A Sequence-Ready PAC Contig of a 550-kb Region on Rat Chromosome 4 Including the Diabetes Susceptibility Gene Lyp
The Lyp locus controls diabetes development in rats. The diabetogenic allele in diabetes-prone BB rats is responsible for T cell lymphopenia characterized by the absence of regulatory T cells. We present refined genetic and radiation hybrid maps of the Lyp region on rat chromosome 4, a single 800-kb...
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| Veröffentlicht in: | Genomics (San Diego, Calif.) Calif.), 2000-11, Vol.69 (3), p.305-313 |
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| creator | Hornum, Lars Markholst, Helle |
| description | The Lyp locus controls diabetes development in rats. The diabetogenic allele in diabetes-prone BB rats is responsible for T cell lymphopenia characterized by the absence of regulatory T cells. We present refined genetic and radiation hybrid maps of the Lyp region on rat chromosome 4, a single 800-kb rat yeast artificial chromosome and a rat P1-derived artificial chromosome (PAC) contig corresponding to ∼550 kb, both encompassing the entire candidate region. The contig, consisting of 48 PACs, gives 3- to 12-fold coverage. Genetic, radiation hybrid, and physical data were all in agreement and supported the same marker order. Nine genes and ESTs were identified in the contig in addition to a rat EST from the University of Iowa rat EST database—all possible candidate genes for Lyp. Alignment of our rat PAC contig with sequenced human PAC/BAC contigs confirms the position within the region of 3 of the 10 candidates and identifies an additional 8 genes/ESTs as candidates. These data will facilitate identification of Lyp. |
| doi_str_mv | 10.1006/geno.2000.6336 |
| format | Article |
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The diabetogenic allele in diabetes-prone BB rats is responsible for T cell lymphopenia characterized by the absence of regulatory T cells. We present refined genetic and radiation hybrid maps of the Lyp region on rat chromosome 4, a single 800-kb rat yeast artificial chromosome and a rat P1-derived artificial chromosome (PAC) contig corresponding to ∼550 kb, both encompassing the entire candidate region. The contig, consisting of 48 PACs, gives 3- to 12-fold coverage. Genetic, radiation hybrid, and physical data were all in agreement and supported the same marker order. Nine genes and ESTs were identified in the contig in addition to a rat EST from the University of Iowa rat EST database—all possible candidate genes for Lyp. Alignment of our rat PAC contig with sequenced human PAC/BAC contigs confirms the position within the region of 3 of the 10 candidates and identifies an additional 8 genes/ESTs as candidates. 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Biological and molecular evolution ; Humans ; Lyp gene ; Male ; Mice ; Protein Tyrosine Phosphatase, Non-Receptor Type 1 ; Protein Tyrosine Phosphatase, Non-Receptor Type 22 ; Protein Tyrosine Phosphatases - genetics ; Rats ; Rats, Inbred BB ; Rats, Inbred BN ; Vertebrata</subject><ispartof>Genomics (San Diego, Calif.), 2000-11, Vol.69 (3), p.305-313</ispartof><rights>2000 Academic Press</rights><rights>2001 INIST-CNRS</rights><rights>Copyright 2000 Academic Press.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c399t-acb5dd4373bf7e5f1510fca245bc59904272cc86ffc09fba531be95f43b395b83</citedby><cites>FETCH-LOGICAL-c399t-acb5dd4373bf7e5f1510fca245bc59904272cc86ffc09fba531be95f43b395b83</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1006/geno.2000.6336$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3550,27924,27925,45995</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=831748$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/11056048$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Hornum, Lars</creatorcontrib><creatorcontrib>Markholst, Helle</creatorcontrib><title>A Sequence-Ready PAC Contig of a 550-kb Region on Rat Chromosome 4 Including the Diabetes Susceptibility Gene Lyp</title><title>Genomics (San Diego, Calif.)</title><addtitle>Genomics</addtitle><description>The Lyp locus controls diabetes development in rats. The diabetogenic allele in diabetes-prone BB rats is responsible for T cell lymphopenia characterized by the absence of regulatory T cells. We present refined genetic and radiation hybrid maps of the Lyp region on rat chromosome 4, a single 800-kb rat yeast artificial chromosome and a rat P1-derived artificial chromosome (PAC) contig corresponding to ∼550 kb, both encompassing the entire candidate region. The contig, consisting of 48 PACs, gives 3- to 12-fold coverage. Genetic, radiation hybrid, and physical data were all in agreement and supported the same marker order. Nine genes and ESTs were identified in the contig in addition to a rat EST from the University of Iowa rat EST database—all possible candidate genes for Lyp. Alignment of our rat PAC contig with sequenced human PAC/BAC contigs confirms the position within the region of 3 of the 10 candidates and identifies an additional 8 genes/ESTs as candidates. These data will facilitate identification of Lyp.