Identification of Imprinted Loci by Methylation-Sensitive Representational Difference Analysis: Application to Mouse Distal Chromosome 2
Imprinted genes are distinguished by different patterns of methylation on their parental alleles, a property by which imprinted loci could be identified systematically. Here, representational difference analysis (RDA) is used to clone HpaII fragments with methylation differences on the maternal and...
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| Veröffentlicht in: | Genomics (San Diego, Calif.) Calif.), 1999-12, Vol.62 (2), p.129-138 |
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| container_title | Genomics (San Diego, Calif.) |
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| creator | Kelsey, Gavin Bodle, Dorothy Miller, Howard J. Beechey, Colin V. Coombes, Candice Peters, Josephine Williamson, Christine M. |
| description | Imprinted genes are distinguished by different patterns of methylation on their parental alleles, a property by which imprinted loci could be identified systematically. Here, representational difference analysis (RDA) is used to clone HpaII fragments with methylation differences on the maternal and paternal copies of distal chromosome (Chr) 2 in the mouse. Uniparental inheritance for this region causes imprinting phenotypes whose molecular basis is only partially understood. RDA led to the recovery of multiple differentially methylated HpaII fragments at two major sites of imprinted methylation: paternal-specific methylation at the Nesp locus and maternal-specific methylation at the Gnasxl locus. Nesp and Gnasxl represent oppositely imprinted promoters of the Gnas gene, which encodes the G-protein subunit, Gsα. The organization of the Nesp–Gnasxl–Gnas region was determined: Nesp and Gnasxl were found to be 15 kb apart, and Gnasxl was found to be 30 kb upstream of Gnas. Sites of imprinted methylation were also detected at the loci for neuronatin on Chr 2 and for M-cadherin on Chr 8. RDA was highly effective at identifying imprinted methylation, and its potential applications to imprinting studies are discussed. |
| doi_str_mv | 10.1006/geno.1999.6022 |
| format | Article |
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Here, representational difference analysis (RDA) is used to clone HpaII fragments with methylation differences on the maternal and paternal copies of distal chromosome (Chr) 2 in the mouse. Uniparental inheritance for this region causes imprinting phenotypes whose molecular basis is only partially understood. RDA led to the recovery of multiple differentially methylated HpaII fragments at two major sites of imprinted methylation: paternal-specific methylation at the Nesp locus and maternal-specific methylation at the Gnasxl locus. Nesp and Gnasxl represent oppositely imprinted promoters of the Gnas gene, which encodes the G-protein subunit, Gsα. The organization of the Nesp–Gnasxl–Gnas region was determined: Nesp and Gnasxl were found to be 15 kb apart, and Gnasxl was found to be 30 kb upstream of Gnas. Sites of imprinted methylation were also detected at the loci for neuronatin on Chr 2 and for M-cadherin on Chr 8. RDA was highly effective at identifying imprinted methylation, and its potential applications to imprinting studies are discussed.</description><identifier>ISSN: 0888-7543</identifier><identifier>EISSN: 1089-8646</identifier><identifier>DOI: 10.1006/geno.1999.6022</identifier><identifier>PMID: 10610704</identifier><language>eng</language><publisher>San Diego, CA: Elsevier Inc</publisher><subject>Animals ; Biological and medical sciences ; Chromogranins ; chromosome 2 ; Chromosome Mapping - methods ; Classical genetics, quantitative genetics, hybrids ; Cloning, Molecular ; CpG Islands - genetics ; DNA Methylation ; Female ; Fundamental and applied biological sciences. Psychology ; Genetic Markers ; Genetics of eukaryotes. Biological and molecular evolution ; Genomic Imprinting ; GTP-Binding Protein alpha Subunits, Gs - genetics ; guanine nucleotide-binding protein ; Humans ; Male ; Mice ; Molecular Sequence Data ; Nerve Tissue Proteins - genetics ; Nesp gene ; Sequence Analysis, DNA - methods ; Vertebrata</subject><ispartof>Genomics (San Diego, Calif.), 1999-12, Vol.62 (2), p.129-138</ispartof><rights>1999 Academic Press</rights><rights>2000 INIST-CNRS</rights><rights>Copyright 1999 Academic Press.