Genome-wide association study reveals genetic architecture of eating behavior in pigs and its implications for humans obesity by comparative mapping
This study was aimed at identifying genomic regions controlling feeding behavior in Danish Duroc boars and its potential implications for eating behavior in humans. Data regarding individual daily feed intake (DFI), total daily time spent in feeder (TPD), number of daily visits to feeder (NVD), aver...
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| Veröffentlicht in: | PloS one 2013-08, Vol.8 (8), p.e71509-e71509 |
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| creator | Do, Duy Ngoc Strathe, Anders Bjerring Ostersen, Tage Jensen, Just Mark, Thomas Kadarmideen, Haja N |
| description | This study was aimed at identifying genomic regions controlling feeding behavior in Danish Duroc boars and its potential implications for eating behavior in humans. Data regarding individual daily feed intake (DFI), total daily time spent in feeder (TPD), number of daily visits to feeder (NVD), average duration of each visit (TPV), mean feed intake per visit (FPV) and mean feed intake rate (FR) were available for 1130 boars. All boars were genotyped using the Illumina Porcine SNP60 BeadChip. The association analyses were performed using the GenABEL package in the R program. Sixteen SNPs were found to have moderate genome-wide significance (p |
| doi_str_mv | 10.1371/journal.pone.0071509 |
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Data regarding individual daily feed intake (DFI), total daily time spent in feeder (TPD), number of daily visits to feeder (NVD), average duration of each visit (TPV), mean feed intake per visit (FPV) and mean feed intake rate (FR) were available for 1130 boars. All boars were genotyped using the Illumina Porcine SNP60 BeadChip. The association analyses were performed using the GenABEL package in the R program. Sixteen SNPs were found to have moderate genome-wide significance (p<5E-05) and 76 SNPs had suggestive (p<5E-04) association with feeding behavior traits. MSI2 gene on chromosome (SSC) 14 was very strongly associated with NVD. Thirty-six SNPs were located in genome regions where QTLs have previously been reported for behavior and/or feed intake traits in pigs. The regions: 64-65 Mb on SSC 1, 124-130 Mb on SSC 8, 63-68 Mb on SSC 11, 32-39 Mb and 59-60 Mb on SSC 12 harbored several signifcant SNPs. Synapse genes (GABRR2, PPP1R9B, SYT1, GABRR1, CADPS2, DLGAP2 and GOPC), dephosphorylation genes (PPM1E, DAPP1, PTPN18, PTPRZ1, PTPN4, MTMR4 and RNGTT) and positive regulation of peptide secretion genes (GHRH, NNAT and TCF7L2) were highly significantly associated with feeding behavior traits. This is the first GWAS to identify genetic variants and biological mechanisms for eating behavior in pigs and these results are important for genetic improvement of pig feed efficiency. We have also conducted pig-human comparative gene mapping to reveal key genomic regions and/or genes on the human genome that may influence eating behavior in human beings and consequently affect the development of obesity and metabolic syndrome. This is the first translational genomics study of its kind to report potential candidate genes for eating behavior in humans.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0071509</identifier><identifier>PMID: 23977060</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agriculture ; Animal behavior ; Animals ; Biological effects ; Biology ; Breeding ; Cattle ; Chromosome Mapping ; Chromosomes, Human - genetics ; Chromosomes, Mammalian - genetics ; Dephosphorylation ; Development and progression ; Eating ; Eating behavior ; Feed conversion ; Feed efficiency ; Feeding ; Feeding Behavior ; Feeds ; Food habits ; Gene expression ; Gene mapping ; Gene regulation ; Genes ; Genetic diversity ; Genetic improvement ; Genetic Markers ; Genetic Predisposition to Disease ; Genetic variance ; Genome, Human - genetics ; Genome-wide association studies ; Genome-Wide Association Study ; Genomes ; Genomics ; Growth hormone-releasing hormone ; Haplotypes - genetics ; Human behavior ; Humans ; Kinases ; Legal fees ; Linkage Disequilibrium - genetics ; Mapping ; Medicine ; Metabolic disorders ; Metabolic syndrome ; Molecular Sequence Annotation ; Obesity ; Obesity - genetics ; Phenotype ; Polymorphism, Single Nucleotide - genetics ; Quality Control ; Quantitative trait loci ; Quantitative Trait Loci - genetics ; Single nucleotide polymorphisms ; Single-nucleotide polymorphism ; Studies ; Suidae ; Sus scrofa - genetics ; Swine ; Synapses ; Veterinary Science</subject><ispartof>PloS one, 2013-08, Vol.8 (8), p.e71509-e71509</ispartof><rights>COPYRIGHT 2013 Public Library of Science</rights><rights>2013 Do et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (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>2013 Do et al 2013 Do et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c743t-37f89ce735a5524a14d3a04d179ef26919a56441b676a35f64450399995ca5673</citedby><cites>FETCH-LOGICAL-c743t-37f89ce735a5524a14d3a04d179ef26919a56441b676a35f64450399995ca5673</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/PMC3747221/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3747221/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23977060$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Do, Duy Ngoc</creatorcontrib><creatorcontrib>Strathe, Anders Bjerring</creatorcontrib><creatorcontrib>Ostersen, Tage</creatorcontrib><creatorcontrib>Jensen, Just</creatorcontrib><creatorcontrib>Mark, Thomas</creatorcontrib><creatorcontrib>Kadarmideen, Haja N</creatorcontrib><title>Genome-wide association study reveals genetic architecture of eating behavior in pigs and its implications for humans obesity by comparative mapping</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>This study was aimed at identifying genomic regions controlling feeding behavior in Danish Duroc boars and its potential implications for eating behavior in humans. Data regarding individual daily feed intake (DFI), total daily time spent in feeder (TPD), number of daily visits to feeder (NVD), average duration of each visit (TPV), mean feed intake per visit (FPV) and mean feed intake rate (FR) were available for 1130 boars. All boars were genotyped using the Illumina Porcine SNP60 BeadChip. The association analyses were performed using the GenABEL package in the R program. Sixteen SNPs were found to have moderate genome-wide significance (p<5E-05) and 76 SNPs had suggestive (p<5E-04) association with feeding behavior traits. MSI2 gene on chromosome (SSC) 14 was very strongly associated with NVD. Thirty-six SNPs were located in genome regions where QTLs have previously been reported for behavior and/or feed intake traits in pigs. The regions: 64-65 Mb on SSC 1, 124-130 Mb on SSC 8, 63-68 Mb on SSC 11, 32-39 Mb and 59-60 Mb on SSC 12 harbored several signifcant SNPs. Synapse genes (GABRR2, PPP1R9B, SYT1, GABRR1, CADPS2, DLGAP2 and GOPC), dephosphorylation genes (PPM1E, DAPP1, PTPN18, PTPRZ1, PTPN4, MTMR4 and RNGTT) and positive regulation of peptide secretion genes (GHRH, NNAT and TCF7L2) were highly significantly associated with feeding behavior traits. This is the first GWAS to identify genetic variants and biological mechanisms for eating behavior in pigs and these results are important for genetic improvement of pig feed efficiency. We have also conducted pig-human comparative gene mapping to reveal key genomic regions and/or genes on the human genome that may influence eating behavior in human beings and consequently affect the development of obesity and metabolic syndrome. This is the first translational genomics study of its kind to report potential candidate genes for eating behavior in humans.