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Using Targeted Rese...
Using Targeted Resequencing for Identification of Candidate Genes and SNPs for a QTL Affecting the pH Value of Chicken Meat
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- Xidan, Li (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Karolinska Institutet,Swedish Univ Agr Sci, Dept Anim Breeding & Genet, SE-75007 Uppsala, Sweden.,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics
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- Liu, Xiaodong (författare)
- Uppsala universitet,Växtekologi och evolution
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- Nadaf, Javad (författare)
- INRA, Rech Avicoles UR83, F-37380 Nouzilly, France.;Univ Edinburgh, Roslin Inst, Roslin EH25 9RG, Midlothian, Scotland.;Univ Edinburgh, R D SVS, Roslin EH25 9RG, Midlothian, Scotland.
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- Le Bihan-Duval, Elisabeth (författare)
- INRA, Rech Avicoles UR83, F-37380 Nouzilly, France.
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- Berri, Cecile (författare)
- INRA, Rech Avicoles UR83, F-37380 Nouzilly, France.
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- Dunn, Ian (författare)
- Univ Edinburgh, Roslin Inst, Roslin EH25 9RG, Midlothian, Scotland.;Univ Edinburgh, R D SVS, Roslin EH25 9RG, Midlothian, Scotland.
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- Talbot, Richard (författare)
- Univ Edinburgh, Roslin Inst, Roslin EH25 9RG, Midlothian, Scotland.;Univ Edinburgh, R D SVS, Roslin EH25 9RG, Midlothian, Scotland.
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- De Koning, Dirk-Jan (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,University of Edinburgh
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Karolinska Institutet Swedish Univ Agr Sci, Dept Anim Breeding & Genet, SE-75007 Uppsala, Sweden (creator_code:org_t)
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- 2015-10-01
- 2015
- Engelska.
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Ingår i: G3. - : Oxford University Press (OUP). - 2160-1836. ; 5:10, s. 2085-2089
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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
- Using targeted genetical genomics, a quantitative trait locus (QTL) affecting the initial postmortem pH value of chicken breast muscle (Pectoralis major) on chromosome 1 (GGA1) recently was fine-mapped. Thirteen genes were present in the QTL region of approximately 1 Mb. In this study, 10 birds that were inferred to be homozygous for either the high (QQ) or low (qq) QTL allele were selected for resequencing. After enrichment for 1 Mb around the QTL region, >500 x coverage for the QTL region in each of the 10 birds was obtained. In total 5056 single-nucleotide polymorphisms (SNPs) were identified for which the genotypes were consistent with one of the QTL genotypes. We used custom tools to identify putative causal mutations in the mapped QTL region from these SNPs. Four nonsynonymous SNPs differentiating the two QTL genotype groups were identified within four local genes (PRDX4, EIF2S3, PCYT1B, and E1BTD2). Although these are likely candidate SNPs to explain the QTL effect, 54 additional consensus SNPs were detected within gene-related regions (untranslated regions, splicing sites CpG island, and promoter regions) for the QQ birds and 71 for the qq birds. These could also play a role explaining the observed QTL effect. The results provide an important step for prioritizing among a large amount of candidate mutations and significantly contribute to the understanding of the genetic mechanisms affecting the initial postmortem pH value of chicken muscle.
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
- chicken muscle
- pH values
- QTL
- next-generation sequencing
- SNPs
- nonsynonymous SNPs
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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