Contrasting Patterns of Transposable Element Insertions in Drosophila Heat-Shock Promoters
The proximal promoter regions of heat-shock genes harbor a remarkable number of P transposable element (TE) insertions relative to both positive and negative control proximal promoter regions in natural populations of Drosophila melanogaster. We have screened the sequenced genomes of 12 species of D...
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description | The proximal promoter regions of heat-shock genes harbor a remarkable number of P transposable element (TE) insertions relative to both positive and negative control proximal promoter regions in natural populations of Drosophila melanogaster. We have screened the sequenced genomes of 12 species of Drosophila to test whether this pattern is unique to these populations. In the 12 species' genomes, transposable element insertions are no more abundant in promoter regions of single-copy heat-shock genes than in promoters with similar or dissimilar architecture. Also, insertions appear randomly distributed across the promoter region, whereas insertions clustered near the transcription start site in promoters of single-copy heat-shock genes in D. melanogaster natural populations. Hsp70 promoters exhibit more TE insertions per promoter than all other genesets in the 12 species, similarly to in natural populations of D. melanogaster. Insertions in the Hsp70 promoter region, however, cluster away from the transcription start site in the 12 species, but near it in natural populations of D. melanogaster. These results suggest that D. melanogaster heat-shock promoters are unique in terms of their interaction with transposable elements, and confirm that Hsp70 promoters are distinctive in TE insertions across Drosophila. |
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We have screened the sequenced genomes of 12 species of Drosophila to test whether this pattern is unique to these populations. In the 12 species' genomes, transposable element insertions are no more abundant in promoter regions of single-copy heat-shock genes than in promoters with similar or dissimilar architecture. Also, insertions appear randomly distributed across the promoter region, whereas insertions clustered near the transcription start site in promoters of single-copy heat-shock genes in D. melanogaster natural populations. Hsp70 promoters exhibit more TE insertions per promoter than all other genesets in the 12 species, similarly to in natural populations of D. melanogaster. Insertions in the Hsp70 promoter region, however, cluster away from the transcription start site in the 12 species, but near it in natural populations of D. melanogaster. These results suggest that D. melanogaster heat-shock promoters are unique in terms of their interaction with transposable elements, and confirm that Hsp70 promoters are distinctive in TE insertions across Drosophila.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0008486</identifier><identifier>PMID: 20041194</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animals ; Binding sites ; Deoxyribonucleic acid ; DNA ; DNA Transposable Elements - genetics ; Drosophila ; Drosophila melanogaster ; Drosophila melanogaster - genetics ; Evolution ; Evolutionary Biology/Evolutionary and Comparative Genetics ; Evolutionary Biology/Genomics ; Gene Dosage - genetics ; Gene expression ; Genes ; Genetic aspects ; Genetics and Genomics/Comparative Genomics ; Genomes ; Genomics ; Heat ; heat shock promoters ; Heat shock proteins ; Heat-Shock Response - genetics ; HSP70 Heat-Shock Proteins - genetics ; Hsp70 promoter ; Hsp70 protein ; Insects ; insertional mutagenesis ; insertions ; Mutagenesis ; Mutagenesis, Insertional - genetics ; Natural populations ; nucleotide sequences ; Organismal biology ; P elements ; Phylogeny ; Populations ; Preferences ; promoter regions ; Promoter Regions, Genetic ; Promoters ; Promoters (Genetics) ; Shock ; Species ; Transcription ; Transcription (Genetics) ; transcription start site ; Transposons</subject><ispartof>PloS one, 2009-12, Vol.4 (12), p.e8486</ispartof><rights>COPYRIGHT 2009 Public Library of Science</rights><rights>2009 Haney, Feder. This is an open-access article distributed under the terms of the Creative Commons Attribution License (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>Haney, Feder. 2009</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c719t-c36ab89f039024e63c889389f5600cf09705b91385decbc0858567c94ddff5d73</citedby><cites>FETCH-LOGICAL-c719t-c36ab89f039024e63c889389f5600cf09705b91385decbc0858567c94ddff5d73</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC2793543/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC2793543/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,725,778,782,862,883,2098,2917,23855,27913,27914,53780,53782,79359,79360</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/20041194$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Hahn, Matthew W.