Characterization on the alternative splicing, expression and gene phylogenesis of PTPR4 family in Japanese flounder, Paralichthys olivaceus
One mechanism of eukaryotic signaling is protein phosphorylation by protein tyrosine phosphatases (PTPs). Here we have identified the PTP Receptor-Type IV (PTPR4) family, including one form of PTPα and two forms of PTPε (PTPε M and PTPε C) in flounder. The existence of PTPε C has not been reported i...
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| Veröffentlicht in: | Genes & Genetic Systems 2008, Vol.83(2), pp.189-197 |
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| creator | Yu, D.(Ocean Univ. of China, Qingdao) Zhang, Q Wang, Z Qi, J Wang, X |
| description | One mechanism of eukaryotic signaling is protein phosphorylation by protein tyrosine phosphatases (PTPs). Here we have identified the PTP Receptor-Type IV (PTPR4) family, including one form of PTPα and two forms of PTPε (PTPε M and PTPε C) in flounder. The existence of PTPε C has not been reported in non-mammalian animals. Semi-quantitative RT-PCR revealed independent expression patterns and levels of PTPα and the two forms of PTPε in various tissues. The sequence of PTPε C was identical to that of PTPε M except for its 5’-terminal regions. Southern blot analysis proved that there existed only one PTPε gene in flounder genome, indicating that the two isoforms of PTPε might have been derived from alternative splicing of the single gene. Phylogenetic analysis of PTP domain D2 and part of D1 of PTPR4 showed that flounder was first joint with other teleost fish and then tetrapods, and also provided evidence that the gene duplication from the ancestor gene to PTPα and PTPε occurred before the divergence of Gnathastomata and Agnatha. These results showed that the functional evolution of protein phosphorylation is promoted by not only genome duplication, but also elaborate regulation of gene expression. |
| doi_str_mv | 10.1266/ggs.83.189 |
| format | Article |
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Here we have identified the PTP Receptor-Type IV (PTPR4) family, including one form of PTPα and two forms of PTPε (PTPε M and PTPε C) in flounder. The existence of PTPε C has not been reported in non-mammalian animals. Semi-quantitative RT-PCR revealed independent expression patterns and levels of PTPα and the two forms of PTPε in various tissues. The sequence of PTPε C was identical to that of PTPε M except for its 5’-terminal regions. Southern blot analysis proved that there existed only one PTPε gene in flounder genome, indicating that the two isoforms of PTPε might have been derived from alternative splicing of the single gene. Phylogenetic analysis of PTP domain D2 and part of D1 of PTPR4 showed that flounder was first joint with other teleost fish and then tetrapods, and also provided evidence that the gene duplication from the ancestor gene to PTPα and PTPε occurred before the divergence of Gnathastomata and Agnatha. These results showed that the functional evolution of protein phosphorylation is promoted by not only genome duplication, but also elaborate regulation of gene expression.</description><identifier>ISSN: 1341-7568</identifier><identifier>EISSN: 1880-5779</identifier><identifier>DOI: 10.1266/ggs.83.189</identifier><identifier>PMID: 18506102</identifier><language>eng</language><publisher>Japan: The Genetics Society of Japan</publisher><subject>Agnatha ; Alternative Splicing ; Amino Acid Sequence ; AMINO ACID SEQUENCES ; Animals ; cloning ; Cloning, Molecular ; EXPRESION GENICA ; EXPRESSION DES GENES ; FILOGENIA ; Fish Proteins - chemistry ; Fish Proteins - classification ; Fish Proteins - genetics ; Flounder - genetics ; FOSFORILACION ; GENE ; gene duplication ; GENE EXPRESSION ; GENES ; Genome ; Molecular Sequence Data ; PARALICHTHYS OLIVACEUS ; PHOSPHORYLATION ; phylogenetics ; PHYLOGENIE ; PHYLOGENY ; Pleuronectiformes ; Protein Isoforms - chemistry ; Protein Isoforms - genetics ; Protein