SNP identification in swine candidate genes for meat quality

Raschetti, M.; Castiglioni, Bianca; Caroli, Anna; Guiatti, Denis; Pagnacco, G.; Chessa, S.

doi:10.1016/j.livsci.2013.05.008

Cited by 5 publications

(2 citation statements)

References 19 publications

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“…Meat trait: FAM190A is a QTL associated with weight after slaughter in Hanwoo cattle [ 58 ]. CRADD is associated with muscle compactness [ 59 ]. PHKG1 causes high glycogen content and low meat quality in pig skeletal muscle [ 60 ].…”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Specific Selection in Three Domestic Sheep Breeds

et al. 2015

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BackgroundCommercial sheep raised for mutton grow faster than traditional Chinese sheep breeds. Here, we aimed to evaluate genetic selection among three different types of sheep breed: two well-known commercial mutton breeds and one indigenous Chinese breed.ResultsWe first combined locus-specific branch lengths and di statistical methods to detect candidate regions targeted by selection in the three different populations. The results showed that the genetic distances reached at least medium divergence for each pairwise combination. We found these two methods were highly correlated, and identified many growth-related candidate genes undergoing artificial selection. For production traits, APOBR and FTO are associated with body mass index. For meat traits, ALDOA, STK32B and FAM190A are related to marbling. For reproduction traits, CCNB2 and SLC8A3 affect oocyte development. We also found two well-known genes, GHR (which affects meat production and quality) and EDAR (associated with hair thickness) were associated with German mutton merino sheep. Furthermore, four genes (POL, RPL7, MSL1 and SHISA9) were associated with pre-weaning gain in our previous genome-wide association study.ConclusionsOur results indicated that combine locus-specific branch lengths and di statistical approaches can reduce the searching ranges for specific selection. And we got many credible candidate genes which not only confirm the results of previous reports, but also provide a suite of novel candidate genes in defined breeds to guide hybridization breeding.

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Section: Resultsmentioning

confidence: 99%

Genome-Wide Specific Selection in Three Domestic Sheep Breeds

et al. 2015

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“…Inactivation of this gene could lead to morbid obesity in humans and mice 52 . The CRADD is associated with muscle compactness and is well-known as a meat quality related gene 53 , 54 . DLG1, IMMP2L and, FRAS1 were three reproduction-related genes that we found in this study as the putative signature of selection in ID camels.…”

Section: Discussionmentioning

confidence: 99%

Identification of selection signatures in Iranian dromedary and Bactrian camels using whole genome sequencing data

Khalkhali-Evrigh

Hedayat

Liang

et al. 2022

Sci Rep

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The Old World camels play an important role as one of the main food sources in large parts of Asia and Africa. Natural selection combined with artificial selection by human has affected parts of the domestic animal genome for adapting them to their habitats and meeting human needs. Here, we used whole genome sequencing data of 34 camels (including 14 dromedaries and 20 Bactrian camels) to identify the genomic signature of selection in the Iranian dromedary (ID) and Bactrian camels (IB). To detect the mentioned regions, we used two methods including population differentiation index (Fst) and cross-population extended haplotype homozygosity (XP-EHH) with 50 kb sliding window and 25 kb step size. Based on gene ontology analysis on the candidate genes identified for IB camels, we found GO terms associated with lung development, nervous system development, immune system and behavior. Also, we identified several genes related to body thermoregulation (ZNF516), meat quality (ANK1 and HSPA13), and high-altitude adaptation (OPA1) for IB camels. In the list of detected candidate genes under selection in ID camels, the genes related to energy metabolism (BDH1), reproduction (DLG1, IMMP2L and FRASI), long-term memory (GRIA1), kidney (SLC12A1), lung development (EMILIN2 and FBN1) and immunity (SOCS2, JAK1, NRROS and SENP1) were found. Our findings, along with further studies in this field, will strengthen our knowledge about the effect of selection on the camelid genome under different geographical, climatic and even cultural conditions.

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Transcriptome and MassARRAY analysis for identification of transcripts and SNPs for growth traits of the swimming crab Portunus trituberculatus

Zhang

Gao

et al. 2015

Gene

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SNP identification in swine candidate genes for meat quality

Cited by 5 publications

References 19 publications

Genome-Wide Specific Selection in Three Domestic Sheep Breeds

Genome-Wide Specific Selection in Three Domestic Sheep Breeds

Identification of selection signatures in Iranian dromedary and Bactrian camels using whole genome sequencing data

Transcriptome and MassARRAY analysis for identification of transcripts and SNPs for growth traits of the swimming crab Portunus trituberculatus

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