Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family
A heretofore-unrecognized multigene family encoding diverse immunoglobulin (Ig) domain-containing proteins (DICPs) was identified in the zebrafish genome. Twenty-nine distinct loci mapping to three chromosomal regions encode receptor-type structures possessing two classes of Ig ectodomains (D1 and D...
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| Veröffentlicht in: | Genomics (San Diego, Calif.) Calif.), 2012-05, Vol.99 (5), p.282-291 |
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| creator | Haire, Robert N. Cannon, John P. O'Driscoll, Marci L. Ostrov, David A. Mueller, M. Gail Turner, Poem M. Litman, Ronda T. Litman, Gary W. Yoder, Jeffrey A. |
| description | A heretofore-unrecognized multigene family encoding diverse immunoglobulin (Ig) domain-containing proteins (DICPs) was identified in the zebrafish genome. Twenty-nine distinct loci mapping to three chromosomal regions encode receptor-type structures possessing two classes of Ig ectodomains (D1 and D2). The sequence and number of Ig domains, transmembrane regions and signaling motifs vary between DICPs. Interindividual polymorphism and alternative RNA processing contribute to DICP diversity. Molecular models indicate that most D1 domains are of the variable (V) type; D2 domains are Ig-like. Sequence differences between D1 domains are concentrated in hypervariable regions on the front sheet strands of the Ig fold. Recombinant DICP Ig domains bind lipids, a property shared by mammalian CD300 and TREM family members. These findings suggest that novel multigene families encoding diversified immune receptors have arisen in different vertebrate lineages and affect parallel patterns of ligand recognition that potentially impact species-specific advantages.
► The heretofore-unrecognized multigene family of DICPs is described in zebrafish. ► DICPs include putative inhibitory and activating immune receptors. ► Interindividual polymorphisms and RNA splicing contribute to DICP diversity. ► Hypervariable regions of DICP Ig domains may contribute to ligand binding. ► Recombinant DICP Ig domains bind lipids with varying specificity. |
| doi_str_mv | 10.1016/j.ygeno.2012.02.004 |
| format | Article |
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► The heretofore-unrecognized multigene family of DICPs is described in zebrafish. ► DICPs include putative inhibitory and activating immune receptors. ► Interindividual polymorphisms and RNA splicing contribute to DICP diversity. ► Hypervariable regions of DICP Ig domains may contribute to ligand binding. ► Recombinant DICP Ig domains bind lipids with varying specificity.</description><identifier>ISSN: 0888-7543</identifier><identifier>EISSN: 1089-8646</identifier><identifier>DOI: 10.1016/j.ygeno.2012.02.004</identifier><identifier>PMID: 22386706</identifier><language>eng</language><publisher>Amsterdam: Elsevier Inc</publisher><subject>Alternative Splicing ; Amino Acid Sequence ; Animals ; Binding Sites ; Binding Sites - genetics ; Biological and medical sciences ; chemistry ; Chromosome Mapping ; Cloning, Molecular ; Danio rerio ; DNA, Complementary ; DNA, Complementary - chemistry ; DNA, Complementary - genetics ; Fundamental and applied biological sciences. Psychology ; Gene mapping ; Genes. Genome ; Genetic Variation ; genetics ; Genetics of eukaryotes. Biological and molecular evolution ; Genomics ; Genomics - methods ; Immunoglobulins ; Immunoglobulins - chemistry ; Immunoglobulins - genetics ; Innate immunity ; Lipid A ; Lipid binding ; lipids ; loci ; mammals ; metabolism ; methods ; Models, Molecular ; Molecular and cellular biology ; Molecular genetics ; Molecular modelling ; molecular models ; Molecular Sequence Data ; multigene family ; Multigene Family - genetics ; Phospholipids ; Phospholipids - chemistry ; Phospholipids - metabolism ; Phylogeny ; Protein Binding ; Protein Isoforms ; Protein Isoforms - chemistry ; Protein Isoforms - genetics ; Protein Isoforms - metabolism ; Protein Structure, Tertiary ; receptors ; Receptors, Immunologic ; Receptors, Immunologic - chemistry ; Receptors, Immunologic - genetics ; Receptors, Immunologic - metabolism ; RNA ; RNA processing ; Sequence Analysis, DNA ; Sequence Homology, Amino Acid ; Zebrafish ; Zebrafish - genetics ; Zebrafish Proteins ; Zebrafish Proteins - chemistry ; Zebrafish Proteins - genetics ; Zebrafish Proteins - metabolism</subject><ispartof>Genomics (San Diego, Calif.), 2012-05, Vol.99 (5), p.282-291</ispartof><rights>2012 Elsevier Inc.</rights><rights>2015 INIST-CNRS</rights><rights>Copyright © 2012 Elsevier Inc. All rights reserved.</rights><rights>2012 Elsevier Inc. All rights reserved. 