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Haque MA, Alam MZ, Iqbal A, Lee YM, Dang CG, Kim JJ. Evaluation of accuracies of genomic predictions for body conformation traits in Korean Holstein. Anim Biosci 2024; 37:555-566. [PMID: 38271974 PMCID: PMC10915218 DOI: 10.5713/ab.23.0237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 08/31/2023] [Accepted: 11/22/2023] [Indexed: 01/27/2024] Open
Abstract
OBJECTIVE This study aimed to assess the genetic parameters and accuracy of genomic predictions for twenty-four linear body conformation traits and overall conformation scores in Korean Holstein dairy cows. METHODS A dataset of 2,206 Korean Holsteins was collected, and genotyping was performed using the Illumina Bovine 50K single nucleotide polymorphism (SNP) chip. The traits investigated included body traits (stature, height at front end, chest width, body depth, angularity, body condition score, and locomotion), rump traits (rump angle, rump width, and loin strength), feet and leg traits (rear leg set, rear leg rear view, foot angle, heel depth, and bone quality), udder traits (udder depth, udder texture, udder support, fore udder attachment, front teat placement, front teat length, rear udder height, rear udder width, and rear teat placement), and overall conformation score. Accuracy of genomic predictions was assessed using the single-trait animal model genomic best linear unbiased prediction method implemented in the ASReml-SA v4.2 software. RESULTS Heritability estimates ranged from 0.10 to 0.50 for body traits, 0.21 to 0.35 for rump traits, 0.13 to 0.29 for feet and leg traits, and 0.05 to 0.46 for udder traits. Rump traits exhibited the highest average heritability (0.29), while feet and leg traits had the lowest estimates (0.21). Accuracy of genomic predictions varied among the twenty-four linear body conformation traits, ranging from 0.26 to 0.49. The heritability and prediction accuracy of genomic estimated breeding value (GEBV) for the overall conformation score were 0.45 and 0.46, respectively. The GEBVs for body conformation traits in Korean Holstein cows had low accuracy, falling below the 50% threshold. CONCLUSION The limited response to selection for body conformation traits in Korean Holsteins may be attributed to both the low heritability of these traits and the lower accuracy estimates for GEBVs. Further research is needed to enhance the accuracy of GEBVs and improve the selection response for these traits.
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Affiliation(s)
- Md Azizul Haque
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541,
Korea
| | | | - Asif Iqbal
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541,
Korea
| | - Yun Mi Lee
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541,
Korea
| | - Chang Gwon Dang
- Animal Breeding and Genetics Division, National Institute of Animal Science, Cheonan, 31000,
Korea
| | - Jong Joo Kim
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541,
Korea
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Liu Y, Han B, Zheng W, Peng P, Yang C, Jiang G, Ma Y, Li J, Ni J, Sun D. Identification of genetic associations and functional SNPs of bovine KLF6 gene on milk production traits in Chinese holstein. BMC Genom Data 2023; 24:72. [PMID: 38017423 PMCID: PMC10685595 DOI: 10.1186/s12863-023-01175-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Accepted: 11/13/2023] [Indexed: 11/30/2023] Open
Abstract
BACKGROUND Our previous research identified the Kruppel like factor 6 (KLF6) gene as a prospective candidate for milk production traits in dairy cattle. The expression of KLF6 in the livers of Holstein cows during the peak of lactation was significantly higher than that during the dry and early lactation periods. Notably, it plays an essential role in activating peroxisome proliferator-activated receptor α (PPARα) signaling pathways. The primary aim of this study was to further substantiate whether the KLF6 gene has significant genetic effects on milk traits in dairy cattle. RESULTS Through direct sequencing of PCR products with pooled DNA, we totally identified 12 single nucleotide polymorphisms (SNPs) within the KLF6 gene. The set of SNPs encompasses 7 located in 5' flanking region, 2 located in exon 2 and 3 located in 3' untranslated region (UTR). Of these, the g.44601035G > A is a missense mutation that resulting in the replacement of arginine (CGG) with glutamine (CAG), consequently leading to alterations in the secondary structure of the KLF6 protein, as predicted by SOPMA. The remaining 7 regulatory SNPs significantly impacted the transcriptional activity of KLF6 following mutation (P < 0.005), manifesting as changes in transcription factor binding sites. Additionally, 4 SNPs located in both the UTR and exons were predicted to influence the secondary structure of KLF6 mRNA using the RNAfold web server. Furthermore, we performed the genotype-phenotype association analysis using SAS 9.2 which found all the 12 SNPs were significantly correlated to milk yield, fat yield, fat percentage, protein yield and protein percentage within both the first and second lactations (P < 0.0001 ~ 0.0441). Also, with Haploview 4.2 software, we found the 12 SNPs linked closely and formed a haplotype block, which was strongly associated with five milk traits (P < 0.0001 ~ 0.0203). CONCLUSIONS In summary, our study represented the KLF6 gene has significant impacts on milk yield and composition traits in dairy cattle. Among the identified SNPs, 7 were implicated in modulating milk traits by impacting transcriptional activity, 4 by altering mRNA secondary structure, and 1 by affecting the protein secondary structure of KLF6. These findings provided valuable molecular insights for genomic selection program of dairy cattle.
