Polymorphism and Association of 5’UTR CAPN1 Gene with Growth Traits in Bali Cattle by PCR-RFLP

Sihite, Dian Erma Waru Tidolf; Priyanto, Rudy; Jakaria, Jakaria

doi:10.5398/tasj.2019.42.3.175

Cited by 3 publications

(4 citation statements)

References 19 publications

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“…Bali cattle with the GG genotype had the highest body weight at 730 days compared to the GT genotype. Sihite et al (2019) showed that the CAPN1 gene was associated with birth weight and average daily gain, which differs from this present study in terms of the number of samples used. These findings suggested that SNP g.232 G>T polymorphisms potentially be used as the candidate of Marker Assisted Selection (MAS) for selection criteria for growth trait.…”

Section: Association Of Genotype With Growth and Meat Quality Traitscontrasting

confidence: 99%

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Association of SNP g.232 G>T Calpain Gene with Growth and Live Meat Quality Prediction using Ultrasound Images in Bali Cattle

Dairoh¹,

Jakaria²,

Ulum³

et al. 2021

JITV

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Bali cattle (Bos javanicus) are native Indonesian cattle, domesticated from banteng (Bibos banteng). Genes that have an important role in meat quality are calcium-activated neutral protease genes, known as calpains (CAPN). The objective of this study was to evaluate the polymophisms of calpain gene SNP g.232 G>T by PCR-RFLP technique and its influence on growth trait and meat quality of Bali cattle detected by ultrasound imaging of longissimus dorsi thickness (LDT), back fat thickness (BFT), marbling score (MS), and intramuscular fat percentage (PIMF). The polymorphisms of CAPN1 gene were analyzed by PCR-RFLP using BglII restriction enzyme (n=52 cattle). The ultrasound images of longissimus dorsi muscle were carried out transversally and longitudinal between 12th -13th thoracic vertebrae then analyzed by Image-J NIH software. Result showed that SNP g.232 G>T of CAPN1 gene was polymorphic in Bali cattle. SNP g.232 G>T of CAPN1 gene in Bali cattle has higher diversity which was showed of 0.48 heterozygosity value and was in Hardy-Weinberg equilibrium. The polymorphisms of SNP g.232 G>T was associated significantly (P<0.05) with bodyweight at 730 days, marbling score (MS), and intramuscular fat percentage (PIMF). It suggests that the CAPN1 gene in Bali cattle is a candidate for Marker Assisted Selection (MAS), which influences body weight at 730 days, marbling score, and percentage of intramuscular fat.

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Section: Association Of Genotype With Growth and Meat Quality Traitscontrasting

confidence: 99%

“…However, there was no information about the association of 5'UTR with meat quality in Bali cattle. According to Sihite et al (2019), Bali cattle with the GG genotype have the highest value of live weight and average daily gain than the GT and TT genotypes.…”

Section: Polymorphisms Of Snp G232 G>t 5'utr Regionmentioning

confidence: 99%

Association of SNP g.232 G>T Calpain Gene with Growth and Live Meat Quality Prediction using Ultrasound Images in Bali Cattle

Dairoh¹,

Jakaria²,

Ulum³

et al. 2021

JITV

Self Cite

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“…The result of the association shown that both SNPs and dele-tion mutation in the 3'UTR polymorphism was not associated (P>0.05) with growth traits in Bali cattle (Table 3). This result was different from the 5'UTR polymorphism of CAPN1 by previous studies of Sihite et al, (2019) shown that the CAPN1 gene was associated with live weight and daily body weight gain in Bali cattle. The result from this study was in accordance with previously studied by Pintos and Corva 2011;Café et al, 2010 shown that the CAPN1 gene as the major role of flavoring tenderness was a negative effect on growth traits in Argentinian Angus and Brahman cattle.…”

Section: The Association Of 3'utr Polymorphism With Growth and Meat Q...contrasting

confidence: 97%

A New SNPs at 3’UTR Region of calpain 1 gene and its association with growth and meat quality traits in beef cattle