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c466t-47c19c1636d08c20512e1a34cf0ea321a6d25f512d245a4925268c61bbc8c64a3</citedby><cites>FETCH-LOGICAL-c466t-47c19c1636d08c20512e1a34cf0ea321a6d25f512d245a4925268c61bbc8c64a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0888754399960226$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65534</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=1262440$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/10610704$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kelsey, Gavin</creatorcontrib><creatorcontrib>Bodle, Dorothy</creatorcontrib><creatorcontrib>Miller, Howard J.</creatorcontrib><creatorcontrib>Beechey, Colin V.</creatorcontrib><creatorcontrib>Coombes, Candice</creatorcontrib><creatorcontrib>Peters, Josephine</creatorcontrib><creatorcontrib>Williamson, Christine M.</creatorcontrib><title>Identification of Imprinted Loci by Methylation-Sensitive Representational Difference Analysis: Application to Mouse Distal Chromosome 2</title><title>Genomics (San Diego, Calif.)</title><addtitle>Genomics</addtitle><description>Imprinted genes are distinguished by different patterns of methylation on their parental alleles, a property by which imprinted loci could be identified systematically. Here, representational difference analysis (RDA) is used to clone HpaII fragments with methylation differences on the maternal and paternal copies of distal chromosome (Chr) 2 in the mouse. Uniparental inheritance for this region causes imprinting phenotypes whose molecular basis is only partially understood. RDA led to the recovery of multiple differentially methylated HpaII fragments at two major sites of imprinted methylation: paternal-specific methylation at the Nesp locus and maternal-specific methylation at the Gnasxl locus. Nesp and Gnasxl represent oppositely imprinted promoters of the Gnas gene, which encodes the G-protein subunit, Gsα. The organization of the Nesp–Gnasxl–Gnas region was determined: Nesp and Gnasxl were found to be 15 kb apart, and Gnasxl was found to be 30 kb upstream of Gnas. Sites of imprinted methylation were also detected at the loci for neuronatin on Chr 2 and for M-cadherin on Chr 8. RDA was highly effective at identifying imprinted methylation, and its potential applications to imprinting studies are discussed.</description><subject>Animals</subject><subject>Biological and medical sciences</subject><subject>Chromogranins</subject><subject>chromosome 2</subject><subject>Chromosome Mapping - methods</subject><subject>Classical genetics, quantitative genetics, hybrids</subject><subject>Cloning, Molecular</subject><subject>CpG Islands - genetics</subject><subject>DNA Methylation</subject><subject>Female</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetic Markers</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Genomic Imprinting</subject><subject>GTP-Binding Protein alpha Subunits, Gs - genetics</subject><subject>guanine nucleotide-binding protein</subject><subject>Humans</subject><subject>Male</subject><subject>Mice</subject><subject>Molecular Sequence Data</subject><subject>Nerve Tissue Proteins - genetics</subject><subject>Nesp gene</subject><subject>Sequence Analysis, DNA - methods</subject><subject>Vertebrata</subject><issn>0888-7543</issn><issn>1089-8646</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1999</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkUFv1DAQhS0EotvClSPyAXHLduw4jsNttYWy0laVCpwtrzOhRkkcbG-l_Qf8bJzuIrhUnEb2fO9p9B4hbxgsGYC8_I6jX7KmaZYSOH9GFgxUUygp5HOyAKVUUVeiPCPnMf4AgKZU_CU5YyAZ1CAW5NemxTG5zlmTnB-p7-hmmIIbE7Z0662juwO9wXR_6B-B4guO0SX3gPQOp4Axqx8XpqdXrusw4GiRrvL7EF38QFfT1P8xT57e-H3ETMaUBev74Acf_YCUvyIvOtNHfH2aF-Tbp49f15-L7e31Zr3aFlZImQpRW9ZYJkvZgrIcKsaRmVLYDtCUnBnZ8qrLvy0XlRENr7hUVrLdzuYhTHlB3h99p-B_7jEmPbhose_NiPk2LZuyljVU_wVZLbgAJTK4PII2-BgDdjrnN5hw0Az0XJKeS9JzSXouKQvenpz3uwHbf_BjKxl4dwJMtKbvghmti385LrkQkDF1xDDn9eAw6GjdHH_rAtqkW--eOuE3A0Cu9g</recordid><startdate>19991201</startdate><enddate>19991201</enddate><creator>Kelsey, Gavin</creator><creator>Bodle, Dorothy</creator><creator>Miller, Howard J.</creator><creator>Beechey, Colin V.</creator><creator>Coombes, Candice</creator><creator>Peters, Josephine</creator><creator>Williamson, Christine M.</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>19991201</creationdate><title>Identification of Imprinted Loci by Methylation-Sensitive Representational Difference Analysis: Application to Mouse Distal Chromosome 2</title><author>Kelsey, Gavin ; Bodle, Dorothy ; Miller, Howard J. ; Beechey, Colin V. ; Coombes, Candice ; Peters, Josephine ; Williamson, Christine M.