Genome-wide screening of candidate genes for improving fertility in Egyptian native Rahmani sheep

El-Halawany, Nermin; Zhou, Xiang; Al-Tohamy, Ahmed F.M.; El-Sayd, Yasmin A.; Shawky, Abd-El-Monsif A.; Michal, Jennifer J.; Jiang, Zhihua

doi:10.1111/age.12437

Cited by 7 publications

(2 citation statements)

References 5 publications

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“…The hapFLK statistics detect selection signatures based on differences of haplotype frequencies between populations (Fariello et al, 2013). Considering the population stratification of samples, the hapFLK method, which is based on haplotype frequency and considers population stratification, was used in this experiment.…”

Section: Genome Scans For Selection Signatures Using Hapflkmentioning

confidence: 99%

Selection signature analysis reveals genes underlying sheep milking performance

Yuan

et al. 2019

Arch. Anim. Breed.

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Sheep milk is the most important feed resource for newborn lambs and an important food resource for humans. Sheep milk production and ingredients are influenced by genetic and environmental factors. In this study, we implemented selection signature analysis using Illumina Ovine SNP50 BeadChip data of 78 meat Lacaune and 103 milk Lacaune sheep, which have similar genetic backgrounds, from the Sheep HapMap project to identify candidate genes related to ovine milk traits. Since different methods can detect different variation types and complement each other, we used a haplotype-based method (hapFLK) to implement selection signature analysis. The results revealed six selection signature regions showing signs of being selected (P<0.001): chromosomes 1, 2, 3, 6, 13 and 18. In addition, 38 quantitative trait loci (QTLs) related to sheep milk performance were identified in selection signature regions, which contain 334 candidate genes. Of those, SUCNR1 (succinate receptor 1) and PPARGC1A (PPARG coactivator 1 alpha) may be the most significant genes that affect sheep milking performance, which supply a significant indication for future studies to investigate candidate genes that play an important role in milk production and quality.

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Section: Genome Scans For Selection Signatures Using Hapflkmentioning

confidence: 99%

Selection signature analysis reveals genes underlying sheep milking performance

Yuan

et al. 2019

Arch. Anim. Breed.

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“…Many studies analyzing the genetic architecture of complex traits using genomewide SNP data have been conducted in different livestock species in the last decade. In ruminants, these studies have detected candidate genes related to growth, muscle conformation, adaptation, and reproduction traits in sheep [2][3][4][5][6]; milk production, reproduction, body constitution, muscle development, coat color, and thermotolerance in cattle [7,8]; and adaptation, coat color, milk composition, and growth traits in goats [9,10]. To identify the corresponding genomic regions, several methods are available that are capable of analyzing genetic variation within a population and between populations or groups of individuals.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Analysis for Early Growth-Related Traits of the Locally Adapted Egyptian Barki Sheep

Abousoliman

Reyer

Oster

et al. 2021

Genes

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Sheep play a critical role in the agricultural and livestock sector in Egypt. For sheep meat production, growth traits such as birth and weaning weights are very important and determine the supply and income of local farmers. The Barki sheep originates from the northeastern coastal zone of Africa, and due to its good adaptation to the harsh environmental conditions, it contributes significantly to the meat production in these semi-arid regions. This study aimed to use a genome-wide SNP panel to identify genomic regions that are diversified between groups of individuals of Egyptian Barki sheep with high and low growth performance traits. In this context, from a phenotyped population of 140 lambs of Barki sheep, 69 lambs were considered for a genome-wide scan with the Illumina OvineSNP50 V2 BeadChip. The selected lambs were grouped into divergent subsets with significantly different performance for birth weight and weaning weight. After quality control, 63 animals and 40,383 SNPs were used for analysis. The fixation index (FST) for each SNP was calculated between the groups. The results verified genomic regions harboring some previously proposed candidate genes for traits related to body growth, i.e., EYA2, GDF2, GDF10, MEF2B, SLC16A7, TBX15, TFAP2B, and TNNC2. Moreover, novel candidate genes were proposed with known functional implications on growth processes such as CPXM2 and LRIG3. Subsequent association analysis showed significant effects of the considered SNPs on birth and weaning weights. Results highlight the genetic diversity associated with performance traits and thus the potential to improve growth traits in the Barki sheep breed.

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