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Characterization of Copy Number Variation's Potential Role in Marek's Disease
Marek's Disease (MD) is a highly contagious pathogenic and oncogenic disease primarily affecting chickens. Chicken Lines 63 and 72, as well as their recombinant congenic strains (RCS) with varied susceptibility to MD, are ideal models to study the complex mechanisms of genetic resistance to MD....
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| Published in: | International journal of molecular sciences 2017-05, Vol.18 (5), p.1020 |
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| Main Authors: | , , , , , , , , , , |
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| container_issue | 5 |
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| container_title | International journal of molecular sciences |
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| creator | Xu, Lingyang He, Yanghua Ding, Yi Sun, Guirong Carrillo, Jose Adrian Li, Yaokun Ghaly, Mona M Ma, Li Zhang, Huanmin Liu, George E Song, Jiuzhou |
| description | Marek's Disease (MD) is a highly contagious pathogenic and oncogenic disease primarily affecting chickens. Chicken Lines 63 and 72, as well as their recombinant congenic strains (RCS) with varied susceptibility to MD, are ideal models to study the complex mechanisms of genetic resistance to MD. In this study, we investigated copy number variation (CNV) in these inbred chicken lines using the Affymetrix Axiom HD 600 K SNP genotyping array. We detected 393 CNV segments across all ten chicken lines, of which 12 CNVs were specifically identified in Line 72. We then assessed genetic structure based on CNV and observed markedly different patterns. Finally, we validated two deletion events in Line 72 and correlated them with genes expression using qPCR and RNA-seq, respectively. Our combined results indicated that these two CNV deletions were likely to contribute to MD susceptibility. |
| doi_str_mv | 10.3390/ijms18051020 |
| format | article |
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Chicken Lines 63 and 72, as well as their recombinant congenic strains (RCS) with varied susceptibility to MD, are ideal models to study the complex mechanisms of genetic resistance to MD. In this study, we investigated copy number variation (CNV) in these inbred chicken lines using the Affymetrix Axiom HD 600 K SNP genotyping array. We detected 393 CNV segments across all ten chicken lines, of which 12 CNVs were specifically identified in Line 72. We then assessed genetic structure based on CNV and observed markedly different patterns. Finally, we validated two deletion events in Line 72 and correlated them with genes expression using qPCR and RNA-seq, respectively. Our combined results indicated that these two CNV deletions were likely to contribute to MD susceptibility.</description><identifier>ISSN: 1422-0067</identifier><identifier>ISSN: 1661-6596</identifier><identifier>EISSN: 1422-0067</identifier><identifier>DOI: 10.3390/ijms18051020</identifier><identifier>PMID: 28486430</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Animals ; Chickens ; Chickens - genetics ; Copy number ; Correlation ; DNA Copy Number Variations ; Gene Deletion ; Gene expression ; Genes ; Genetic structure ; Genetics ; Genotyping ; Inbreeding ; Infectious diseases ; Marek Disease - genetics ; Marek's disease ; Poultry ; Segments ; Single-nucleotide polymorphism ; Transcription</subject><ispartof>International journal of molecular sciences, 2017-05, Vol.18 (5), p.1020</ispartof><rights>Copyright MDPI AG 2017</rights><rights>2017 by the authors. 2017</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c412t-82560d1fbbed56daf171c0b44dcc83ad72fd8407e9f575d596aa7eb2dbb3e9f63</citedby><cites>FETCH-LOGICAL-c412t-82560d1fbbed56daf171c0b44dcc83ad72fd8407e9f575d596aa7eb2dbb3e9f63</cites><orcidid>0000-0002-9211-0244</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.proquest.com/docview/1910599192/fulltextPDF?pq-origsite=primo$$EPDF$$P50$$Gproquest$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.proquest.com/docview/1910599192?pq-origsite=primo$$EHTML$$P50$$Gproquest$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,25752,27923,27924,37011,37012,44589,53790,53792,74897</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28486430$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Xu, Lingyang</creatorcontrib><creatorcontrib>He, Yanghua</creatorcontrib><creatorcontrib>Ding, Yi</creatorcontrib><creatorcontrib>Sun, Guirong</creatorcontrib><creatorcontrib>Carrillo, Jose