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Affiliation(s)
- Yanan Liu
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, National Engineering Laboratory for Animal Breeding, Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing, 100193, China
| | - Bo Han
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, National Engineering Laboratory for Animal Breeding, Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing, 100193, China
| | - Weijie Zheng
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, National Engineering Laboratory for Animal Breeding, Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing, 100193, China
| | - Peng Peng
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, National Engineering Laboratory for Animal Breeding, Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing, 100193, China
| | - Chendong Yang
- Hebei Province Animal Husbandry and Fine Breeds Work Station, No. 7 Xuefu Road, Changan District, Shijiazhuang, 050000, China
| | - Guie Jiang
- Hebei Province Animal Husbandry and Fine Breeds Work Station, No. 7 Xuefu Road, Changan District, Shijiazhuang, 050000, China
| | - Yabin Ma
- Hebei Province Animal Husbandry and Fine Breeds Work Station, No. 7 Xuefu Road, Changan District, Shijiazhuang, 050000, China
| | - Jianming Li
- Hebei Province Animal Husbandry and Fine Breeds Work Station, No. 7 Xuefu Road, Changan District, Shijiazhuang, 050000, China
| | - Junqing Ni
- Hebei Province Animal Husbandry and Fine Breeds Work Station, No. 7 Xuefu Road, Changan District, Shijiazhuang, 050000, China.
| | - Dongxiao Sun
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, National Engineering Laboratory for Animal Breeding, Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing, 100193, China.
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3
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Zhang X, Niu K, Wang W, Shaukat A, Zhao X, Yao Z, Liang A, Yang L. Relationships between body- and udder-related type traits with somatic cell counts and potential use for an early selection method for water buffaloes (Bubalus bubalis). J Anim Sci 2023; 101:skad238. [PMID: 37455295 PMCID: PMC10414137 DOI: 10.1093/jas/skad238] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Accepted: 07/09/2023] [Indexed: 07/18/2023] Open
Abstract
Water buffalo milk is a reliable source of high-quality nutrients; however, the susceptibility of mastitis in buffaloes must be taken into consideration. An animal with somatic cell count (SCC) of greater than 250,000 cells/mL is reported to be likely to have mastitis which has serious adverse effects on animal health, reproduction, milk yield, and milk quality. Type traits (TTs) of water buffalo can affect SCC in animal milk to some extent, but few reports on the correlation between SCC and TTs are available. In this study, a total of 1908 records collected from 678 water buffaloes were investigated. The general linear model was used to identify factors associated with phenotypic variation of the somatic cell score (SCS) trait, including parity, lactation length, calving year, and calving season as fixed effects. Using PROC CORR analysis method, taking calving year and lactation length as covariates, the correlation co-efficient between TT and SCS was obtained. Our results showed that correlation co-efficients between the 45 TTs with SCS ranged from 0.003 to 0.443 (degree of correlation). The correlation between udder traits and SCS was greater than that between body structure traits and SCS. Among udder traits, distance between teats (including front and rear teat distance [r = 0.308], front teat distance [r = 0.211], and teat crossing distance [r = 0.412]) and teat circumference (r = 0.443) had the highest correlation with SCS, followed by the leg traits including rear leg height (r = -0.354) and hock bend angle (r = -0.170). Animal with high rear legs (>48 cm) and short teat crossing distance (<17 cm), and narrow teat circumference (<11 cm) exhibited low SCS. Using four nonlinear models (Von Bertalanffy, Brody, Logistic, and Gompertz), the optimal growth curves of the TTs highly correlated with the SCS (rear leg height and teat crossing distance) were fitted, and the correction co-efficients of these two TTs rear leg height and teat crossing distance of animal from young age (2 mo old) to first lactation (35 mo old) were attained for establishment of early selection method for water buffaloes with low SCS. This study provides theoretical support for early selection of low-SCS water buffaloes and lays a foundation for improving milk quality and promoting healthy development of water buffalo's dairy industry.
