analytic><series><title level="j">Marine genomics</title><idno type="eISSN">1876-7478</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Expressed Sequence Tags</term><term>Fishes (genetics)</term><term>Fishes (metabolism)</term><term>Gene Expression Regulation (physiology)</term><term>Gene Library</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Pituitary Gland (metabolism)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Fishes</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Fishes</term><term>Pituitary Gland</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Gene Expression Regulation</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Expressed Sequence Tags</term><term>Gene Library</term><term>Molecular Sequence Data</term><term>Phylogeny</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Chinese sturgeon Acipenser sinensis belongs to the family Acipenseridae, an ancient species of actinopterygian fishes. In order to advance molecular research on its reproduction, ontogenetic development, we were seeking for genomic information in the NCBI expressed sequence tag (EST database). We found 3384 indentified cDNA sequences which were assembled into 861 unigenes. Blast analysis revealed 301 unigenes shared high similarity with genes in the public databases, and these were classified into three groups: 202 known genes, 81 putative genes and 8 unknown genes. The remainder (560 genes) had no significant match to any protein sequence. Further, 255 unigenes and 333 unmatched unigenes were annotated with Gene Ontology (GO), which could be classified into cellular component, molecular function, and biological process. Among the known genes, the hormone genes pomc A (proopiomelanocortin), pomc B, GtH alpha I subunit (gonadotropin hormone), GtH alpha II subunit and GH (growth hormone) were present in this library. Comparison of the Chinese sturgeon proteins (GH, GtH alpha subunit and POMC) to proteins of other species showed higher levels of homology among sturgeon species. We performed five hormone related genes including GnRHRI (gonadotropin-releasing hormone receptor I), cpH (carboxypeptidase H), ppiB (peptidylprolyl isomerase B), stmn3 (stathmin-like 3), 7B2 (neuroendocrine protein 7B2), and four novel genes (contig 192, 177, 170 and 168) a semi-quantitative RT-PCR on different tissues from Chinese sturgeon.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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