Adrian</creatorcontrib><creatorcontrib>Li, Yaokun</creatorcontrib><creatorcontrib>Ghaly, Mona M</creatorcontrib><creatorcontrib>Ma, Li</creatorcontrib><creatorcontrib>Zhang, Huanmin</creatorcontrib><creatorcontrib>Liu, George E</creatorcontrib><creatorcontrib>Song, Jiuzhou</creatorcontrib><title>Characterization of Copy Number Variation's Potential Role in Marek's Disease</title><title>International journal of molecular sciences</title><addtitle>Int J Mol Sci</addtitle><description>Marek's Disease (MD) is a highly contagious pathogenic and oncogenic disease primarily affecting chickens. Chicken Lines 63 and 72, as well as their recombinant congenic strains (RCS) with varied susceptibility to MD, are ideal models to study the complex mechanisms of genetic resistance to MD. In this study, we investigated copy number variation (CNV) in these inbred chicken lines using the Affymetrix Axiom HD 600 K SNP genotyping array. We detected 393 CNV segments across all ten chicken lines, of which 12 CNVs were specifically identified in Line 72. We then assessed genetic structure based on CNV and observed markedly different patterns. Finally, we validated two deletion events in Line 72 and correlated them with genes expression using qPCR and RNA-seq, respectively. Our combined results indicated that these two CNV deletions were likely to contribute to MD susceptibility.</description><subject>Animals</subject><subject>Chickens</subject><subject>Chickens - genetics</subject><subject>Copy number</subject><subject>Correlation</subject><subject>DNA Copy Number Variations</subject><subject>Gene Deletion</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genetic structure</subject><subject>Genetics</subject><subject>Genotyping</subject><subject>Inbreeding</subject><subject>Infectious diseases</subject><subject>Marek Disease - genetics</subject><subject>Marek's disease</subject><subject>Poultry</subject><subject>Segments</subject><subject>Single-nucleotide polymorphism</subject><subject>Transcription</subject><issn>1422-0067</issn><issn>1661-6596</issn><issn>1422-0067</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>PIMPY</sourceid><recordid>eNpdkd1LwzAUxYMoTqdvPkvBB31wms-2eRGkfsKmIuprSJvUZbbNTFph_vVGN8f06V7u-XG4hwPAHoInhHB4aia1RylkCGK4BrYQxXgAYZysr-w9sO39BEJMMOOboIdTmsaUwC0wysbSyaLVznzK1tgmsmWU2eksuuvqXLvoRTrzIxz66MG2ummNrKJHW-nINNFIOv0WlAvjtfR6B2yUsvJ6dzH74Pnq8im7GQzvr2-z8-GgoAi3gxSzGCpU5rlWLFayRAkqYE6pKoqUSJXgUqUUJpqXLGGK8VjKROdY5TkJt5j0wdncd9rltVZF-MrJSkydqaWbCSuN-Ks0Zixe7YdglFFOSDA4Whg4-95p34ra-EJXlWy07bxAHLI4SVHCA3rwD53YzjUhXqAQZJwjjgN1PKcKZ713ulw-g6D47kms9hTw_dUAS_i3GPIFqQyPUQ</recordid><startdate>20170509</startdate><enddate>20170509</enddate><creator>Xu, Lingyang</creator><creator>He, Yanghua</creator><creator>Ding, Yi</creator><creator>Sun, Guirong</creator><creator>Carrillo, Jose Adrian</creator><creator>Li, Yaokun</creator><creator>Ghaly, Mona M</creator><creator>Ma, Li</creator><creator>Zhang, Huanmin</creator><creator>Liu, George E</creator><creator>Song, Jiuzhou</creator><general>MDPI AG</general><general>MDPI</general><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>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>K9.</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>MBDVC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0002-9211-0244</orcidid></search><sort><creationdate>20170509</creationdate><title>Characterization of Copy Number Variation's Potential Role in Marek's Disease</title><author>Xu, Lingyang ; 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| ispartof | International journal of molecular sciences, 2017-05, Vol.18 (5), p.1020 |
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| source | PubMed Central (Open Access); Publicly Available Content Database |
| subjects | Animals Chickens Chickens - genetics Copy number Correlation DNA Copy Number Variations Gene Deletion Gene expression Genes Genetic structure Genetics Genotyping Inbreeding Infectious diseases Marek Disease - genetics Marek's disease Poultry Segments Single-nucleotide polymorphism Transcription |
| title | Characterization of Copy Number Variation's Potential Role in Marek's Disease |
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