• Asian-Australasian Journal of Animal Sciences
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• 제32권12호
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• pp.1836-1843
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• 2019

Objective: Social genetic effects (SGE) are an important genetic component for growth, group productivity, and welfare in pigs. The present study was conducted to evaluate i) the feasibility of the single-step genomic best linear unbiased prediction (ssGBLUP) approach with the inclusion of SGE in the model in pigs, and ii) the changes in the contribution of heritable SGE to the phenotypic variance with different scaling ${\omega}$ constants for genomic relationships. Methods: The dataset included performance tested growth rate records (average daily gain) from 13,166 and 21,762 pigs Landrace (LR) and Yorkshire (YS), respectively. A total of 1,041 (LR) and 964 (YS) pigs were genotyped using the Illumina PorcineSNP60 v2 BeadChip panel. With the BLUPF90 software package, genetic parameters were estimated using a modified animal model for competitive traits. Giving a fixed weight to pedigree relationships (${\tau}:1$), several weights (${\omega}_{xx}$, 0.1 to 1.0; with a 0.1 interval) were scaled with the genomic relationship for best model fit with Akaike information criterion (AIC). Results: The genetic variances and total heritability estimates ($T^2$) were mostly higher with ssGBLUP than in the pedigree-based analysis. The model AIC value increased with any level of ${\omega}$ other than 0.6 and 0.5 in LR and YS, respectively, indicating the worse fit of those models. The theoretical accuracies of direct and social breeding value were increased by decreasing ${\omega}$ in both breeds, indicating the better accuracy of ${\omega}_{0.1}$ models. Therefore, the optimal values of ${\omega}$ to minimize AIC and to increase theoretical accuracy were 0.6 in LR and 0.5 in YS. Conclusion: In conclusion, single-step ssGBLUP model fitting SGE showed significant improvement in accuracy compared with the pedigree-based analysis method; therefore, it could be implemented in a pig population for genomic selection based on SGE, especially in South Korean populations, with appropriate further adjustment of tuning parameters for relationship matrices.

• Asian-Australasian Journal of Animal Sciences
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• 제20권5호
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• pp.622-626
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• 2007

Using multi-trait animal model BLUP, selection was conducted over seven generations for growth rate (DG), real-time ultrasound loin-eye muscle area (LEA), backfat thickness (BF), and intramuscular fat content (IMF) to develop a new line of purebred Duroc pigs with enhanced meat production and meat quality. This study was intended to investigate the relationship between restriction fragment length polymorphism (RFLP) of a heart fatty acid-binding protein (H-FABP) gene and intramuscular fat content (IMF) of this Duroc purebred population. The present experiment examined the RFLP of 499 slaughtered pigs. The DNA was separated from the blood or ear tissue of the pigs, which were slaughtered at 105 kg of body weight. Intramuscular fat content of the longissimus muscle was measured using chemical analysis. A significant difference was detected in the breeding value of IMF among the H-FABP PCR RFLP genotypes. The AA genotype has a significantly larger positive effect on the IMF breeding value than do the Aa and aa genotypes for the MspI RFLP. In addition, the DD genotype has a significantly greater positive effect on IMF breeding value than the Dd and dd genotypes for the HaeIII RFLP. For the HinfI RFLP, the hh genotype has a significantly larger positive effect on IMF breeding value than the HH genotype. Multiple regression analysis was performed using the IMF breeding values as the dependent variable and the three H-FABP genotypes as independent variables. Results revealed that the contribution of the genotypes to variation in IMF breeding values was approximately 40%. These results demonstrated that H-FABP RFLPs affect IMF in this Duroc population.

• Animal Bioscience
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• 제36권1호
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• pp.19-28
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• 2023