Isoforms - metabolism ; protein tyrosine phosphatase ; PTPα ; PTPε ; Receptor-Like Protein Tyrosine Phosphatases, Class 4 - chemistry ; Receptor-Like Protein Tyrosine Phosphatases, Class 4 - classification ; Receptor-Like Protein Tyrosine Phosphatases, Class 4 - genetics ; SECUENCIAS DE AMINOACIDOS ; SEQUENCE D'ACIDES AMINES ; Sequence Homology, Amino Acid ; Teleostei ; Tissue Distribution ; tissue expression</subject><ispartof>Genes & Genetic Systems, 2008, Vol.83(2), pp.189-197</ispartof><rights>2008 by The Genetics Society of Japan</rights><rights>Copyright Japan Science and Technology Agency 2008</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c628t-a4dfd47f40a67ef9d0b5f8a21b00819dd8947ebb1987e6fefc6dc60eefb857fb3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,1881,4022,27921,27922,27923</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/18506102$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yu, D.(Ocean Univ. of China, Qingdao)</creatorcontrib><creatorcontrib>Zhang, Q</creatorcontrib><creatorcontrib>Wang, Z</creatorcontrib><creatorcontrib>Qi, J</creatorcontrib><creatorcontrib>Wang, X</creatorcontrib><creatorcontrib>Ocean University of China</creatorcontrib><creatorcontrib>Genetics Laboratory</creatorcontrib><creatorcontrib>College of Marine Life Science</creatorcontrib><creatorcontrib>Qingdao Women and Children's Medical & Healthcare Center</creatorcontrib><creatorcontrib>Laboratory of Marine Genetics and Breeding</creatorcontrib><title>Characterization on the alternative splicing, expression and gene phylogenesis of PTPR4 family in Japanese flounder, Paralichthys olivaceus</title><title>Genes & Genetic Systems</title><addtitle>Genes Genet. Syst.</addtitle><description>One mechanism of eukaryotic signaling is protein phosphorylation by protein tyrosine phosphatases (PTPs). Here we have identified the PTP Receptor-Type IV (PTPR4) family, including one form of PTPα and two forms of PTPε (PTPε M and PTPε C) in flounder. The existence of PTPε C has not been reported in non-mammalian animals. Semi-quantitative RT-PCR revealed independent expression patterns and levels of PTPα and the two forms of PTPε in various tissues. The sequence of PTPε C was identical to that of PTPε M except for its 5’-terminal regions. Southern blot analysis proved that there existed only one PTPε gene in flounder genome, indicating that the two isoforms of PTPε might have been derived from alternative splicing of the single gene. Phylogenetic analysis of PTP domain D2 and part of D1 of PTPR4 showed that flounder was first joint with other teleost fish and then tetrapods, and also provided evidence that the gene duplication from the ancestor gene to PTPα and PTPε occurred before the divergence of Gnathastomata and Agnatha. These results showed that the functional evolution of protein phosphorylation is promoted by not only genome duplication, but also elaborate regulation of gene expression.</description><subject>Agnatha</subject><subject>Alternative Splicing</subject><subject>Amino Acid Sequence</subject><subject>AMINO ACID SEQUENCES</subject><subject>Animals</subject><subject>cloning</subject><subject>Cloning, Molecular</subject><subject>EXPRESION GENICA</subject><subject>EXPRESSION DES GENES</subject><subject>FILOGENIA</subject><subject>Fish Proteins - chemistry</subject><subject>Fish Proteins - classification</subject><subject>Fish Proteins - genetics</subject><subject>Flounder - genetics</subject><subject>FOSFORILACION</subject><subject>GENE</subject><subject>gene duplication</subject><subject>GENE EXPRESSION</subject><subject>GENES</subject><subject>Genome</subject><subject>Molecular Sequence Data</subject><subject>PARALICHTHYS OLIVACEUS</subject><subject>PHOSPHORYLATION</subject><subject>phylogenetics</subject><subject>PHYLOGENIE</subject><subject>PHYLOGENY</subject><subject>Pleuronectiformes</subject><subject>Protein Isoforms - chemistry</subject><subject>Protein Isoforms - genetics</subject><subject>Protein