</description><subject>Animals</subject><subject>Biological and medical sciences</subject><subject>Chromosome 4</subject><subject>Chromosomes, Artificial, Bacterial</subject><subject>Chromosomes, Artificial, Yeast</subject><subject>Classical genetics, quantitative genetics, hybrids</subject><subject>Contig Mapping</subject><subject>Cricetinae</subject><subject>Diabetes Mellitus, Type 1 - genetics</subject><subject>Expressed Sequence Tags</subject><subject>Female</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetic Predisposition to Disease - genetics</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Humans</subject><subject>Lyp gene</subject><subject>Male</subject><subject>Mice</subject><subject>Protein Tyrosine Phosphatase, Non-Receptor Type 1</subject><subject>Protein Tyrosine Phosphatase, Non-Receptor Type 22</subject><subject>Protein Tyrosine Phosphatases - genetics</subject><subject>Rats</subject><subject>Rats, Inbred BB</subject><subject>Rats, Inbred BN</subject><subject>Vertebrata</subject><issn>0888-7543</issn><issn>1089-8646</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2000</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqF0UGL1DAUB_AgijuuXj1KQPDW2aRJ2vQ4dHVdGFiZXc8hSV9mo20ym7TCfHvbnUFPIjzI5ZfHe--P0HtK1pSQ6moPIa5LQsi6Yqx6gVaUyKaQFa9eohWRUha14OwCvcn5x6waJsvX6IJSIirC5Qo9bfA9PE0QLBQ70N0Rf9u0uI1h9HscHdZYCFL8NHgHex8DnmunR9w-pjjEHAfAHN8G20-dD3s8PgK-9trACBnfT9nCYfTG93484hsIgLfHw1v0yuk-w7vze4m-f_n80H4ttnc3t-1mW1jWNGOhrRFdx1nNjKtBOCoocVaXXBgrmobwsi6tlZVzljTOaMGogUY4zgxrhJHsEn069T2kOC-YRzX4eaC-1wHilFVdMimIIP-FtK44ZXyB6xO0KeacwKlD8oNOR0WJWtJQSxpqSUMtacwfPpw7T2aA7i8_n38GH89AZ6t7l3SwPv9xktH6WcmTgvlcvzwkla1fEut8AjuqLvp_TfAbHuSj9Q</recordid><startdate>20001101</startdate><enddate>20001101</enddate><creator>Hornum, Lars</creator><creator>Markholst, Helle</creator><general>Elsevier Inc</general><general>Elsevier</general><scope>IQODW</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>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20001101</creationdate><title>A Sequence-Ready PAC Contig of a 550-kb Region on Rat Chromosome 4 Including the Diabetes Susceptibility Gene Lyp</title><author>Hornum, Lars ; Markholst, Helle</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c399t-acb5dd4373bf7e5f1510fca245bc59904272cc86ffc09fba531be95f43b395b83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2000</creationdate><topic>Animals</topic><topic>Biological and medical sciences</topic><topic>Chromosome 4</topic><topic>Chromosomes, Artificial, Bacterial</topic><topic>Chromosomes, Artificial, Yeast</topic><topic>Classical genetics, quantitative genetics, hybrids</topic><topic>Contig Mapping</topic><topic>Cricetinae</topic><topic>Diabetes Mellitus, Type 1 - genetics</topic><topic>Expressed Sequence Tags</topic><topic>Female</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Genetic Predisposition to Disease - genetics</topic><topic>Genetics of eukaryotes. Biological and molecular evolution</topic><topic>Humans</topic><topic>Lyp gene</topic><topic>Male</topic><topic>Mice</topic><topic>Protein Tyrosine Phosphatase, Non-Receptor Type 1</topic><topic>Protein Tyrosine Phosphatase, Non-Receptor Type 22</topic><topic>Protein Tyrosine Phosphatases - genetics</topic><topic>Rats</topic><topic>Rats, Inbred BB</topic><topic>Rats, Inbred BN</topic><topic>Vertebrata</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Hornum, Lars</creatorcontrib><creatorcontrib>Markholst, Helle</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Genomics (San Diego, Calif.)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Hornum, Lars</au><au>Markholst, Helle</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A Sequence-Ready PAC Contig of a 550-kb Region on Rat Chromosome 4 Including the Diabetes Susceptibility Gene Lyp</atitle><jtitle>Genomics (San Diego, Calif.)</jtitle><addtitle>Genomics</addtitle><date>2000-11-01</date><risdate>2000</risdate><volume>69</volume><issue>3</issue><spage>305</spage><epage>313</epage><pages>305-313</pages><issn>0888-7543</issn><eissn>1089-8646</eissn><abstract>The Lyp locus controls diabetes development in rats. The diabetogenic allele in diabetes-prone BB rats is responsible for T cell lymphopenia characterized by the absence of regulatory T cells. We present refined genetic and radiation hybrid maps of the Lyp region on rat chromosome 4, a single 800-kb rat yeast artificial chromosome and a rat P1-derived artificial chromosome (PAC) contig corresponding to ∼550 kb, both encompassing the entire candidate region. The contig, consisting of 48 PACs, gives 3- to 12-fold coverage. Genetic, radiation hybrid, and physical data were all in agreement and supported the same marker order. Nine genes and ESTs were identified in the contig in addition to a rat EST from the University of Iowa rat EST database—all possible candidate genes for Lyp. Alignment of our rat PAC contig with sequenced human PAC/BAC contigs confirms the position within the region of 3 of the 10 candidates and identifies an additional 8 genes/ESTs as candidates. These data will facilitate identification of Lyp.</abstract><cop>San Diego, CA</cop><pub>Elsevier Inc</pub><pmid>11056048</pmid><doi>10.1006/geno.2000.6336</doi><tpages>9</tpages></addata></record> |
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| subjects | Animals Biological and medical sciences Chromosome 4 Chromosomes, Artificial, Bacterial Chromosomes, Artificial, Yeast Classical genetics, quantitative genetics, hybrids Contig Mapping Cricetinae Diabetes Mellitus, Type 1 - genetics Expressed Sequence Tags Female Fundamental and applied biological sciences. Psychology Genetic Predisposition to Disease - genetics Genetics of eukaryotes. Biological and molecular evolution Humans Lyp gene Male Mice Protein Tyrosine Phosphatase, Non-Receptor Type 1 Protein Tyrosine Phosphatase, Non-Receptor Type 22 Protein Tyrosine Phosphatases - genetics Rats Rats, Inbred BB Rats, Inbred BN Vertebrata |
| title | A Sequence-Ready PAC Contig of a 550-kb Region on Rat Chromosome 4 Including the Diabetes Susceptibility Gene Lyp |
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