شناسایی مناطق ژنومی مرتبط با صفات کیفی پشم در گوسفندان نژاد پشم ضخیم و ظریف برپایه آماره‌های نشانه‌های انتخاب

References

Arzik Y, Kizilaslan M, Behrem S, et al. (2023) Genome-Wide Scan of Wool Production Traits in Akkaraman Sheep. Genes 14, e713.

Asadollahpour Nanaei H, Kharrati-Koopaee H, Esmailizadeh A (2022) Genetic diversity and signatures of selection for heat tolerance and immune response in Iranian native chickens. BMC Genom 23(1), e224.

Barazandeh A, Mohammadabadi MR, Ghaderi-Zefrehei M, Nezamabadi-Pour H (2016) Genome-wide analysis of CpG islands in some livestock genomes and their relationship with genomic features. Czech J Anim Sci 61(11), 487–495.

Choi H, Park JY, Kim HJ, et al. )2014( Hydrogen peroxide generated by DUOX1 regulates the expression levels of specific differentiation markers in normal human keratinocytes. J Dermatol Sci 74, 56–63.

Dominik S, Swan AA, (2018) Genetic and phenotypic parameters for reproduction, production and bodyweight traits in Australian fine-wool Merino sheep. Anim Prod Sci 58, 207–212.

Fariello MI, Boitard S, Naya H, et al. (2013) Detecting signatures of selection through haplotype differentiation among hierarchically structured populations. Genetics 193(3), 929-941.

Ghafouri Kesbi F, Eskandarinasab MP, Shahir MH (2008) Estimation of direct and maternal effects on body weight in Zandi sheep using random regression models. Arch Anim Breed 51 (3), 235–246.

Hajalizadeh Z, Dayani O, Khezri A, et al. (2019) The effect of adding fennel (Foeniculum vulgare) seed powder to the diet of fattening lambs on performance, carcass characteristics and liver enzymes. Small Rumin Res 175, 72–77.

Huang C, Zhao Q, Chen Q, et al. (2024). Runs of Homozygosity Detection and Selection Signature Analysis for Local Goat Breeds in Yunnan, China. Genes 15, e313.

Jafari Ahmadabadi SAA, Askari-Hemmat H, Mohammadabadi M, Asadi M, Mansouri M (2023). The effect of Cannabis seed on DLK1 gene expression in heart tissue of Kermani lambs. Agric Biotechnol J 15 (1), 217-234 (In Persian).

Kijas JW, Lenstra JA, Hayes B, et al. (2012) International Sheep Genomics Consortium Members. Genome-wide analysis of the world's sheep breeds reveals high levels of historic mixture and strong recent selection. PLoS Biol 10(2), e1001258.

Kim ES, Elbeltagy AR, Aboul-Naga AM, et al. (2016) Multiple genomic signatures of selection in goats and sheep indigenous to a hot arid environment. Heredity116(3), 255-64.

Koseniuk A, Ropka-Molik K, Rubiś D, et al. (2018) Genetic background of coat colour in sheep. Arch Anim Breed 61(2), 173-178.

Lan XY, Shu JH, Chen H, et al. (2009) A PstI polymorphism at 30UTR of goat POU1F1 gene and its effect on cashmere production. Mol Biol Rep 36, 1371–1374. 

Lv XL, Chen WH, Sun W, et al. (2020) Analysis of lncRNAs expression profiles in hair follicle of Hu sheep lambskin. Animals 10, e1035.

Magee DA, Berkowicz EW, Sikora KM, et al. (2010) A catalogue of validated single nucleotide polymorphisms in bovine orthologs of mammalian imprinted genes and associations with beef production traits. Animal 4, 1958–1970.

Megdiche S, Mastrangelo S, Ben Hamouda M, et al. (2019) A Combined MultiCohort Approach Reveals Novel and Known Genome-Wide Selection Signatures for Wool Traits in Merino and Merino-Derived Sheep Breeds. Front Genet 10, e1025.

Mohamadipoor Saadatabadi L, Mohammadabadi M, Amiri Ghanatsaman Z. (2021) Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds. BMC Vet Res 17, e369.

Mohammadabadi M, Golkar A, Askari Hesni M (2023) The effect of fennel (Foeniculum vulgare) on insulin-like growth factor 1 gene expression in the rumen tissue of Kermani sheep. Agric Biotechnol J 15 (4), 239-256 (In Persian).

Mohammadabadi MR, Tohidinejad F (2017) Characteristics determination of Rheb gene and protein in Raini Cashmere goat. Iran J Appl Anim Sci 7(2), 289–295.

Mohammadi H, Khaltabadi Farahani HK, Moradi MH, et al. (2022) Weighted Single-Step Genome-Wide Association Study Uncovers Known and Novel Candidate Genomic Regions for Milk Production Traits and Somatic Cell Score in Valle del Belice Dairy Sheep. Animals (Basel) 12(9), 11-55.

Mohammadi, H., rafat, S., Moradi, H., et al. (2019) Study of haplotype blocks structure and haplotype-based genome scan in autosomal chromosomes to body weight gain trait in Zandi sheep breed. Anim Sci Res 28(4), 69-82.

Morgan MD, Pairo-Castineira E, Rawlik K, et al. (2018) Genome-Wide Study of Hair Colour in UK Biobank Explains Most of the SNP Heritability. Nat Commun 9, e5271.