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c466t-47c19c1636d08c20512e1a34cf0ea321a6d25f512d245a4925268c61bbc8c64a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1999</creationdate><topic>Animals</topic><topic>Biological and medical sciences</topic><topic>Chromogranins</topic><topic>chromosome 2</topic><topic>Chromosome Mapping - methods</topic><topic>Classical genetics, quantitative genetics, hybrids</topic><topic>Cloning, Molecular</topic><topic>CpG Islands - genetics</topic><topic>DNA Methylation</topic><topic>Female</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Genetic Markers</topic><topic>Genetics of eukaryotes. Biological and molecular evolution</topic><topic>Genomic Imprinting</topic><topic>GTP-Binding Protein alpha Subunits, Gs - genetics</topic><topic>guanine nucleotide-binding protein</topic><topic>Humans</topic><topic>Male</topic><topic>Mice</topic><topic>Molecular Sequence Data</topic><topic>Nerve Tissue Proteins - genetics</topic><topic>Nesp gene</topic><topic>Sequence Analysis, DNA - methods</topic><topic>Vertebrata</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kelsey, Gavin</creatorcontrib><creatorcontrib>Bodle, Dorothy</creatorcontrib><creatorcontrib>Miller, Howard J.</creatorcontrib><creatorcontrib>Beechey, Colin V.</creatorcontrib><creatorcontrib>Coombes, Candice</creatorcontrib><creatorcontrib>Peters, Josephine</creatorcontrib><creatorcontrib>Williamson, Christine M.</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>Kelsey, Gavin</au><au>Bodle, Dorothy</au><au>Miller, Howard J.</au><au>Beechey, Colin V.</au><au>Coombes, Candice</au><au>Peters, Josephine</au><au>Williamson, Christine M.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification of Imprinted Loci by Methylation-Sensitive Representational Difference Analysis: Application to Mouse Distal Chromosome 2</atitle><jtitle>Genomics (San Diego, Calif.)</jtitle><addtitle>Genomics</addtitle><date>1999-12-01</date><risdate>1999</risdate><volume>62</volume><issue>2</issue><spage>129</spage><epage>138</epage><pages>129-138</pages><issn>0888-7543</issn><eissn>1089-8646</eissn><abstract>Imprinted genes are distinguished by different patterns of methylation on their parental alleles, a property by which imprinted loci could be identified systematically. Here, representational difference analysis (RDA) is used to clone HpaII fragments with methylation differences on the maternal and paternal copies of distal chromosome (Chr) 2 in the mouse. Uniparental inheritance for this region causes imprinting phenotypes whose molecular basis is only partially understood. RDA led to the recovery of multiple differentially methylated HpaII fragments at two major sites of imprinted methylation: paternal-specific methylation at the Nesp locus and maternal-specific methylation at the Gnasxl locus. Nesp and Gnasxl represent oppositely imprinted promoters of the Gnas gene, which encodes the G-protein subunit, Gsα. The organization of the Nesp–Gnasxl–Gnas region was determined: Nesp and Gnasxl were found to be 15 kb apart, and Gnasxl was found to be 30 kb upstream of Gnas. Sites of imprinted methylation were also detected at the loci for neuronatin on Chr 2 and for M-cadherin on Chr 8. RDA was highly effective at identifying imprinted methylation, and its potential applications to imprinting studies are discussed.</abstract><cop>San Diego, CA</cop><pub>Elsevier Inc</pub><pmid>10610704</pmid><doi>10.1006/geno.1999.6022</doi><tpages>10</tpages></addata></record> |
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| ispartof | Genomics (San Diego, Calif.), 1999-12, Vol.62 (2), p.129-138 |
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| subjects | Animals Biological and medical sciences Chromogranins chromosome 2 Chromosome Mapping - methods Classical genetics, quantitative genetics, hybrids Cloning, Molecular CpG Islands - genetics DNA Methylation Female Fundamental and applied biological sciences. Psychology Genetic Markers Genetics of eukaryotes. Biological and molecular evolution Genomic Imprinting GTP-Binding Protein alpha Subunits, Gs - genetics guanine nucleotide-binding protein Humans Male Mice Molecular Sequence Data Nerve Tissue Proteins - genetics Nesp gene Sequence Analysis, DNA - methods Vertebrata |
| title | Identification of Imprinted Loci by Methylation-Sensitive Representational Difference Analysis: Application to Mouse Distal Chromosome 2 |
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