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Affiliation(s)
- Xinxin Zhang
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Kaifeng Niu
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Wei Wang
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Aftab Shaukat
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Xuhong Zhao
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Zhiqiu Yao
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Aixin Liang
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
| | - Liguo Yang
- Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- International Joint Research Centre for Animal Genetics, Breeding and Reproduction (IJRCAGBR), Huazhong Agricultural University, Wuhan 430070, China
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Zhang XX, An ZG, Niu KF, Chen C, Ye TZ, Shaukat A, Yang LG. Evaluation of type traits in relation to production, and their importance in early selection for milk performance in dairy buffaloes. Animal 2022; 16:100653. [DOI: 10.1016/j.animal.2022.100653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Revised: 09/09/2022] [Accepted: 09/12/2022] [Indexed: 11/29/2022] Open
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Factor Analysis of Genetic Parameters for Body Conformation Traits in Dual-Purpose Simmental Cattle. Animals (Basel) 2022; 12:ani12182433. [PMID: 36139293 PMCID: PMC9495085 DOI: 10.3390/ani12182433] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2022] [Revised: 08/17/2022] [Accepted: 09/12/2022] [Indexed: 11/30/2022] Open
Abstract
Simple Summary Body conformation traits are closely related to economically important characteristics and should be considered in cattle breeding programs. A variety of body conformation traits recorded by classifiers can complicate the analysis process. Factor analysis can reduce the number of variables by combining two or more variables into a single factor, which has biological significance. The results of this study could be used by breeders to define conformation indexes and implement genetic assessments for conformation traits in dual-purpose breeds. Abstract In this study, we estimated the genetic parameters for 6 composite traits and 27 body conformation traits of 1016 dual-purpose Simmental cattle reared in northwestern China from 2010 to 2019 using a linear animal mixed model. To integrate these traits, a variety of methods were used as follows: (1) genetic parameters estimates for composite and individual body conformation traits based on the pedigree relationship matrix (A) and combined genomic-pedigree relationship matrix (H); (2) factor analysis to explore the relationships among body conformation traits; and (3) genetic parameters of factor scores estimated using A and H, and the correlations of EBVs of the factor scores and EBVs of the composite traits. Heritability estimates of the composite traits using A and H were low to medium (0.07–0.47). The 24 common latent factors explained 96.13% of the total variance. Among factors with eigenvalues ≥ 1, F1 was mainly related to body frame, muscularity, and rump; F2 was related to feet and legs; F3, F4, F5, and F6 were related to teat placement, teat size, udder size, and udder conformation; and F7 was related to body frame. Single-trait analysis of factor scores yielded heritability estimates that were low to moderate (0.008–0.43 based on A and 0.04–0.43 based on H). Spearman and Pearson correlations, derived from the best linear unbiased prediction analysis of composite traits and factor scores, showed a similar pattern. Thus, incorporating factor analysis into the morphological evaluation to simplify the assessment of body conformation traits may improve the genetics of dual-purpose Simmental cattle.