Isoforms - metabolism</subject><subject>protein tyrosine phosphatase</subject><subject>PTPα</subject><subject>PTPε</subject><subject>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - chemistry</subject><subject>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - classification</subject><subject>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - genetics</subject><subject>SECUENCIAS DE AMINOACIDOS</subject><subject>SEQUENCE D'ACIDES AMINES</subject><subject>Sequence Homology, Amino Acid</subject><subject>Teleostei</subject><subject>Tissue Distribution</subject><subject>tissue expression</subject><issn>1341-7568</issn><issn>1880-5779</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2008</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFks-L1DAUgIso7rp68a4EBA-yMyZtmqQnkcFVlwUHWc8hTV_aLJm2m7SL47_gP-0bOuuCF6H5Qd6X74X3mmUvGV2zXIj3bZvWqlgzVT3KTplSdFVKWT3GfcHZSpZCnWTPUrqhNKeVKp5mJ0yVVDCan2a_N52Jxk4Q_S8z-aEn-E0dEBPwrMejOyBpDN76vj0n8HOMkNKBM31DWuiBjN0-DIdd8okMjmyvt985cWbnw574nlya0WAQiAvD3DcQz8kWc6Kym7o9Xgn-zliY0_PsiTMhwYvjepb9uPh0vfmyuvr2-evm49XKilxNK8Mb13DpODVCgqsaWpdOmZzVlCpWNY2quIS6ZpWSIBw4KxorKICrVSldXZxlbxfvGIfbGdKkdz5ZCAGfOcxJSyol5yz_L8gqThVXBYJv_gFvhhmrF5Dhghe8xMoj9W6hbBxSiuD0GP3OxL1mVB86qbGTWhUaO4nw66NyrnfQPKDH1iFwsQAY9daEoQ--h4fEtitQt086x7JoHAXNcak0RT1OlWSMFaVC0YdFdJMm08LfTCZO3ga4f1S-TIfL9xGL_46GHg2vFoMzgzZt9Elfbg9pKRWylMUfxNPSJg</recordid><startdate>2008</startdate><enddate>2008</enddate><creator>Yu, D.(Ocean Univ. of China, Qingdao)</creator><creator>Zhang, Q</creator><creator>Wang, Z</creator><creator>Qi, J</creator><creator>Wang, X</creator><general>The Genetics Society of Japan</general><general>Japan Science and Technology Agency</general><scope>FBQ</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>7SS</scope><scope>7TK</scope><scope>8FD</scope><scope>FR3</scope><scope>K9.</scope><scope>NAPCQ</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>2008</creationdate><title>Characterization on the alternative splicing, expression and gene phylogenesis of PTPR4 family in Japanese flounder, Paralichthys olivaceus</title><author>Yu, D.(Ocean Univ. of China, Qingdao) ; Zhang, Q ; Wang, Z ; Qi, J ; Wang, X</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c628t-a4dfd47f40a67ef9d0b5f8a21b00819dd8947ebb1987e6fefc6dc60eefb857fb3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2008</creationdate><topic>Agnatha</topic><topic>Alternative Splicing</topic><topic>Amino Acid Sequence</topic><topic>AMINO ACID SEQUENCES</topic><topic>Animals</topic><topic>cloning</topic><topic>Cloning, Molecular</topic><topic>EXPRESION GENICA</topic><topic>EXPRESSION DES GENES</topic><topic>FILOGENIA</topic><topic>Fish Proteins - chemistry</topic><topic>Fish Proteins - classification</topic><topic>Fish Proteins - genetics</topic><topic>Flounder - genetics</topic><topic>FOSFORILACION</topic><topic>GENE</topic><topic>gene duplication</topic><topic>GENE EXPRESSION</topic><topic>GENES</topic><topic>Genome</topic><topic>Molecular Sequence Data</topic><topic>PARALICHTHYS OLIVACEUS</topic><topic>PHOSPHORYLATION</topic><topic>phylogenetics</topic><topic>PHYLOGENIE</topic><topic>PHYLOGENY</topic><topic>Pleuronectiformes</topic><topic>Protein Isoforms - chemistry</topic><topic>Protein Isoforms - genetics</topic><topic>Protein Isoforms - metabolism</topic><topic>protein tyrosine phosphatase</topic><topic>PTPα</topic><topic>PTPε</topic><topic>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - chemistry</topic><topic>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - classification</topic><topic>Receptor-Like Protein Tyrosine Phosphatases, Class 4 - genetics</topic><topic>SECUENCIAS DE AMINOACIDOS</topic><topic>SEQUENCE D'ACIDES AMINES</topic><topic>Sequence Homology, Amino Acid</topic><topic>Teleostei</topic><topic>Tissue Distribution</topic><topic>tissue expression</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yu, D.