2012</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c645t-b0615d5fa011896f80c992db293c1a7f180ad86e2137459b9cfc6646d07dda003</citedby><cites>FETCH-LOGICAL-c645t-b0615d5fa011896f80c992db293c1a7f180ad86e2137459b9cfc6646d07dda003</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0888754312000407$$EHTML$$P50$$Gelsevier$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=25986430$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22386706$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Haire, Robert N.</creatorcontrib><creatorcontrib>Cannon, John P.</creatorcontrib><creatorcontrib>O'Driscoll, Marci L.</creatorcontrib><creatorcontrib>Ostrov, David A.</creatorcontrib><creatorcontrib>Mueller, M. Gail</creatorcontrib><creatorcontrib>Turner, Poem M.</creatorcontrib><creatorcontrib>Litman, Ronda T.</creatorcontrib><creatorcontrib>Litman, Gary W.</creatorcontrib><creatorcontrib>Yoder, Jeffrey A.</creatorcontrib><title>Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family</title><title>Genomics (San Diego, Calif.)</title><addtitle>Genomics</addtitle><description>A heretofore-unrecognized multigene family encoding diverse immunoglobulin (Ig) domain-containing proteins (DICPs) was identified in the zebrafish genome. Twenty-nine distinct loci mapping to three chromosomal regions encode receptor-type structures possessing two classes of Ig ectodomains (D1 and D2). The sequence and number of Ig domains, transmembrane regions and signaling motifs vary between DICPs. Interindividual polymorphism and alternative RNA processing contribute to DICP diversity. Molecular models indicate that most D1 domains are of the variable (V) type; D2 domains are Ig-like. Sequence differences between D1 domains are concentrated in hypervariable regions on the front sheet strands of the Ig fold. Recombinant DICP Ig domains bind lipids, a property shared by mammalian CD300 and TREM family members. These findings suggest that novel multigene families encoding diversified immune receptors have arisen in different vertebrate lineages and affect parallel patterns of ligand recognition that potentially impact species-specific advantages.
► The heretofore-unrecognized multigene family of DICPs is described in zebrafish. ► DICPs include putative inhibitory and activating immune receptors. ► Interindividual polymorphisms and RNA splicing contribute to DICP diversity. ► Hypervariable regions of DICP Ig domains may contribute to ligand binding. ► Recombinant DICP Ig domains bind lipids with varying specificity.</description><subject>Alternative Splicing</subject><subject>Amino Acid Sequence</subject><subject>Animals</subject><subject>Binding Sites</subject><subject>Binding Sites - genetics</subject><subject>Biological and medical sciences</subject><subject>chemistry</subject><subject>Chromosome Mapping</subject><subject>Cloning, Molecular</subject><subject>Danio rerio</subject><subject>DNA, Complementary</subject><subject>DNA, Complementary - chemistry</subject><subject>DNA, Complementary - genetics</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene mapping</subject><subject>Genes. Genome</subject><subject>Genetic Variation</subject><subject>genetics</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Genomics</subject><subject>Genomics - methods</subject><subject>Immunoglobulins</subject><subject>Immunoglobulins - chemistry</subject><subject>Immunoglobulins - genetics</subject><subject>Innate immunity</subject><subject>Lipid A</subject><subject>Lipid binding</subject><subject>lipids</subject><subject>loci</subject><subject>mammals</subject><subject>metabolism</subject><subject>methods</subject><subject>Models, Molecular</subject><subject>Molecular and cellular biology</subject><subject>Molecular genetics</subject><subject>Molecular modelling</subject><subject>molecular models</subject><subject>Molecular Sequence Data</subject><subject>multigene family</subject><subject>Multigene Family - genetics</subject><subject>Phospholipids</subject><subject>Phospholipids - chemistry</subject><subject>Phospholipids - metabolism</subject><subject>Phylogeny</subject><subject>Protein Binding</subject><subject>Protein Isoforms</subject><subject>Protein Isoforms - chemistry</subject><subject>Protein Isoforms - genetics</subject><subject>Protein Isoforms - metabolism</subject><subject>Protein Structure, Tertiary</subject><subject>receptors</subject><subject>Receptors, Immunologic</subject><subject>Receptors, Immunologic - chemistry</subject><subject>Receptors, Immunologic - genetics</subject><subject>Receptors, Immunologic - metabolism</subject><subject>RNA</subject><subject>RNA processing</subject><subject>Sequence Analysis, DNA</subject><subject>Sequence Homology, Amino Acid</subject><subject>Zebrafish</subject><subject>Zebrafish - genetics</subject><subject>Zebrafish Proteins</subject><subject>Zebrafish