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Mapel XM, Hiltpold M, Kadri NK, Witschi U, Pausch H. Bull fertility and semen quality are not correlated with dairy and production traits in Brown Swiss cattle. JDS COMMUNICATIONS 2022; 3:120-125. [PMID: 36339738 PMCID: PMC9623726 DOI: 10.3168/jdsc.2021-0164] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2021] [Accepted: 11/21/2021] [Indexed: 05/31/2023]
Abstract
Undisturbed reproduction is key for successful breeding of beef and dairy cattle. Improving reproductive ability can be difficult because of antagonistic relationships with other economically relevant traits. In cattle, thorough investigation of female fertility revealed unfavorable genetic correlations with various production phenotypes. However, the correlation between male reproductive ability and production traits remains poorly understood. Here, we investigated the genetic relationships among and between male fertility characteristics and economically relevant traits in a population of Brown Swiss cattle. We performed GWAS with imputed genotypes at nearly 12 million sequence variants for semen quality (sperm head and tail anomalies, motility, concentration, and volume), male fertility, and 57 production phenotypes. Allele substitution effects were then correlated on a trait-by-trait basis to estimate genetic correlations. Correlations between male reproductive characteristics and traits of economic value were small and ranged from -0.0681 to 0.0787. Among the semen quality parameters, sperm motility was negatively correlated with anomalies (head: r = -0.7083 ± 0.0002; tail: r = -0.7739 ± 0.0002) and volume (r = -0.1266 ± 0.0003), whereas volume was negatively correlated with concentration (r = -0.3503 ± 0.0002). Sire nonreturn rate was negatively correlated with sperm anomalies (head: r = -0.1640 ± 0.0002; tail: r = -0.1580 ± 0.0002) and positively correlated with motility (r = 0.1598 ± 0.0002). A meta-analysis of male reproductive traits identified 2 quantitative trait loci: a previously described region on chromosome 6 showed pleiotropic effects and a novel region on chromosome 11 was associated with sperm head anomalies. In conclusion, our results suggest that selection for economically important dairy and production phenotypes has little impact on semen quality and fertility of Brown Swiss bulls.
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Affiliation(s)
- Xena Marie Mapel
- Animal Genomics, ETH Zürich, Universitätsstrasse 2, 8006 Zürich, Switzerland
| | - Maya Hiltpold
- Animal Genomics, ETH Zürich, Universitätsstrasse 2, 8006 Zürich, Switzerland
| | - Naveen Kumar Kadri
- Animal Genomics, ETH Zürich, Universitätsstrasse 2, 8006 Zürich, Switzerland
| | - Ulrich Witschi
- Swissgenetics, Meielenfeldweg 12, 3052 Zollikofen, Switzerland
| | - Hubert Pausch
- Animal Genomics, ETH Zürich, Universitätsstrasse 2, 8006 Zürich, Switzerland
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7
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Zhang M, Luo H, Xu L, Shi Y, Zhou J, Wang D, Zhang X, Huang X, Wang Y. Genomic Selection for Milk Production Traits in Xinjiang Brown Cattle. Animals (Basel) 2022; 12:ani12020136. [PMID: 35049759 PMCID: PMC8772551 DOI: 10.3390/ani12020136] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Revised: 12/22/2021] [Accepted: 12/30/2021] [Indexed: 11/16/2022] Open
Abstract
One-step genomic selection is a method for improving the reliability of the breeding value estimation. This study aimed to compare the reliability of pedigree-based best linear unbiased prediction (PBLUP) and single-step genomic best linear unbiased prediction (ssGBLUP), single-trait and multitrait models, and the restricted maximum likelihood (REML) and Bayesian methods. Data were collected from the production performance records of 2207 Xinjiang Brown cattle in Xinjiang from 1983 to 2018. A cross test was designed to calculate the genetic parameters and reliability of the breeding value of 305 daily milk yield (305 dMY), milk fat yield (MFY), milk protein yield (MPY), and somatic cell score (SCS) of Xinjiang Brown cattle. The heritability of 305 dMY, MFY, MPY, and SCS estimated using the REML and Bayesian multitrait models was approximately 0.39 (0.02), 0.40 (0.03), 0.49 (0.02), and 0.07 (0.02), respectively. The heritability and estimated breeding value (EBV) and the reliability of milk production traits of these cattle calculated based on PBLUP and ssGBLUP using the multitrait model REML and Bayesian methods were higher than those of the single-trait model REML method; the ssGBLUP method was significantly better than the PBLUP method. The reliability of the estimated breeding value can be improved from 0.9% to 3.6%, and the reliability of the genomic estimated breeding value (GEBV) for the genotyped population can reach 83%. Therefore, the genetic evaluation of the multitrait model is better than that of the single-trait model. Thus, genomic selection can be applied to small population varieties such as Xinjiang Brown cattle, in improving the reliability of the genomic estimated breeding value.