</contributor><creatorcontrib>Haney, Robert A</creatorcontrib><creatorcontrib>Feder, Martin E</creatorcontrib><title>Contrasting Patterns of Transposable Element Insertions in Drosophila Heat-Shock Promoters</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>The proximal promoter regions of heat-shock genes harbor a remarkable number of P transposable element (TE) insertions relative to both positive and negative control proximal promoter regions in natural populations of Drosophila melanogaster. We have screened the sequenced genomes of 12 species of Drosophila to test whether this pattern is unique to these populations. In the 12 species' genomes, transposable element insertions are no more abundant in promoter regions of single-copy heat-shock genes than in promoters with similar or dissimilar architecture. Also, insertions appear randomly distributed across the promoter region, whereas insertions clustered near the transcription start site in promoters of single-copy heat-shock genes in D. melanogaster natural populations. Hsp70 promoters exhibit more TE insertions per promoter than all other genesets in the 12 species, similarly to in natural populations of D. melanogaster. Insertions in the Hsp70 promoter region, however, cluster away from the transcription start site in the 12 species, but near it in natural populations of D. melanogaster. These results suggest that D. melanogaster heat-shock promoters are unique in terms of their interaction with transposable elements, and confirm that Hsp70 promoters are distinctive in TE insertions across Drosophila.</description><subject>Animals</subject><subject>Binding sites</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA Transposable Elements - genetics</subject><subject>Drosophila</subject><subject>Drosophila melanogaster</subject><subject>Drosophila melanogaster - genetics</subject><subject>Evolution</subject><subject>Evolutionary Biology/Evolutionary and Comparative Genetics</subject><subject>Evolutionary Biology/Genomics</subject><subject>Gene Dosage - genetics</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genetics and Genomics/Comparative Genomics</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Heat</subject><subject>heat shock promoters</subject><subject>Heat shock proteins</subject><subject>Heat-Shock Response - genetics</subject><subject>HSP70 Heat-Shock Proteins - genetics</subject><subject>Hsp70 promoter</subject><subject>Hsp70 protein</subject><subject>Insects</subject><subject>insertional mutagenesis</subject><subject>insertions</subject><subject>Mutagenesis</subject><subject>Mutagenesis, Insertional - genetics</subject><subject>Natural populations</subject><subject>nucleotide sequences</subject><subject>Organismal biology</subject><subject>P elements</subject><subject>Phylogeny</subject><subject>Populations</subject><subject>Preferences</subject><subject>promoter regions</subject><subject>Promoter Regions, Genetic</subject><subject>Promoters</subject><subject>Promoters (Genetics)</subject><subject>Shock</subject><subject>Species</subject><subject>Transcription</subject><subject>Transcription (Genetics)</subject><subject>transcription start site</subject><subject>Transposons</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>DOA</sourceid><recordid>eNqNkl9v0zAUxSMEYmPwDRBEQgLx0OK_SfyCNJXBKk3aRDceeLEc5zpNcexiJwi-Pe7ajRbxgPxg6_p3j32PTpY9x2iKaYnfrfwYnLLTtXcwRQhVrCoeZMdYUDIpCKIP985H2ZMYVwhxWhXF4-yIIMQwFuw4-zrzbggqDp1r8ys1DBBczL3Jr4Nyce2jqi3kZxZ6cEM-dxHC0PmEdC7_EHz062VnVX4Oapgsll5_y6-C732SiU-zR0bZCM92-0l28_HsenY-ubj8NJ-dXkx0icUw0bRQdSUMogIRBgXVVSVoKvACIW2QKBGvBaYVb0DXGlW84kWpBWsaY3hT0pPs5VZ3bX2UO1uixEQQIjgVRSLmW6LxaiXXoetV-CW96uRtwYdWqjSWtiCZIHXNuBAEDBOG1iBMiUAXWAAyFJLW-91rY91Do2Fjnz0QPbxx3VK2_ockpaCc0STwZicQ_PcR4iD7LmqwVjnwY5QlYyVKBlSJfPUX-e_hpluqVen_nTM-PavTaqDvdAqH6VL9lJWk5LjgKDW8PWhIzAA_h1aNMcr54vP_s5dfDtnXe-wSlB2W0dvxNi-HINuCOgUoBjD37mEkN9m-m1Nusi132U5tL_adv2-6C_OfIBjlpWpDF-XNgiBMEa4ITZbS30Dw_lo</recordid><startdate>20091229</startdate><enddate>20091229</enddate><creator>Haney, Robert A</creator><creator>Feder, Martin E</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</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>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20091229</creationdate><title>Contrasting Patterns of Transposable Element Insertions in Drosophila Heat-Shock Promoters</title><author>Haney, Robert A ; Feder, Martin E</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c719t-c36ab89f039024e63c889389f5600cf09705b91385decbc0858567c94ddff5d73</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2009</creationdate><topic>Animals</topic><topic>Binding