Objective: The objective of this study was to perform genome (genome wide association studies [GWAS]) and chromosome (CWAS) wide association analyses to identify single nucleotide polymorphisms (SNPs) associated with growth traits in registered Simmental and Simbrah cattle. Methods: The phenotypes were deregressed BLUP EBVs for birth weight, weaning weight direct, weaning weight maternal, and yearling weight. The genotyping was performed with the GGP Bovine 150k chip. After the quality control analysis, 105,129 autosomal SNP from 967 animals (473 Simmental and 494 Simbrah) were used to carry out genotype association tests. The two association analyses were performed per breed and using combined information of the two breeds. The SNP associated with growth traits were mapped to their corresponding genes at 100 kb on either side. Results: A difference in magnitude of posterior probabilities was found across breeds between genome and chromosome wide association analyses. A total of 110, 143, and 302 SNP were associated with GWAS and CWAS for growth traits in the Simmental-, Simbrah- and joint -data analyses, respectively. It stands out from the enrichment analysis of the pathways for RNA polymerase (POLR2G, POLR3E) and GABAergic synapse (GABRR1, GABRR3) for Simmental cattle and p53 signaling pathway (BID, SERPINB5) for Simbrah cattle. Conclusion: Only 6,265% of the markers associated with growth traits were found using CWAS and GWAS. The associated markers using the CWAS analysis, which were not associated using the GWAS, represents information that due to the model and priors was not associated with the traits.

• Journal of Animal Science and Technology
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• 제62권4호
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• pp.429-437
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• 2020

This study was conducted to construct basic data for the selection of elite cows by analyzing the estimated breeding value (EBV) and accuracy using the pedigree of Hanwoo cows in Gyeongnam. The phenotype trait used in the analysis are the carcass weight (CWT), eye muscle area (EMA), backfat thickness (BFT) and marbling score (MS). The pedigree of the test group and reference group was collected to build a pedigree structure and a numeric relationship matrix (NRM). The EBV, genetic parameters and accuracy were estimated by applying NRM to the best linear unbiased prediction (BLUP) multiple-trait animal model of the BLUPF90 program. Looking at the pedigree structure of the test group, there were a total of 2,371 cows born between 2003 to 2009, of these 603 cows had basic registration (25%), 562 cows had pedigree registration (24%) and 1,206 cows had advanced registration (51%). The proportion of pedigree registered cows was relatively low but it gradually increased and reached a point of 20,847 cows (68%) between 2010 to 2017. Looking at the change in the EBV, the CWT improved from 4.992 kg to 9.885 kg, the EMA from 0.970 ㎠ to 2.466 ㎠, the BFT from -0.186 mm to -0.357 mm, and the MS from 0.328 to 0.559 points. As a result of genetic parameter estimation, the heritability of CWT, EMA, BFT, and MS were 0.587, 0.416, 0.476, and 0.571, respectively, and the accuracy of those were estimated to be 0.559, 0.551, 0.554, and 0.558, respectively. Selection of superior genetic breed and efficient improvement could be possible if cow ability verification is implemented by using the accurate pedigree of each individual in the farms.

• Journal of Animal Science and Technology
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• 제45권3호
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• pp.343-354
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• 2003

고급육형 한우개량을 위하여 현행 실시하고 있는 한우 후대검정에서 조사되는 배장근단면적, 등지방두께 및 근내지방도 등에 대한 유전적 개량량과 초음파 측정장치를 이용한 해당 형질들의 육질판정자료에 의한 간접선발시 유전적 개량량을 모의실험을 통하여 추정하고 상호 그 효율성을 비교하였다. 본 연구에 적용된 Monte Carlo 모의실험은 각 설정 모형별, 표현형 선발 및 다형질 BLUP 추정방법에 의한 육종가 추정치에 의한 선발을 적용하여 각각 10반복씩 반복 실험하였다. 각 모형별 모의실험방법은 종축집단의 크기 및 세대 수 그리고 설정모형을 동일하게 설계하였으며 수컷 100두와 암컷 2,000두의 기초집단으로부터 매 세대 수컷 20두와 암컷 1,000두를 3가지 형질에 동일한 가중치를 두어 10세대 동안 선발하였다. 최종 생성된 자료를 이용하여 유전적 개량량을 추정하였고 이를 각 모형별, 선발방법별로 비교, 분석하였다. 분석결과 현행 실시하고 있는 한우 후대검정과 유사한 모의실험에서의 각 형질별 육종가 추정치에 의한 선발시 유전적 개량량과 비교한 결과, 초음파 측정치와 도축 실측치 간의 유전상관을 0.81-0.97으로 가정하고 암, 수 모두 초음파 측정자료를 조사한다는 가정으로 초음파 측정치의 육종가에 의한 선발을 실시할 때, 1.66${\sim}$2.44 배의 개량 효율성이 있는 것으로 추정되었으며 이들 상관을 0.63${\sim}$0.68으로 가정한 모의실험에서는 1.18${\sim}$2.08 배의 개량 효율성이 있는 것으로 추정되었다. 따라서 고급육형 한우개량을 위한 초음파 측정치를 이용한 검정방법을 활용하고 이를 이용한 종축선발을 실시할 때 개량효율을 크게 향상시킬 수 있을 것으로 사료되었다. 반면에 각 형질별 개량효율성을 살펴보면 개량효율성이 가장 낮은 형질은 근내지방도로써 이는 표현형 변이가 상대적으로 낮은 형질에 선발의 가중치를 동일하게 가정한 것에 기인된 것으로 사료되며 따라서 근내지방도의 변이를 크게 할 수 있는 자료조사방법의 변경, 또는 선발의 가중치를 높이는 방법에 대한 연구가 필요할 것으로 사료되었다.