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Affiliation(s)
- Menghua Zhang
- College of Animal Science, Xinjiang Agricultural University, Urumqi 830052, China; (M.Z.); (L.X.); (D.W.); (X.Z.)
| | - Hanpeng Luo
- Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory of Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China;
| | - Lei Xu
- College of Animal Science, Xinjiang Agricultural University, Urumqi 830052, China; (M.Z.); (L.X.); (D.W.); (X.Z.)
| | - Yuangang Shi
- School of Agriculture, Ningxia University, Yinchuan 750021, China; (Y.S.); (J.Z.)
| | - Jinghang Zhou
- School of Agriculture, Ningxia University, Yinchuan 750021, China; (Y.S.); (J.Z.)
| | - Dan Wang
- College of Animal Science, Xinjiang Agricultural University, Urumqi 830052, China; (M.Z.); (L.X.); (D.W.); (X.Z.)
| | - Xiaoxue Zhang
- College of Animal Science, Xinjiang Agricultural University, Urumqi 830052, China; (M.Z.); (L.X.); (D.W.); (X.Z.)
| | - Xixia Huang
- College of Animal Science, Xinjiang Agricultural University, Urumqi 830052, China; (M.Z.); (L.X.); (D.W.); (X.Z.)
- Correspondence: (X.H.); (Y.W.); Tel.: +86-1399-999-6861 (X.H.); +86-1580-159-5851 (Y.W.)
| | - Yachun Wang
- Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory of Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China;
- Correspondence: (X.H.); (Y.W.); Tel.: +86-1399-999-6861 (X.H.); +86-1580-159-5851 (Y.W.)
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Martinez-Castillero M, Pegolo S, Sartori C, Toledo-Alvarado H, Varona L, Degano L, Vicario D, Finocchiaro R, Bittante G, Cecchinato A. Genetic correlations between fertility traits and milk composition and fatty acids in Holstein-Friesian, Brown Swiss, and Simmental cattle using recursive models. J Dairy Sci 2021; 104:6832-6846. [PMID: 33773778 DOI: 10.3168/jds.2020-19694] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Accepted: 02/01/2021] [Indexed: 12/11/2022]
Abstract
This study aimed to investigate the genetic and putative causal relationships between fertility traits [i.e., days open (DO) and calving rate (CR)] and milk quality, composition, and fatty acid contents (milk composition traits) in Holstein-Friesian, Brown Swiss, and Simmental cattle, using recursive models within a Bayesian framework. Trivariate animal models were run, each including one fertility trait, one milk composition trait, and, in all models, milk yield. The DO and CR data were merged with the test days closest to the insemination date for milk composition traits. After editing, 16,468 to 23,424 records for Holstein-Friesian, 23,424 to 46,660 for Brown Swiss, and 26,105 to 35,574 for Simmental were available for the analyses. Recursive animal models were applied to investigate the possible causal influences of milk composition traits on fertility and the genetic relationships among these traits. The results suggested a potential cause-and-effect relationship between milk composition traits and fertility traits, with the first trait influencing the latter. We also found greater recursive effects of milk composition traits on DO than on CR, the latter with some putative differences among breeds in terms of sensitivity. For instance, the putative causal effects of somatic cell score on CR (on the observed scale, %) varied from -0.96 to -1.39%, depending on the breed. Concerning fatty acids, we found relevant putative effects of C18:0 on CR, with estimates varying from -7.8 to -9.9%. Protein and casein percentages, and short-chain fatty acid showed larger recursive effects on CR, whereas fat, protein, and casein percentages, C16:0, C18:0, and long-chain fatty acid had larger effects on DO. The results obtained suggested that these milk traits could be considered as effective indicators of the effects of animal metabolic and physiological status on fertility.
