Genomic Inbreeding and Runs of Homozygosity Analysis of Cashmere Goat

Animals, Journal Year: 2024, Volume and Issue: 14(8), P. 1246 - 1246

Published: April 22, 2024

Cashmere goats are valuable genetic resources which famous worldwide for their high-quality fiber. Runs of homozygosity (ROHs) have been identified as an efficient tool to assess inbreeding level and identify related genes under selection. However, there is limited research on ROHs in cashmere goats. Therefore, we investigated the ROH pattern, assessed genomic levels examined candidate associated with trait using whole-genome resequencing data from 123 Herein, Inner Mongolia goat presented lowest coefficient 0.0263. In total, 57,224 ROHs. Seventy-four islands containing 50 were detected. Certain meat, fiber milk production (FGF1, PTPRM, RERE, GRID2, RARA); fertility (BIRC6, ECE2, CDH23, PAK1); disease or cold resistance adaptability (PDCD1LG2, SVIL, PRDM16, RFX4, SH3BP2); body size growth (TMEM63C, SYN3, SDC1, STRBP, SMG6). 135 consensus identified, found (FGF5, DVL3, NRAS, KIT) length color. These findings enhance our comprehension foundations traits influenced by selective breeding. This contributes significantly future breeding, reservation use other breeds.

Language: Английский

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Advancements in copy number variation screening in herbivorous livestock genomes and their association with phenotypic traits

Frontiers in Veterinary Science, Journal Year: 2024, Volume and Issue: 10

Published: Jan. 11, 2024

Copy number variations (CNVs) have garnered increasing attention within the realm of genetics due to their prevalence in human, animal, and plant genomes. These structural genetic demonstrated associations with a broad spectrum phenotypic diversity, economic traits, environmental adaptations, epidemics, other essential aspects both plants animals. Furthermore, CNVs exhibit extensive sequence variability encompass wide array The advancement maturity microarray sequencing technologies catalyzed surge research endeavors pertaining CNVs. This is particularly prominent context livestock breeding, where molecular markers gained prominence as valuable tool comparison traditional breeding methods. In light these developments, contemporary comprehensive review existing studies on becomes imperative. serves purpose providing brief elucidation fundamental concepts underlying CNVs, mutational mechanisms, diverse detection methods employed identify it seeks systematically analyze recent advancements findings field CNV research, specifically genomes herbivorous species, including cattle, sheep, horses, donkeys. also highlighted role shaping various traits growth reproductive pigmentation disease resistance etc., livestock. main goal this furnish readers an up-to-date compilation knowledge regarding By integrating latest insights, anticipated that will not only offer pertinent information but stimulate future investigations into doing so, contribute enhancement strategies, genomic selection, overall improvement production diseases.

Language: Английский

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Investigation of selection signatures of dairy goats using whole-genome sequencing data

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: March 12, 2025

Dairy goats, a livestock species with long history of milk production, are essential for the economic advancement nations, particularly in regions experiencing growth. In this study, we gathered whole-genome resequencing data 58 including 34 dairy goats and 24 wild (Bezoar), to explore selection signatures linked production traits using ROH (Runs homozygosity), CLR (composite likelihood ratio), Fst (Fixation index), XP-EHH (Ex-tended haplotype homozygosity across populations) XP-CLR(Cross-population composite ratio test) methods. Analysis five tests revealed total 210 genes, genes consistently identified at least two approaches. These associated fat, protein, fat yield. Gene enrichment analysis highlighted important GO KEGG pathways related such as "acyl-CoA metabolic process", "glycerolipid biosynthetic "cellular response fatty ac-id", "hormone "Galactose metabolism". Additionally, repro-duction, immune response, environmental adaptation were goats. The findings from our study offer profound understanding into critical features practical guidance improvement development crossbreeding initiatives different goat breeds.

Language: Английский

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Genetic diversity, reproductive performance, and genetic enhancement strategies in Huang-Huai goats

Frontiers in Genetics, Journal Year: 2025, Volume and Issue: 16

Published: March 24, 2025

The Huang-huai goat, indigenous to China’s Huang-Huai Plain, is celebrated for its exceptional reproductive capacity, succulent meat, and superior leather qualities. goat’s characteristics, genetic diversity, the underpinnings of intersexuality, aiming inform conservation efforts resource management. Our study at Goat Science Technology R&D Center monitored 600–800 female goats 16–24 male from June 2020 May 2022, adhering NIH guidelines with ethical approval Henan University Animal Husbandry Economics . findings indicate that these exhibit a year-round estrus cycle averaging 19–23 days, gestation period 146–150 an average litter size 2.74, annual reproduction rate 418.96% weaning survival 94.75%. Transcriptome sequencing identified eleven candidate genes associated multiple offspring, including PTX3 , MMP13 NR4A1 which play roles in organ development hormonal regulation. SNP analysis revealed specific genotypes GJB6 PRKAA1 linked higher lambing numbers, offering molecular markers selective breeding. also highlighted role Polled Intersex Syndrome (PIS) locus causing both hornless intersexual traits, emphasizing importance screening maintaining breed health productivity. resources recognized as national geographical indication product, are vital livestock industry require strategic sustainable development. This review highlights preserving utilizing goat enhance contribution agriculture.

Language: Английский

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Whole-Genome Resequencing in Sheep: Applications in Breeding, Evolution, and Conservation

Genes, Journal Year: 2025, Volume and Issue: 16(4), P. 363 - 363

Published: March 22, 2025

Sheep (Ovis aries) were domesticated around 10,000 years ago and have since become an integral part of human agriculture, providing essential resources, such as wool, meat, milk. Over the past century, advances in communication agricultural productivity driven evolution selective breeding practices, further enhancing value sheep global economy. Recently, rapid development whole-genome resequencing (WGR) technologies has significantly accelerated research molecular biology, facilitating discovery genetic underpinnings for critical traits. This review offers a comprehensive overview its application to genetics. It explores domestication origins sheep, examines structure differentiation various populations, discusses use WGR maps. In particular, highlights how technology advanced our understanding key traits, wool production, lactation, reproductive performance, disease resistance, environmental adaptability. The also covers conservation sustainable utilization offering valuable insights future programs aimed at diversity resilience populations.

Language: Английский

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Genome-wide association study of growth and reproductive traits based on low-coverage whole-genome sequencing in a Chubao black-head goat population

Gene, Journal Year: 2024, Volume and Issue: 931, P. 148891 - 148891

Published: Aug. 24, 2024

Language: Английский

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Evaluation of the Genetic Diversity and Population Structure of Four Native Pig Populations in Gansu Province

International Journal of Molecular Sciences, Journal Year: 2023, Volume and Issue: 24(24), P. 17154 - 17154

Published: Dec. 5, 2023

Indigenous pig populations, including Bamei pigs (BM), Hezuo (HZ), Huixian Qingni Black (HX), and Minxian (MX) in Gansu Province, live a particular climate relatively closed geographical environment. These local breeds are characterized by excellent characteristics (e.g., cold tolerance, robust disease resistance, superior meat quality). In the past few years, populations Province have decreased significantly because of their poor lean percentage, high fat content, slow growth rate. Maintaining diversity these four can act as source new alleles to be incorporated into commercial which more susceptible less adaptable changing conditions inbreeding. Genomic data analysis is adequate for determining genetic livestock breeding population structure, even populations. However, structure native still unknown. Thus, we used "Zhongxin-I" porcine chip SNP detection 102 individuals living on conservation farms. A total 57,466 SNPs were identified among breeds. The linkage disequilibrium (LD) plot showed that MX had highest level LD, followed BM, HZ, HX. observed heterozygosity (Ho) all was higher than expected (He). principal component (PCA) demonstrated isolated. identity displayed state matrix G heat map results indicated small numbers distance weak relationships. HX, slight loss. Our findings enabled us better understand genome indigenous will provide novel insights future germplasm utilization

Language: Английский

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Comparison of production performance and meat quality characteristics between Guizhou Black goats and F4 generation hybrids of South African Kalahari Goats

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Aug. 10, 2024

This study spanned 6 years and 4 generations, involving the progressive crossbreeding of South African Kalahari Goat (SK) Guizhou Black (GB) over three followed by cross fixation F3 with F1 in fourth generation, accompanied use molecular markers technology to select a high fertility population, resulting creation hybrid goat, BKF4 (11/16 SK lineage 5/16 GB lineage). A comparative evaluation breed its parental breeds was conducted. Reproductive production parameters GB, SK, goat groups were monitored, including lambing rate (LR), survival (SR), daily weight gain at 3 months age (DWG), adult body (ABW) (n = 110, 106, 112 per group). In addition, dressing percentage (DP) 12 group) analyses amino acids 8, 6, 10 fatty conducted evaluate meat quality indicators. Results: (1) performance: The index LR reached 199%, significantly higher than (p ≤ 0.001), SR 95.0%, markedly 0.001); DWG 276.5 g, ABW 56.6 kg 54.5%, they are surpassing 0.001). (2) Regarding quality: pH

Language: Английский

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Examination of homozygosity runs and selection signatures in native goat breeds of Henan, China

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: Dec. 6, 2024

Language: Английский

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Whole-genome resequencing reveals new mutations in candidate genes for Beichuan-white goat prolificacya

Animal Biotechnology, Journal Year: 2023, Volume and Issue: 35(1)

Published: Sept. 20, 2023

In this study, we evaluated the copy number variation in genomes of two groups Beichuan-white goat populations with large differences litter size by FST method, and identified 1739 genes 485 missense mutations subject to positive selection. Through functional enrichment, ITGAV, LRP4, CDH23, TPRN, RYR2 CELSR1 genes, involved embryonic morphogenesis, were essential for trait, which received intensive attention. addition, some mutation sites these have been proposed (ITGAV: c.38C > T; TPRN: c.133A T, c.1192A G, c.1250A C; CELSR1: c.7640T C), whose allele frequencies significantly changed high fecundity group. Besides, found that new at altered hydrophilicity 3D structure protein. Candidate related study their identified. These candidate are helpful understand genetic mechanism Beichuan white goat, important significance future breeding.

Language: Английский

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