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Single-nucleotide polymorphism detecting of some candidate genes related to lipid metabolism in Booroola Merino-Afshari sheep by Bayesian model averaging

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Abstract

This study was designed to identify single-nucleotide polymorphisms (SNPs) of some candidate genes related to lipid metabolism and their association with carcass fat in male crossbred lambs. Hence, 96 of almost 11-month-old Booroola Merino-Afshari crossbred lambs (first-generation backcross) were used by considering their phenotypic carcass traits. Then, DNA was extracted and DNA targets were amplified using designed specific primers by PCR procedure. Identification of potential SNPs was done by a direct sequencing method for LEP, FABP4, DGAT1, GH, and TRIB3 genes using the sequencing-RFLP procedure. Then, the most probable statistical models based on additive and genotypic effects of identified SNPs in each trait were obtained by the Bayesian model averaging (BMA) approach of R software (Ver. 3.3.1) to assess the association of SNPs with traits. Detected SNPs in this study included two SNPs in exon 3 of LEP, one SNP in exon 2 of TRIB3, one SNP in intron 2 of FABP4, one SNP in 5ʹ UTR of DGAT1, and two SNPs in 3ʹ UTR of GH genes. For carcass weight trait, one of the identified SNP genotypes in the LEP (c.587G > A) had a higher probability in the model. Carcass weight of lambs with GA genotype was 2.46 kg heavier than GG genotype. Also, two genes of TRIB3 and GH2 had the highest probability in the models of fat tail and waste weight, respectively. Based on the results, these polymorphisms can be used in the marker-assisted selection of breeding programs and designing DNA chips for genomic selection.

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Data Availability

Data will be available based on journal̓̓̓̓ʼs request.

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Codes will be available based on journal̓̓̓̓ʼs request.

Notes

  1. http://asia.ensembl.org/Ovis_aries/Variation/Explore?r=13:59933893-59934893;v=rs413367307;vdb=variation;vf=11197618

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Funding

This research article (present article) was financially supported by the University of Tabriz, Iran.

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Authors and Affiliations

  1. Department of Animal Science, University of Zanjan, 45371-38791, Zanjan, Iran

    Rahimeh Sepehri & Taher Harkinezhad

  2. Department of Animal Science, Faculty of Agriculture, University of Tabriz, 5166616471, Tabriz, Iran

    Sadegh Alijani, Jalil Shodja Ghias, Seyed Abbas Rafat & Marziyeh Ebrahimi

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  1. Rahimeh Sepehri
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  2. Sadegh Alijani
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  3. Jalil Shodja Ghias
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  6. Marziyeh Ebrahimi
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Contributions

Authors contributed in the article as follows: Rahimeh Sepehri (performing the experiment and writing the article), Sadegh Alijani (designing the experiment and writing the article), Jalil Shodja Ghias (designing the experiment), Taher Harkinezhad (designing the experiment), Seyed Abbas Rafat (designing the experiment), and Marziyeh Ebrahimi (writing the article and English editing of the article).

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Correspondence to Sadegh Alijani.

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Sepehri, R., Alijani, S., Shodja Ghias, J. et al. Single-nucleotide polymorphism detecting of some candidate genes related to lipid metabolism in Booroola Merino-Afshari sheep by Bayesian model averaging. Trop Anim Health Prod 53, 342 (2021). https://doi.org/10.1007/s11250-021-02782-4

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