Dairoh

Jakaria

Ulum

et al. 2021

J. Indonesian Trop. Anim. Agric.

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The objective of this study was to evaluate single nucleotide polymorphisms (SNP) in the 3'UTR region of CAPN1 gene by direct sequencing technique in beef cattle and its influence on growth and meat quality of the contrast mode ultrasound image in Bali cattle. The numbers of beef cattle used were Bali cattle (n=52 heads) which compared to purebred Belgian Blue (n=30 heads), Limousine (n=14 heads), Wagyu (n=7 heads), and PO (n=10 heads). Genetic diversity data were obtained from calculations by PopGen 1.32 software. Ultrasound imaging of the thoracic longissimus dorsi muscle in Bali cattle was carried out between the 12 − 13 ribs, and the sonogram was analyzed by Image-J NIH software. The result shown that 3’UTR of CAPN1 gene was found in six discovery SNPs that polymorphic in Bali cattle, they were g.15284 C>T, g.15347 T>G, g.15525 G>A, g.15853 G>A, g.15905 G>A, g.15915 G>A and Indel mutation was polymorphic in Bali cattle, Belgian Blue, Limousine, and PO. There was no association between these SNPs and growth traits. However, SNP g.15525 G>A was significantly associated (P<0.05) with a backfat thickness (BFT) in Bali cattle. In conclusion, the CAPN1 gene in Bali cattle is a candidate for Marker Assisted Selection (MAS) related to meat quality.

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“…If the first is large, the allele frequencies are different. Sihite et al (2019) stated that the population of Bali cattle in BPTU-HPT Denpasar has undergone selection, so no located in Hardy-Weinberg equilibrium. A population was in Hardy-Weinberg equilibrium if there was no selection, mutation, migration and genetic drift.…”

Section: Resultsmentioning

confidence: 99%

Haplotype and phylogenetic diversity using mitochondrial 12S rRNA gene marker in Bali cattle

Suselowati,

Noor,

Jakaria

2023

J. Indonesian Trop. Anim. Agric.

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Bali cattle is one of Indonesia's original livestock genetic resources. The 12S rRNA can be used as a marker of genetic diversity, and until now, there has been no report on Bali cattle. The study was aimed to analyze the gene of mtDNA 12S rRNA to determine haplotype diversity and phylogenetics in Bali cattle populations of the eastern region of Indonesia. A total of 95 blood samples used consisted of three different populations which were Bali cattle, Ongole crossbred (PO) and Madura cattle as a comparison. This research was analyzed using PCR and sequencing methods. The data were analyzed using the cluster W method for estimating genetic distances, calculating diversity, and reconstructing phylogenetic trees using the MEGAX, DNAsP and Network. The genetic distance values ranged from 0.00200 to 0.01508, and the Haplotype diversity values ranged from 0.66000 to 0.91111. The nucleo-tide diversity values ranged from 0.00174 to 0.01673. There were 16 haplotypes found. The values of Gst, Nst and Fst were 0.00803, 0.07550, 0.07622; respectively. Based on the analysis, there were dif-ferences between Bali cattle from various populations, there were specific haplotypes. The 12S rRNA gene can be used as a genetic marker for diversity studies in Bali cattle and other cattle breeds although the diversity is low.

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Polymorphism and Association of 5’UTR CAPN1 Gene with Growth Traits in Bali Cattle by PCR-RFLP

Cited by 3 publications

References 19 publications

Association of SNP g.232 G>T Calpain Gene with Growth and Live Meat Quality Prediction using Ultrasound Images in Bali Cattle

Association of SNP g.232 G>T Calpain Gene with Growth and Live Meat Quality Prediction using Ultrasound Images in Bali Cattle

A New SNPs at 3’UTR Region of calpain 1 gene and its association with growth and meat quality traits in beef cattle

Haplotype and phylogenetic diversity using mitochondrial 12S rRNA gene marker in Bali cattle

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