</description><subject>Agriculture</subject><subject>Animal behavior</subject><subject>Animals</subject><subject>Biological effects</subject><subject>Biology</subject><subject>Breeding</subject><subject>Cattle</subject><subject>Chromosome Mapping</subject><subject>Chromosomes, Human - genetics</subject><subject>Chromosomes, Mammalian - genetics</subject><subject>Dephosphorylation</subject><subject>Development and progression</subject><subject>Eating</subject><subject>Eating behavior</subject><subject>Feed conversion</subject><subject>Feed efficiency</subject><subject>Feeding</subject><subject>Feeding Behavior</subject><subject>Feeds</subject><subject>Food habits</subject><subject>Gene expression</subject><subject>Gene mapping</subject><subject>Gene regulation</subject><subject>Genes</subject><subject>Genetic diversity</subject><subject>Genetic improvement</subject><subject>Genetic Markers</subject><subject>Genetic Predisposition to Disease</subject><subject>Genetic variance</subject><subject>Genome, Human - genetics</subject><subject>Genome-wide association studies</subject><subject>Genome-Wide Association Study</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Growth hormone-releasing hormone</subject><subject>Haplotypes - genetics</subject><subject>Human behavior</subject><subject>Humans</subject><subject>Kinases</subject><subject>Legal fees</subject><subject>Linkage Disequilibrium - genetics</subject><subject>Mapping</subject><subject>Medicine</subject><subject>Metabolic disorders</subject><subject>Metabolic syndrome</subject><subject>Molecular Sequence Annotation</subject><subject>Obesity</subject><subject>Obesity - genetics</subject><subject>Phenotype</subject><subject>Polymorphism, Single Nucleotide - genetics</subject><subject>Quality Control</subject><subject>Quantitative trait loci</subject><subject>Quantitative Trait Loci - genetics</subject><subject>Single nucleotide polymorphisms</subject><subject>Single-nucleotide polymorphism</subject><subject>Studies</subject><subject>Suidae</subject><subject>Sus scrofa - genetics</subject><subject>Swine</subject><subject>Synapses</subject><subject>Veterinary Science</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk9tu1DAQhiMEoqXwBggsISG42MWO4zi5QaoqKCtVqsTp1po4k6yrJE5tZ2HfgwfGe2i1i3pBcpGR_c0_9p-ZJHnJ6JxxyT7c2MkN0M1HO-CcUskELR8lp6zk6SxPKX98EJ8kz7y_oVTwIs-fJicpL6WkOT1N_lziYHuc_TI1EvDeagPB2IH4MNVr4nCF0HnS4oDBaAJOL01AHSaHxDYEIzy0pMIlrIx1xAxkNK0nMNTEBE9MP3ZGbxU9aSKwnHqIoa3Qm7Am1Zpo24_gIrJC0sM4Rr3nyZMmVsUX--9Z8uPzp-8XX2ZX15eLi_OrmZYZDzMum6LUKLkAIdIMWFZzoFnNZIlNmpesBJFnGatymQMXTYwF5WV8hI47kp8lr3e6Y2e92hvqFcs4lYWIVkVisSNqCzdqdKYHt1YWjNouWNcqcNGYDlUOTZYD40VF84zrqtAlFbqChjagi1pHrY_7alPVY61xCA66I9HjncEsVWtXistMpimLAu_2As7eTuiD6o3X2HUwoJ02506LVDIpN-d-8w_68O32VAvxAmZobKyrN6LqPJNFygTnIlLzB6j41tgbHbuvMXH9KOH9UUJkAv4OLUzeq8W3r__PXv88Zt8esMvYmGHpbTdtu-sYzHagdtZ7h829yYyqzfDcuaE2w6P2wxPTXh3-oPuku2nhfwEm9Ra4</recordid><startdate>20130819</startdate><enddate>20130819</enddate><creator>Do, Duy Ngoc</creator><creator>Strathe, Anders Bjerring</creator><creator>Ostersen, Tage</creator><creator>Jensen, Just</creator><creator>Mark, Thomas</creator><creator>Kadarmideen, Haja N</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</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>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>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20130819</creationdate><title>Genome-wide association study reveals genetic architecture of eating behavior in pigs and its implications for humans obesity by comparative mapping</title><author>Do, Duy Ngoc ; Strathe, Anders Bjerring ; Ostersen, Tage ; Jensen, Just ; Mark, Thomas ; Kadarmideen, Haja N</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c743t-37f89ce735a5524a14d3a04d179ef26919a56441b676a35f64450399995ca5673</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>Agriculture</topic><topic>Animal behavior</topic><topic>Animals</topic><topic>Biological effects</topic><topic>Biology</topic><topic>Breeding</topic><topic>Cattle</topic><topic>Chromosome Mapping</topic><topic>Chromosomes, Human - genetics</topic><topic>Chromosomes, Mammalian - genetics</topic><topic>Dephosphorylation</topic><topic>Development and progression</topic><topic>Eating</topic><topic>Eating behavior</topic><topic>Feed conversion</topic><topic>Feed efficiency</topic><topic>Feeding</topic><topic>Feeding Behavior</topic><topic>Feeds</topic><topic>Food habits</topic><topic>Gene expression</topic><topic>Gene mapping</topic><topic>Gene