sites</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA Transposable Elements - genetics</topic><topic>Drosophila</topic><topic>Drosophila melanogaster</topic><topic>Drosophila melanogaster - genetics</topic><topic>Evolution</topic><topic>Evolutionary Biology/Evolutionary and Comparative Genetics</topic><topic>Evolutionary Biology/Genomics</topic><topic>Gene Dosage - genetics</topic><topic>Gene expression</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genetics and Genomics/Comparative Genomics</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Heat</topic><topic>heat shock promoters</topic><topic>Heat shock proteins</topic><topic>Heat-Shock Response - genetics</topic><topic>HSP70 Heat-Shock Proteins - genetics</topic><topic>Hsp70 promoter</topic><topic>Hsp70 protein</topic><topic>Insects</topic><topic>insertional mutagenesis</topic><topic>insertions</topic><topic>Mutagenesis</topic><topic>Mutagenesis, Insertional - genetics</topic><topic>Natural populations</topic><topic>nucleotide sequences</topic><topic>Organismal biology</topic><topic>P elements</topic><topic>Phylogeny</topic><topic>Populations</topic><topic>Preferences</topic><topic>promoter regions</topic><topic>Promoter Regions, Genetic</topic><topic>Promoters</topic><topic>Promoters (Genetics)</topic><topic>Shock</topic><topic>Species</topic><topic>Transcription</topic><topic>Transcription (Genetics)</topic><topic>transcription start site</topic><topic>Transposons</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Haney, Robert A</creatorcontrib><creatorcontrib>Feder, Martin E</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>Gale In Context: Opposing Viewpoints</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Nursing & Allied Health Database</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Meteorological & Geoastrophysical Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Materials Science & Engineering Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection (ProQuest)</collection><collection>Natural Science Collection (ProQuest)</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Materials Science Collection</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Materials Science Database</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Meteorological & Geoastrophysical Abstracts - 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We have screened the sequenced genomes of 12 species of Drosophila to test whether this pattern is unique to these populations. In the 12 species' genomes, transposable element insertions are no more abundant in promoter regions of single-copy heat-shock genes than in promoters with similar or dissimilar architecture. Also, insertions appear randomly distributed across the promoter region, whereas insertions clustered near the transcription start site in promoters of single-copy heat-shock genes in D. melanogaster natural populations. Hsp70 promoters exhibit more TE insertions per promoter than all other genesets in the 12 species, similarly to in natural populations of D. melanogaster. Insertions in the Hsp70 promoter region, however, cluster away from the transcription start site in the 12 species, but near it in natural populations of D. melanogaster. These results suggest that D. melanogaster heat-shock promoters are unique in terms of their interaction with transposable elements, and confirm that Hsp70 promoters are distinctive in TE insertions across Drosophila.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>20041194</pmid><doi>10.1371/journal.pone.0008486</doi><tpages>e8486</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Animals Binding sites Deoxyribonucleic acid DNA DNA Transposable Elements - genetics Drosophila Drosophila melanogaster Drosophila melanogaster - genetics Evolution Evolutionary Biology/Evolutionary and Comparative Genetics Evolutionary Biology/Genomics Gene Dosage - genetics Gene expression Genes Genetic aspects Genetics and Genomics/Comparative Genomics Genomes Genomics Heat heat shock promoters Heat shock proteins Heat-Shock Response - genetics HSP70 Heat-Shock Proteins - genetics Hsp70 promoter Hsp70 protein Insects insertional mutagenesis insertions Mutagenesis Mutagenesis, Insertional - genetics Natural populations nucleotide sequences Organismal biology P elements Phylogeny Populations Preferences promoter regions Promoter Regions, Genetic Promoters Promoters (Genetics) Shock Species Transcription Transcription (Genetics) transcription start site Transposons |
title | Contrasting Patterns of Transposable Element Insertions in Drosophila Heat-Shock Promoters |
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