Proteins - chemistry</subject><subject>Zebrafish Proteins - genetics</subject><subject>Zebrafish Proteins - metabolism</subject><issn>0888-7543</issn><issn>1089-8646</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkl2LEzEUhgdR3Lr6CwSdG2G9mHqSmWQyFwpSdV1YUNC9Dqf5aFNmkm4yU6i_3tTWVW9UOHAg5zkfL2-K4imBOQHCX23m-5XxYU6B0DnkgOZeMSMgukrwht8vZiCEqFrW1GfFo5Q2ANDVgj4sziitBW-Bz4rhMo8YnCrR69JOXo0ueOxLtcaIajTRfcPDUxlsOa5Nqd3OxGRKNwyTD6s-LKfe-VKHAZ2vVPBjzs6vym0Mo8mVi3dXi88vS4uD6_ePiwcW-2SenPJ5cfPh_dfFx-r60-XV4u11pXjDxmoJnDDNLAIhouNWgOo6qpe0qxXB1hIBqAU3lNRtw7plp6ziWbKGVmsEqM-LN8e522k5GK2MHyP2chvdgHEvAzr5Z8W7tVyFnaxrRhgTecDFaUAMt5NJoxxcUqbv0ZswJUl4S0FQwei_Ucgkawjp_gPNgjjl4qCgPqIqhpSisXfHEzhwXG7kD_vlwX4JOaDJXc9-133X89PvDLw4AZgU9jaiVy794liXv059WP_8yFkMElcxMzdf8iaW_1BDCWGZeH0kTPZx50yUSTnjldEuGjVKHdxfT_0Om0rZNA</recordid><startdate>20120501</startdate><enddate>20120501</enddate><creator>Haire, Robert N.</creator><creator>Cannon, John P.</creator><creator>O'Driscoll, Marci L.</creator><creator>Ostrov, David A.</creator><creator>Mueller, M. 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Genome</topic><topic>Genetic Variation</topic><topic>genetics</topic><topic>Genetics of eukaryotes. 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Gail</au><au>Turner, Poem M.</au><au>Litman, Ronda T.</au><au>Litman, Gary W.</au><au>Yoder, Jeffrey A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family</atitle><jtitle>Genomics (San Diego, Calif.)</jtitle><addtitle>Genomics</addtitle><date>2012-05-01</date><risdate>2012</risdate><volume>99</volume><issue>5</issue><spage>282</spage><epage>291</epage><pages>282-291</pages><issn>0888-7543</issn><eissn>1089-8646</eissn><abstract>A heretofore-unrecognized multigene family encoding diverse immunoglobulin (Ig) domain-containing proteins (DICPs) was identified in the zebrafish genome. Twenty-nine distinct loci mapping to three chromosomal regions encode receptor-type structures possessing two classes of Ig ectodomains (D1 and D2). The sequence and number of Ig domains, transmembrane regions and signaling motifs vary between DICPs. Interindividual polymorphism and alternative RNA processing contribute to DICP diversity. Molecular models indicate that most D1 domains are of the variable (V) type; D2 domains are Ig-like. Sequence differences between D1 domains are concentrated in hypervariable regions on the front sheet strands of the Ig fold. Recombinant DICP Ig domains bind lipids, a property shared by mammalian CD300 and TREM family members. These findings suggest that novel multigene families encoding diversified immune receptors have arisen in different vertebrate lineages and affect parallel patterns of ligand recognition that potentially impact species-specific advantages.
► The heretofore-unrecognized multigene family of DICPs is described in zebrafish. ► DICPs include putative inhibitory and activating immune receptors. ► Interindividual polymorphisms and RNA splicing contribute to DICP diversity. ► Hypervariable regions of DICP Ig domains may contribute to ligand binding. ► Recombinant DICP Ig domains bind lipids with varying specificity.</abstract><cop>Amsterdam</cop><pub>Elsevier Inc</pub><pmid>22386706</pmid><doi>10.1016/j.ygeno.2012.02.004</doi><tpages>10</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Alternative Splicing Amino Acid Sequence Animals Binding Sites Binding Sites - genetics Biological and medical sciences chemistry Chromosome Mapping Cloning, Molecular Danio rerio DNA, Complementary DNA, Complementary - chemistry DNA, Complementary - genetics Fundamental and applied biological sciences. Psychology Gene mapping Genes. Genome Genetic Variation genetics Genetics of eukaryotes. Biological and molecular evolution Genomics Genomics - methods Immunoglobulins Immunoglobulins - chemistry Immunoglobulins - genetics Innate immunity Lipid A Lipid binding lipids loci mammals metabolism methods Models, Molecular Molecular and cellular biology Molecular genetics Molecular modelling molecular models Molecular Sequence Data multigene family Multigene Family - genetics Phospholipids Phospholipids - chemistry Phospholipids - metabolism Phylogeny Protein Binding Protein Isoforms Protein Isoforms - chemistry Protein Isoforms - genetics Protein Isoforms - metabolism Protein Structure, Tertiary receptors Receptors, Immunologic Receptors, Immunologic - chemistry Receptors, Immunologic - genetics Receptors, Immunologic - metabolism RNA RNA processing Sequence Analysis, DNA Sequence Homology, Amino Acid Zebrafish Zebrafish - genetics Zebrafish Proteins Zebrafish Proteins - chemistry Zebrafish Proteins - genetics Zebrafish Proteins - metabolism |
| title | Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family |
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