Estimation of genetic parameters for carcass defects of Japanese Black cattle in Kagoshima

Nishi, Kazutaka; Shimogiri, Takeshi; Kusano, Akinori; Sakamoto, Shinichi; Shiromoto, Kiyomi; Kawabe, Kotaro; Okamoto, Shin; Honda, Takeshi; Oyama, Kenji

doi:10.1111/asj.12475

Cited by 2 publications

(1 citation statement)

References 10 publications

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“…Atagi et al [ 25 ] detected detrimental effects of inbreeding in semen production traits. Nishi et al [ 26 ] observed a positive linear relationship between the defect incidence and inbreeding coefficients in muscle steatosis, bruising and trim loss, which all lower carcass value. However, few studies have investigated inbreeding depression using a genome-based inbreeding coefficient in Japanese Black cattle.…”

Section: Introductionmentioning

confidence: 99%

Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle

et al. 2023

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Background Pedigree-based inbreeding coefficients have been generally included in statistical models for genetic evaluation of Japanese Black cattle. The use of genomic data is expected to provide precise assessment of inbreeding level and depression. Recently, many measures have been used for genome-based inbreeding coefficients; however, with no consensus on which is the most appropriate. Therefore, we compared the pedigree- ($${F}_{PED}$$ F PED ) and multiple genome-based inbreeding coefficients, which were calculated from the genomic relationship matrix with observed allele frequencies ($${F}_{GRM}$$ F GRM ), correlation between uniting gametes ($${F}_{UNI}$$ F UNI ), the observed vs expected number of homozygous genotypes ($${F}_{HOM}$$ F HOM ), runs of homozygosity (ROH) segments ($${F}_{ROH}$$ F ROH ) and heterozygosity by descent segments ($${F}_{HBD}$$ F HBD ). We quantified inbreeding depression from estimating regression coefficients of inbreeding coefficients on three reproductive traits: age at first calving (AFC), calving difficulty (CD) and gestation length (GL) in Japanese Black cattle. Results The highest correlations with $${F}_{PED}$$ F PED were for $${F}_{ROH}$$ F ROH (0.86) and $${F}_{HBD}$$ F HBD (0.85) whereas $${F}_{GRM}$$ F GRM and $${F}_{UNI}$$ F UNI provided weak correlations with $${F}_{PED}$$ F PED , with range 0.33–0.55. Except for $${F}_{GRM}$$ F GRM and $${F}_{UNI}$$ F UNI , there were strong correlations among genome-based inbreeding coefficients ($$\ge$$ ≥ 0.94). The estimates of regression coefficients of inbreeding depression for $${F}_{PED}$$ F PED was 2.1 for AFC, 0.63 for CD and -1.21 for GL, respectively, but $${F}_{PED}$$ F PED had no significant effects on all traits. Genome-based inbreeding coefficients provided larger effects on all reproductive traits than $${F}_{PED}$$ F PED . In particular, for CD, all estimated regression coefficients for genome-based inbreeding coefficients were significant, and for GL, that for $${F}_{UNI}$$ F UNI had a significant.. Although there were no significant effects when using overall genome-level inbreeding coefficients for AFC and GL, $${F}_{ROH}$$ F ROH provided significant effects at chromosomal level in four chromosomes for AFC, three chromosomes for CD, and two chromosomes for GL. In addition, similar results were obtained for $${F}_{HBD}$$ F HBD . Conclusions Genome-based inbreeding coefficients can capture more phenotypic variation than $${F}_{PED}$$ F PED . In particular, $${F}_{ROH}$$ F ROH and $${F}_{HBD}$$ F HBD can be considered good estimators for quantifying inbreeding level and identifying inbreeding depression at the chromosome level. These findings might improve the quantification of inbreeding and breeding programs using genome-based inbreeding coefficients.

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Section: Introductionmentioning

confidence: 99%

Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle

et al. 2023

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Comparison of carcass defects incidence from marketing province, sexes, breed in Hanwoo and beef cattle in Korea

Sun¹,

Jang²,

Gang³

2017

Trends Agric. Life Sci.

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Blood splash and carcass defects were analyzed from beef cattle in Seoul slaughter house and Hanwoo in nationwide all slaughter houses from 2003 to 2007. Carcass defects was analyzed by carcass grade (70,982 cattle) from different marketing province (Seoul-Gyunggi, Chung-nam, Chung-buk, Jeon-buk, Jeon-nam, Gyung-buk, Gyung-nam), sexes (male, female, steer), and breed (33,000 Hanwoo, 7,000 dairy cattle, 37,000 beef cattle). Data were analyzed not by the statistical differences but differences by items and years. Slaughtered cattle in Seoul slaughter house were came from Seoul-Kyunggi (37.8%), Chung Nam-Buk (28.5%), Kyung Buk (11.5%) and rest of province. Incidence of blood splash in Seoul slaughter house was 1.14% in Hanwoo, 0.72% in dairy cattle, and 2.96% in beef cattle and it was the highest in steers. In general, blood splash in nationwide was 0.26～0.32% in Hanwoo, and then it was 80.1～85.5% of carcass defects. This incidence was increased in 2006. However, intrinsic and extrinsic factors, such as transport method, distance, animal density etc, may effect on blood splash in Hanwoo. In conclusion, blood splash would be controlled by the manipulation of beef cattle management during transportation. Blood splash incidence was different among marketing province to Seoul slaughter house, and all carcass defects was increased gradualy during five years in nationwide.

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Estimation of genetic parameters for carcass defects of Japanese Black cattle in Kagoshima

Cited by 2 publications

References 10 publications

Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle

Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle

Comparison of carcass defects incidence from marketing province, sexes, breed in Hanwoo and beef cattle in Korea

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