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Affiliation(s)
- M Martinez-Castillero
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, viale dell' Università 16 35020, Legnaro PD, Italy
| | - S Pegolo
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, viale dell' Università 16 35020, Legnaro PD, Italy.
| | - C Sartori
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, viale dell' Università 16 35020, Legnaro PD, Italy
| | - H Toledo-Alvarado
- Department of Genetics and Biostatistics, Faculty of Veterinary Medicine and Zootechnics, National Autonomous University of Mexico, Ciudad Universitaria 3000, Mexico City 04510, Mexico
| | - L Varona
- Unidad de Genética Cuantitativa y Mejora Animal, Instituto Agroalimentario de Aragón (IA2), Universidad de Zaragoza, Calle de Miguel Servet 177, 50013 Zaragoza, Spain
| | - L Degano
- Associazione Nazionale Allevatori Razza Pezzata Rossa Italiana (ANAPRI), Udine 33100, Italy
| | - D Vicario
- Associazione Nazionale Allevatori Razza Pezzata Rossa Italiana (ANAPRI), Udine 33100, Italy
| | - R Finocchiaro
- Associazione Nazionale Allevatori bovini della razza Frisona e Jersey Italiana (ANAFIJ), Via Bergamo 292, 26100 Cremona, Italy
| | - G Bittante
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, viale dell' Università 16 35020, Legnaro PD, Italy
| | - A Cecchinato
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, viale dell' Università 16 35020, Legnaro PD, Italy
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Silva HT, Lopes PS, Carvalheira J, Silva DA, Silva AA, Silva FF, Veroneze R, Thompson G, Costa CN. Autoregressive model for genetic evaluation of longitudinal reproductive traits in Brazilian Holstein cattle. Reprod Domest Anim 2020; 56:391-399. [PMID: 33283338 DOI: 10.1111/rda.13874] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Accepted: 12/02/2020] [Indexed: 11/27/2022]
Abstract
Reproductive efficiency is major determinant of the dairy herd profitability. Thus, reproductive traits have been widely used as selection objectives in the current dairy cattle breeding programs. We aimed to evaluate strategies to model days open (DO), calving interval (CI) and daughter pregnancy rate (DPR) in Brazilian Holstein cattle. These reproductive traits were analysed by the autoregressive (AR) model and compared with classical repeatability (REP) model using 127,280, 173,092 and 127,280 phenotypic records, respectively. The first three calving orders of cows from 1,469 Holstein herds were used here. The AR model reported lower values for Akaike Information Criteria and Mean Square Errors, as well as larger model probabilities, for all evaluated traits. Similarly, larger additive genetic and lower residual variances were estimated from AR model. Heritability and repeatability estimates were similar for both models. Heritabilities for DO, CI and DPR were 0.04, 0.07 and 0.04; and 0.05, 0.06 and 0.04 for AR and REP models, respectively. Individual EBV reliabilities estimated from AR for DO, CI and DPR were, in average, 0.29, 0.30 and 0.29 units higher than those obtained from REP model. Rank correlation between EBVs obtained from AR and REP models considering the top 10 bulls ranged from 0.72 to 0.76; and increased from 0.98 to 0.99 for the top 100 bulls. The percentage of coincidence between selected bulls from both methods increased over the number of bulls included in the top groups. Overall, the results of model-fitting criteria, genetic parameters estimates and EBV predictions were favourable to the AR model, indicating that it may be applied for genetic evaluation of longitudinal reproductive traits in Brazilian Holstein cattle.