Megdiche S, Mastrangelo S, Ben Hamouda M, et al. (2019) A Combined MultiCohort Approach Reveals Novel and Known Genome-Wide Selection Signatures for Wool Traits in Merino and Merino-Derived Sheep Breeds. Front Genet 10, e1025.

Nazari-Ghadikolaei A, Mehrabani-Yeganeh H, Miarei-Aashtiani SR, et al. (2018) Genome-Wide Association Studies Identify Candidate Genes for Coat Color and Mohair Traits in the Iranian Markhoz Goat. Fron Genet 9, e105.

Nicolazzi EL, Caprera A, Nazzicari N, et al. (2015) SNPchiMp v. 3: integrating and standardizing single nucleotide polymorphism data for livestock species. BMC Genom 16, e283.  

Patiabadi Z, Razmkabir M, Esmailizadeh Koshkoiyeh A, et al. (2023) Genomic
scanning of selection signature in Iranian skin and wool sheep using FST unbiased estimator and hapFLK methods. Anim Prod Res 12(2), 85-103 (In Persian).

Pavlidis P, Alachiotis N. (2017) A survey of methods and tools to detect recent and strong positive selection. J Biol Res 24, 1-17.

Peng W, Zhang Y, Gao L (2024) Selection signatures and landscape genomics analysis to reveal climate adaptation of goat breeds. BMC Genom 25, e420.  

Purcell S, Neale B, Todd-Brown K, et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 3, 559-575.

Qanbari S, Strom TM, Haberer G, et al. (2012) A high resolution genome-wide scan for significant selective sweeps: an application to pooled sequence data in laying chickens. PLoS One 7(11), e49525. 

Ren X, Yang GL, Peng WF, et al. (2016) A genome-wide association study identifies a genomic region for the polycerate phenotype in sheep (Ovis aries). Sci Rep 6, e21111. 

Rostamzadeh Mahdabi E, Esmailizadeh A, Ayatollahi Mehrgardi A, et al. (2021) A genome-wide scan to identify signatures of selection in two Iranian indigenous chicken ecotypes. Genet Sel Evol 53(1), e72. 

Ramos Z, Garrick DJ, Blair HT, et al. (2023) Genetic and phenotypic relationships between ewe reproductive performance and wool and growth traits in Uruguayan Ultrafine Merino sheep. J Anim Sci 101, e071.

Saravanan KA, Panigrahi M, Kumar H, et al. (2021) Genomic scans for selection signatures revealed candidate genes for adaptation and production traits in a variety of cattle breeds. Genomics 113(3), 955-963. 

Shahsavari M, Mohammadabadi M, Khezri A, et al. (2023) Correlation between insulin-like growth factor 1 gene expression and fennel (Foeniculum vulgare) seed powder consumption in muscle of sheep. Anim Biotechnol J 34 (4), 882-892 (In Persian).

Shokri S, Khezri A, Mohammadabadi M, Kheyrodin H (2023). The expression of MYH7 gene in femur, humeral muscle and back muscle tissues of fattening lambs of the Kermani breed. Agric Biotechnol J 15 (2), 217-236 (In Persian).

Sun W, Ni R, Yin JF, et al. (2013) Genome array of hair follicle genes in lambskin with different patterns. PLoS One 8, e68840.  

Sun X, Guo J, Li R, et al. (2024) Whole-Genome Resequencing Reveals Genetic Diversity and Wool Trait-Related Genes in Liangshan Semi-Fine-Wool Sheep. Animals 14, e444.

Taylor P, Mortimer S, Bird-Gardiner T, Atkins K (2017) Merino breeding objectives & selection indexes to increase wool profit. (Ed. BJ McGuirk) pp. 579–592. (Australian Wool Corporation: Melbourne).

Theron PG, Brand TS, Cloete SWP, et al (2024) Wool production and quality traits of pure- and crossbred Merino-type sheep. Trop Anim Health Prod 56(2), e47.

Waineina RW, Okeno TO, Ilatsia ED, et al. (2022) Selection Signature Analyses Revealed Genes Associated With Adaptation, Production, and Reproduction in Selected Goat Breeds in Kenya. Front Genet 13, e858923.

Wang Z, Zhang H, Yang H, et al. (2014) Genome-wide association study for wool production traits in a Chinese Merino sheep population. PLoS One 9, e107101.  

Wang FH, Zhang L, Gong G, et al. (2021) Genome-wide association study of fleece traits in Inner Mongolia Cashmere goats. Anim Genet 52(3), 375-379.

Weir BS, Cockerham CC (1984) Estimating F‐statistics for the analysis of population structure. Evolution 38(6), 1358-1370. 

Wright S (1965) The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 1, 395-420.   

Zhang W, Jin M, Li T, et al. (2023) Whole-Genome Resequencing Reveals Selection Signal Related to Sheep Wool Fineness. Animals 13, e2944.

Zhao F, Deng T, Shi L, et al. (2020) Genomic Scan for Selection Signature Reveals Fat Deposition in Chinese Indigenous Sheep with Extreme Tail Types. Animals 10(5), e773.

Zhao H, Guo T, Lu Z, et al. (2021) Genome-wide association studies detect candidate genes for wool traits by re-sequencing in Chinese fine-wool sheep. BMC Genom 1, e127.