(Ocean Univ. of China, Qingdao)</creatorcontrib><creatorcontrib>Zhang, Q</creatorcontrib><creatorcontrib>Wang, Z</creatorcontrib><creatorcontrib>Qi, J</creatorcontrib><creatorcontrib>Wang, X</creatorcontrib><creatorcontrib>Ocean University of China</creatorcontrib><creatorcontrib>Genetics Laboratory</creatorcontrib><creatorcontrib>College of Marine Life Science</creatorcontrib><creatorcontrib>Qingdao Women and Children's Medical & Healthcare Center</creatorcontrib><creatorcontrib>Laboratory of Marine Genetics and Breeding</creatorcontrib><collection>AGRIS</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Nursing & Allied Health Premium</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Genes & Genetic Systems</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yu, D.(Ocean Univ. of China, Qingdao)</au><au>Zhang, Q</au><au>Wang, Z</au><au>Qi, J</au><au>Wang, X</au><aucorp>Ocean University of China</aucorp><aucorp>Genetics Laboratory</aucorp><aucorp>College of Marine Life Science</aucorp><aucorp>Qingdao Women and Children's Medical & Healthcare Center</aucorp><aucorp>Laboratory of Marine Genetics and Breeding</aucorp><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Characterization on the alternative splicing, expression and gene phylogenesis of PTPR4 family in Japanese flounder, Paralichthys olivaceus</atitle><jtitle>Genes & Genetic Systems</jtitle><addtitle>Genes Genet. Syst.</addtitle><date>2008</date><risdate>2008</risdate><volume>83</volume><issue>2</issue><spage>189</spage><epage>197</epage><pages>189-197</pages><issn>1341-7568</issn><eissn>1880-5779</eissn><abstract>One mechanism of eukaryotic signaling is protein phosphorylation by protein tyrosine phosphatases (PTPs). Here we have identified the PTP Receptor-Type IV (PTPR4) family, including one form of PTPα and two forms of PTPε (PTPε M and PTPε C) in flounder. The existence of PTPε C has not been reported in non-mammalian animals. Semi-quantitative RT-PCR revealed independent expression patterns and levels of PTPα and the two forms of PTPε in various tissues. The sequence of PTPε C was identical to that of PTPε M except for its 5’-terminal regions. Southern blot analysis proved that there existed only one PTPε gene in flounder genome, indicating that the two isoforms of PTPε might have been derived from alternative splicing of the single gene. Phylogenetic analysis of PTP domain D2 and part of D1 of PTPR4 showed that flounder was first joint with other teleost fish and then tetrapods, and also provided evidence that the gene duplication from the ancestor gene to PTPα and PTPε occurred before the divergence of Gnathastomata and Agnatha. These results showed that the functional evolution of protein phosphorylation is promoted by not only genome duplication, but also elaborate regulation of gene expression.</abstract><cop>Japan</cop><pub>The Genetics Society of Japan</pub><pmid>18506102</pmid><doi>10.1266/ggs.83.189</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Agnatha Alternative Splicing Amino Acid Sequence AMINO ACID SEQUENCES Animals cloning Cloning, Molecular EXPRESION GENICA EXPRESSION DES GENES FILOGENIA Fish Proteins - chemistry Fish Proteins - classification Fish Proteins - genetics Flounder - genetics FOSFORILACION GENE gene duplication GENE EXPRESSION GENES Genome Molecular Sequence Data PARALICHTHYS OLIVACEUS PHOSPHORYLATION phylogenetics PHYLOGENIE PHYLOGENY Pleuronectiformes Protein Isoforms - chemistry Protein Isoforms - genetics Protein Isoforms - metabolism protein tyrosine phosphatase PTPα PTPε Receptor-Like Protein Tyrosine Phosphatases, Class 4 - chemistry Receptor-Like Protein Tyrosine Phosphatases, Class 4 - classification Receptor-Like Protein Tyrosine Phosphatases, Class 4 - genetics SECUENCIAS DE AMINOACIDOS SEQUENCE D'ACIDES AMINES Sequence Homology, Amino Acid Teleostei Tissue Distribution tissue expression |
| title | Characterization on the alternative splicing, expression and gene phylogenesis of PTPR4 family in Japanese flounder, Paralichthys olivaceus |
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