Unveiling the Influence of Copy Number Variations on Genetic Diversity and Adaptive Evolution in China’s Native Pig Breeds via Whole-Genome Resequencing

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(11), P. 5843 - 5843

Published: May 27, 2024

Copy number variations (CNVs) critically influence individual genetic diversity and phenotypic traits. In this study, we employed whole-genome resequencing technology to conduct an in-depth analysis of 50 pigs from five local swine populations [Rongchang pig (RC), Wuzhishan (WZS), Tibetan (T), Yorkshire (YL) Landrace (LR)], aiming assess their potential explore prospects in the field animal model applications. We identified a total 96,466 CNVs, which were subsequently integrated into 7112 non-redundant CNVRs, encompassing 1.3% genome. Functional enrichment genes within these CNVRs revealed significant associations with sensory perception, energy metabolism, neural-related pathways. Further selective scan analyses breeds RC, T, WZS, along YL LR, uncovered that for RC variety,

Language: Английский

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Missense Mutations in FDNC5 Associated with Morphometric Traits and Meat Quality in Hainan Black Goats

Animals, Journal Year: 2025, Volume and Issue: 15(4), P. 565 - 565

Published: Feb. 15, 2025

Goats are widely recognized for their adaptability and resource efficiency, making them an excellent choice sustainable farming. However, the Hainan Black goat (HNBG), a vital breed in southern China's tropical regions, faces significant challenges that threaten its productivity economic viability. Specifically, young HNBGs exhibit stunted growth poor muscle development, indicating may have more genetic defects cause phenotypes. The FNDC5 gene, which encodes protein irisin, plays key role promoting mitochondrial biogenesis oxidative metabolism by activating critical signaling molecules such as PGC-1α, thereby enhancing endurance metabolic efficiency. This study aimed to investigate impact of missense mutations gene on meat quality traits HNBGs. We sequenced population identified three SNPs could lead amino acid substitutions. Notably, SNP1 (p.119A/V) SNP2 (p.135R/H) showed strong linkage. Predictions structural effects these indicated SNP3 (p.170W/G) alter secondary structure protein. Association analyses revealed were significantly associated with morphometric quality. phenotypic values co-mutants lower than those other combined genotypes. Furthermore, expression levels varied notably across individuals different These findings suggest FNDC5-SNP1 serve promising marker selecting improved offering potential pathway this breed.

Language: Английский

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One Copy Number Variation within the Angiopoietin-1 Gene Is Associated with Leizhou Black Goat Meat Quality

Animals, Journal Year: 2024, Volume and Issue: 14(18), P. 2682 - 2682

Published: Sept. 14, 2024

The ANGPT1 gene plays a crucial role in the regulation of angiogenesis and muscle growth, with previous studies identifying copy number variations (CNVs) within this among Leizhou black goats. In study, we investigated three CNVs 417 individuals LZBG using quantitative PCR (qPCR), examining impact different CNV types on expression their associations growth meat quality traits. Notably, CNV-1 (ARS1_chr14:24950001-24953600) overlaps protein-coding regions conserved domains; its gain-of-copies genotype (copies ≥ 3) was significantly correlated mRNA tissue (p < 0.01). Furthermore, demonstrated significant correlations various phenotypic traits, including carcass weight, body shear stress, chest circumference, cross-sectional area longissimus dorsi muscle. These findings indicate that may serve as valuable marker for selecting goats exhibiting enhanced muscular development characteristics, thereby holding potential applications targeted breeding programs aimed at improving quality.

Language: Английский

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Screening of SNP Loci Related to Leg Length Trait in Leizhou Goats Based on Whole-Genome Resequencing

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(22), P. 12450 - 12450

Published: Nov. 20, 2024

Leizhou goats can be classified into tall and short types based on their size habits. The are well-suited for grazing management due to robust physique, while the dwarf smaller, grow rapidly, more appropriate feeding systems. In this study, whole-genome resequencing was conducted identify genomic variants in 15 Tall-legged (TL) Short-legged (SL) goats, yielding 8,641,229 high-quality SNPs goat genome. Phylogenetic tree principal component analyses revealed obvious genetic differentiation between two groups. Fst θπ identified 420 genes TL group 804 SL group. Gene Ontology (GO) Kyoto Encyclopedia of Genes Genomes (KEGG) pathway indicated that phosphatidylinositol signaling system is associated with growth development. Additionally, Genome-Wide Association Study (GWAS) analysis eight linked leg length, including

Language: Английский

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