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Affiliation(s)
| | - Paulo Sávio Lopes
- Department of Animal Science, Federal University of Viçosa, Viçosa, Brazil
| | - Júlio Carvalheira
- Research Center in Biodiversity and Genetic Resources (CIBIO-InBio), University of Porto, Vairão, Portugal.,Institute of Biomedical Sciences Abel Salazar (ICBAS), University of Porto, Porto, Portugal
| | - Delvan Alves Silva
- Department of Animal Science, Federal University of Viçosa, Viçosa, Brazil
| | | | | | - Renata Veroneze
- Department of Animal Science, Federal University of Viçosa, Viçosa, Brazil
| | - Gertrude Thompson
- Research Center in Biodiversity and Genetic Resources (CIBIO-InBio), University of Porto, Vairão, Portugal.,Institute of Biomedical Sciences Abel Salazar (ICBAS), University of Porto, Porto, Portugal
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10
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Martin P, Baes C, Houlahan K, Richardson C, Jamrozik J, Miglior F. Genetic correlations among selected traits in Canadian Holsteins. CANADIAN JOURNAL OF ANIMAL SCIENCE 2019. [DOI: 10.1139/cjas-2018-0190] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
In the Canadian dairy industry, there are currently over 80 traits routinely evaluated, and more are considered for potential selection. Particularly, in the last few years, recording has commenced for several new phenotypes required to introduce novel traits with high economic importance into the selection program. However, without a systematic estimation of the genetic correlations that exist among traits, the potential results of indirect selection are unknown. Therefore, 29 traits representative of the trait diversity for first lactation Canadian animals were selected. Their two-by-two genetic correlations were estimated from a dataset of 62 498 first lactation Holstein cows, using a Markov Chain Monte Carlo Gibbs sampling approach. The general tendencies among the groups of traits confirm that production traits are negatively correlated with fertility traits and that functional traits are positively correlated with one another. The association of udder depth with fertility and disease resistance has also been highlighted. This contribution offers a comprehensive overview of current estimates across traits and includes correlations with novel traits that constitute an original addition to the literature. These new estimates can be used for newly developed genomic evaluation models and possibly lead to more accurate estimations of the dairy cows’ overall genetic merit.
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Affiliation(s)
- P. Martin
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
- Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA), AgroParisTech, Université Paris-Saclay, 78352 Jouy-en-Josas, France
| | - C. Baes
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
| | - K. Houlahan
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
| | - C.M. Richardson
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
| | - J. Jamrozik
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
- Canadian Dairy Network, Guelph, ON N1K 1E5, Canada
| | - F. Miglior
- Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON N1G 2W1, Canada
- Canadian Dairy Network, Guelph, ON N1K 1E5, Canada
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Roveglia C, Niero G, Bobbo T, Penasa M, Finocchiaro R, Visentin G, Lopez-Villalobos N, Cassandro M. Genetic parameters for linear type traits including locomotion in Italian Jersey cattle breed. Livest Sci 2019. [DOI: 10.1016/j.livsci.2019.09.023] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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12
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Exploration of factors determining milk production by Holstein cows raised on a dairy farm in a temperate climate area. Trop Anim Health Prod 2018; 51:529-536. [PMID: 30284696 DOI: 10.1007/s11250-018-1720-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2018] [Accepted: 09/28/2018] [Indexed: 10/28/2022]
Abstract
In this study, we examined factors that affected milk production by cows raised in a temperate climate area. We conducted this study on a large dairy farm containing approximately 2000 Holstein cows, located in a temperate climate area. We collected 7803 calving records for 4069 cows from 2012 to 2016. We then assessed the effect of hot weather on milk yield by examining three climate factors: season, maximum temperature (MAX), and the temperature and humidity index (THI). We found that increases in heat stress caused linear decreases in milk yield (P < 0.05). Additionally, the effects of the three climate factors on milk yield varied depending on cow parity and days open (P < 0.05). Thus, management procedures should consider cow parity and lactating stage to minimize the negative effects of heat stress on milk production. We also found that the lowest Akaike information criterion value was obtained in our model when using THI for 305-day milk yield. This suggests that THI is a more accurate variable for evaluating heat stress than MAX or season.
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