regulation</topic><topic>Genes</topic><topic>Genetic diversity</topic><topic>Genetic improvement</topic><topic>Genetic Markers</topic><topic>Genetic Predisposition to Disease</topic><topic>Genetic variance</topic><topic>Genome, Human - genetics</topic><topic>Genome-wide association studies</topic><topic>Genome-Wide Association Study</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Growth hormone-releasing hormone</topic><topic>Haplotypes - genetics</topic><topic>Human behavior</topic><topic>Humans</topic><topic>Kinases</topic><topic>Legal fees</topic><topic>Linkage Disequilibrium - 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Data regarding individual daily feed intake (DFI), total daily time spent in feeder (TPD), number of daily visits to feeder (NVD), average duration of each visit (TPV), mean feed intake per visit (FPV) and mean feed intake rate (FR) were available for 1130 boars. All boars were genotyped using the Illumina Porcine SNP60 BeadChip. The association analyses were performed using the GenABEL package in the R program. Sixteen SNPs were found to have moderate genome-wide significance (p<5E-05) and 76 SNPs had suggestive (p<5E-04) association with feeding behavior traits. MSI2 gene on chromosome (SSC) 14 was very strongly associated with NVD. Thirty-six SNPs were located in genome regions where QTLs have previously been reported for behavior and/or feed intake traits in pigs. The regions: 64-65 Mb on SSC 1, 124-130 Mb on SSC 8, 63-68 Mb on SSC 11, 32-39 Mb and 59-60 Mb on SSC 12 harbored several signifcant SNPs. Synapse genes (GABRR2, PPP1R9B, SYT1, GABRR1, CADPS2, DLGAP2 and GOPC), dephosphorylation genes (PPM1E, DAPP1, PTPN18, PTPRZ1, PTPN4, MTMR4 and RNGTT) and positive regulation of peptide secretion genes (GHRH, NNAT and TCF7L2) were highly significantly associated with feeding behavior traits. This is the first GWAS to identify genetic variants and biological mechanisms for eating behavior in pigs and these results are important for genetic improvement of pig feed efficiency. We have also conducted pig-human comparative gene mapping to reveal key genomic regions and/or genes on the human genome that may influence eating behavior in human beings and consequently affect the development of obesity and metabolic syndrome. This is the first translational genomics study of its kind to report potential candidate genes for eating behavior in humans.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>23977060</pmid><doi>10.1371/journal.pone.0071509</doi><tpages>e71509</tpages><oa>free_for_read</oa></addata></record> |
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| issn | 1932-6203 1932-6203 |
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| source | Public Library of Science (PLoS) Journals Open Access; MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Agriculture Animal behavior Animals Biological effects Biology Breeding Cattle Chromosome Mapping Chromosomes, Human - genetics Chromosomes, Mammalian - genetics Dephosphorylation Development and progression Eating Eating behavior Feed conversion Feed efficiency Feeding Feeding Behavior Feeds Food habits Gene expression Gene mapping Gene regulation Genes Genetic diversity Genetic improvement Genetic Markers Genetic Predisposition to Disease Genetic variance Genome, Human - genetics Genome-wide association studies Genome-Wide Association Study Genomes Genomics Growth hormone-releasing hormone Haplotypes - genetics Human behavior Humans Kinases Legal fees Linkage Disequilibrium - genetics Mapping Medicine Metabolic disorders Metabolic syndrome Molecular Sequence Annotation Obesity Obesity - genetics Phenotype Polymorphism, Single Nucleotide - genetics Quality Control Quantitative trait loci Quantitative Trait Loci - genetics Single nucleotide polymorphisms Single-nucleotide polymorphism Studies Suidae Sus scrofa - genetics Swine Synapses Veterinary Science |
| title | Genome-wide association study reveals genetic architecture of eating behavior in pigs and its implications for humans obesity by comparative mapping |
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