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Analysis of porcine...
Analysis of porcine body size variation using re-sequencing data of miniature and large pigs
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- Reimer, C. (författare)
- Univ Goettingen, Dept Anim Sci, Anim Breeding & Genet Grp, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany;Univ Goettingen, Ctr Integrated Breeding Res, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany
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- Rubin, Carl-Johan (författare)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab
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- Sharifi, A. R. (författare)
- Univ Goettingen, Dept Anim Sci, Anim Breeding & Genet Grp, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany;Univ Goettingen, Ctr Integrated Breeding Res, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany
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Ha, N. -T (författare)
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- Weigend, S. (författare)
- Friedrich Loeffler Inst, Inst Farm Anim Genet, Holtystr 10, D-31535 Neustadt, Germany;Univ Goettingen, Ctr Integrated Breeding Res, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany
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Waldmann, K. -H (författare)
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- Distl, O. (författare)
- Univ Vet Med Fdn, Inst Anim Breeding & Genet, Bunteweg 17p, D-30559 Hannover, Germany
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- Pant, S. D. (författare)
- Charles Sturt Univ, Sch Anim & Vet Sci, Graham Ctr Agr Innovat, Locked Bag 588,Boorooma St, Wagga Wagga, NSW, Australia
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- Fredholm, M. (författare)
- Univ Copenhagen, Dept Vet & Anim Sci, Gronnegardsvej 3, DK-1870 Frederiksberg C, Denmark
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- Schlather, M. (författare)
- Univ Mannheim, Sch Business Informat & Math, A5 6, D-68131 Mannheim, Germany;Univ Goettingen, Ctr Integrated Breeding Res, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany
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- Simianer, H. (författare)
- Univ Goettingen, Dept Anim Sci, Anim Breeding & Genet Grp, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany;Univ Goettingen, Ctr Integrated Breeding Res, Albrecht Thaer Weg 3, D-37075 Gottingen, Germany
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(creator_code:org_t)
- 2018-09-19
- 2018
- Engelska.
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Ingår i: BMC Genomics. - : BMC. - 1471-2164. ; 19
- Relaterad länk:
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https://uu.diva-port... (primary) (Raw object)
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https://bmcgenomics....
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Background: Domestication has led to substantial phenotypic and genetic variation in domestic animals. In pigs, the size of so called minipigs differs by one order of magnitude compared to breeds of large body size. We used biallelic SNPs identified from re-sequencing data to compare various publicly available wild and domestic populations against two minipig breeds to gain better understanding of the genetic background of the extensive body size variation. We combined two complementary measures, expected heterozygosity and the composite likelihood ratio test implemented in "SweepFinder", to identify signatures of selection in Minipigs. We intersected these sweep regions with a measure of differentiation, namely F-ST, to remove regions of low variation across pigs. An extraordinary large sweep between 52 and 61 Mb on chromosome X was separately analyzed based on SNP-array data of F-2 individuals from a cross of Goettingen Minipigs and large pigs. Results: Selective sweep analysis identified putative sweep regions for growth and subsequent gene annotation provided a comprehensive set of putative candidate genes. A long swept haplotype on chromosome X, descending from the Goettingen Minipig founders was associated with a reduction of adult body length by 3% in F-2 cross-breds. Conclusion: The resulting set of genes in putative sweep regions implies that the genetic background of body size variation in pigs is polygenic rather than mono-or oligogenic. Identified genes suggest alterations in metabolic functions and a possible insulin resistance to contribute to miniaturization. A size QTL located within the sweep on chromosome X, with an estimated effect of 3% on body length, is comparable to the largest known in pigs or other species. The androgen receptor AR, previously known to influence pig performance and carcass traits, is the most obvious potential candidate gene within this region.
Ämnesord
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
- LANTBRUKSVETENSKAPER -- Bioteknologi med applikationer på växter och djur -- Genetik och förädling inom lantbruksvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agricultural Biotechnology -- Genetics and Breeding in Agricultural Sciences (hsv//eng)
Nyckelord
- Goettingen Minipig
- Whole genome resequencing
- Body size
- X-chromosomal QTL
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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Reimer, C.
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Rubin, Carl-Joha ...
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Sharifi, A. R.
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Ha, N. -T
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Weigend, S.
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Waldmann, K. -H
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visa fler...
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Distl, O.
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Pant, S. D.
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Fredholm, M.
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Schlather, M.
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Simianer, H.
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Uppsala universitet