• 한국가금학회지
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• 제47권4호
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• pp.267-274
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• 2020

본 연구에서는 국립축산과학원 가금연구소에서 보유하고 있는 흑색 재래종토종닭 L계통, 한국화이트레그혼 F, K계통의 150일령 및 270일령 체중, 시산일령, 시산 및 270일령 난중, 270일령 산란수 총 6가지 경제형질에 대한 유전모수를추정하였다. 기초통계량에서 150일령 및 270일령 체중은 L계통이 각각 1,714 g, 2,032 g으로 F, K계통에 비해 무겁게 나타났으며, 시산일령은 L, F, K계통에서 153, 140, 143일로 나타났으며, L계통의 시산난중 및 270일령 난중은 각각 37 g, 54 g으로 F, K계통에 비해 가벼웠으며, 270일령까지 산란수는 76개로 F, K계통의 산란수인 100, 99개에 비해 적은 경향을 나타냈다. 재래종토종닭과 화이트레그혼의 품종 간 경제형질 능력의 차이를 보였으며, 화이트레그혼 품종 내 F, K계통 간 경제형질 능력의 유의적인 차이는 없는 것으로 나타났다. L, F, K계통에서 150일령 체중의 유전력은 0.48~0.52로 고도의 유전력으로 나타났으며, 270일령 체중은 0.56~0.57로 고도의 유전력, 270일령 난중은 0.55~0.59로 고도의 유전력, 시산일령은 0.31~0.45로 중도에서 고도의 유전력, 270일령 산란수는 0.20~0.22로 중도의 유전력, 마지막으로 시산난중은 0.15~0.16으로 저도의 유전력을 보였다. 시산일령과 270일령까지 산란수의 유전 및 표현형 상관계수는 각각 -0.73~-0.63, -0.48~-0.42로 부의 상관관계가 나타났다. 시산일령과 체중의 유전 상관은 0.05~0.17로 정의 상관관계를 보였으나, 표현형 상관은 -0.04~0.10으로 대체적으로 부의 상관관계를 나타냈다. 또한, 270일령까지 산란수와 150일령, 270일령 체중 및 270일령 난중의 유전상관은 각각 -0.16~0.01, -0.14~-0.03, -0.45~-0.24로 나타났고, 표현형 상관은 각각 -0.08~0.07, -0.13~0.04, -0.15~-0.11로 나타나 전반적으로 부의 상관을 보였다. 270일령 난중과 150, 270일령 체중은 0.36~0.49의 유전 상관과 0.29~0.37의 표현형 상관을 나타냈으며, 모두 정의 상관을 나타냈다. 270일령 난중과 시산난중은 0.50~0.73의 유전 상관과 0.21~0.32의 표현형 상관을 나타냈으며, 모둔 정의 상관을 나타냈고, 유전 상관이 표현형 상관보다 높게 나타났다. 시산난중과 체중의 상관 관계는 0.22~0.39로 정의 유전 상관과 0.07~0.16의 정의 표현형 상관을 보였으며, 시산난중과 시산일령은 0.48~0.67로 높은 정의 유전 상관과 0.27~0.39 정의 표현형 상관을 보였다. 그리고 150일과 270일 체중 간 유전 상관 0.90~0.91, 표현형 상관 0.68~0.80으로 상당히 높은 상관 관계가 있는 것으로 나타났다.