Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
An exome sequencing based approach for genome-wide association studies in the dog
Univ Ghent, Lab Anim Genet, Fac Vet Med, Merelbeke, Belgium..
Univ Rennes 1, CNRS URM6290, Inst Genet & Dev Rennes, Rennes, France..
Univ Rennes 1, CNRS URM6290, Inst Genet & Dev Rennes, Rennes, France..
Univ Rennes 1, CNRS URM6290, Inst Genet & Dev Rennes, Rennes, France..
Show others and affiliations
2017 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 7, article id 15680Article in journal (Refereed) Published
Abstract [en]

Genome-wide association studies (GWAS) are widely used to identify loci associated with phenotypic traits in the domestic dog that has emerged as a model for Mendelian and complex traits. However, a disadvantage of GWAS is that it always requires subsequent fine-mapping or sequencing to pinpoint causal mutations. Here, we performed whole exome sequencing (WES) and canine high-density (cHD) SNP genotyping of 28 dogs from 3 breeds to compare the SNP and linkage disequilibrium characteristics together with the power and mapping precision of exome-guided GWAS (EG-GWAS) versus cHD-based GWAS. Using simulated phenotypes, we showed that EG-GWAS has a higher power than cHD to detect associations within target regions and less power outside target regions, with power being influenced further by sample size and SNP density. We analyzed two real phenotypes (hair length and furnishing), that are fixed in certain breeds to characterize mapping precision of the known causal mutations. EG-GWAS identified the associated exonic and 3'UTR variants within the FGF5 and RSPO2 genes, respectively, with only a few samples per breed. In conclusion, we demonstrated that EG-GWAS can identify loci associated with Mendelian phenotypes both within and across breeds.

Place, publisher, year, edition, pages
2017. Vol. 7, article id 15680
National Category
Medical Genetics
Identifiers
URN: urn:nbn:se:uu:diva-342385DOI: 10.1038/s41598-017-15947-9ISI: 000415266100029PubMedID: 29142306OAI: oai:DiVA.org:uu-342385DiVA, id: diva2:1184791
Available from: 2018-02-22 Created: 2018-02-22 Last updated: 2018-02-22Bibliographically approved

Open Access in DiVA

fulltext(1692 kB)4 downloads
File information
File name FULLTEXT01.pdfFile size 1692 kBChecksum SHA-512
2b70affe4590a5aacab6ac2a04ea51be526d756965848cc92b7c1268c6fe2bfb1a8b46092b7bf824b8cafdc84f1d263b094f2c448da22caa4f550ecd4d128879
Type fulltextMimetype application/pdf

Other links

Publisher's full textPubMed

Search in DiVA

By author/editor
Lindblad-Toh, Kerstin
By organisation
Department of Medical Biochemistry and MicrobiologyScience for Life Laboratory, SciLifeLab
In the same journal
Scientific Reports
Medical Genetics

Search outside of DiVA

GoogleGoogle Scholar
Total: 4 downloads
The number of downloads is the sum of all downloads of full texts. It may include eg previous versions that are now no longer available

doi
pubmed
urn-nbn

Altmetric score

doi
pubmed
urn-nbn
Total: 27 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf