Epistasis Between Calpain 1 and Its Inhibitor Calpastatin Within Breeds of Cattle

Barendse, W.; Harrison, B. E.; Hawken, Rachel; Ferguson, D. M.; Thompson, J. M.; Thomas, Morgane; Bunch, R. J.

doi:10.1534/genetics.107.074328

Cited by 74 publications

(63 citation statements)

References 63 publications

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“…The dominance effect was found at CAPN4751 for all aging periods and CC and CT genotypes were more tender than the TT genotype. Results observed in Nellore cattle confirm previous studies that documented the effect of SNP CAPN4751 on tenderness in B. p. taurus, B. p. indicus and crossbreed populations as can be observed in White et al (2005), Casas et al (2006) and Barendse et al (2007). Therefore, CAPN4751 is really an important SNP on the CAPN1 gene, because it explains the functional variation for tenderness in many bovine subspecies.…”

Section: Capn4751supporting

confidence: 88%

“…The CAST gene (GenBank accession No. AY008267) is located on chromosome 7 and some polymorphisms on this gene have been recently studied (Casas et al, 2006;Schenkel et al, 2006;Barendse et al, 2007). The SNP UOGCAST1 is a substitution of cytosine with guanine (C/G) located on intron 5 of the CAST gene (base 282 of AY008267), as described by Schenkel et al (2006).…”

Section: Uogcast1mentioning

confidence: 99%

“…Maybe, with greater power of test (increasing dataset) some other significant epistatic interactions can be observed, since Barendse et al (2007) reported additive-by-dominant interaction between CAPN4751 with SNPs on the CAST gene. It is very important to remember that epistatic effects must be estimated jointly with marginal additive and dominance effects.…”

Section: Epistasis Effectsmentioning

confidence: 99%

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Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle

Pinto¹,

Ferraz²,

Meirelles³

et al. 2010

Genet. Mol. Res.

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ABSTRACT. We examined whether single-nucleotide polymorphisms (SNPs) in the calpain (CAPN) and calpastatin (CAST) genes, described from Bos primigenius taurus, are polymorphic in Nellore cattle. We also looked for a possible association of linkage disequilibrium of this polymorphism with tenderness of the longissimus dorsi muscle after 7, 14 and 21 days of postmortem aging in 638 purebred Nellore bulls. Meat tenderness was measured as Warner-Bratzler shear force. Additive and dominance effects were tested for SNPs of the three genotypic classes; the substitution effect was tested for SNPs with missing genotypic classes. Genotypic and gene frequencies were also calculated for the different SNPs. An increase in tenderness was observed from 7 to 21 days; the average values for shear force at 7, 14 and 21 days of aging were 5.92 ± 0.06, 4.92 ± 0.05, and 4.38 ± 0.04 kg, respectively. All markers showed polymorphism, but there was no CC genotype for CAPN316, and few animals showed the AA genotype for CAPN530. The alleles CAPN4751, UOGCAST1, and WSUCAST were found to have additive and dominance effects for shear force at 7, 14 and 21 days, while CAPN316 showed a substitution effect for shear force at

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Section: Capn4751supporting

confidence: 88%

Section: Uogcast1mentioning

confidence: 99%

Section: Epistasis Effectsmentioning

confidence: 99%

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Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle

Pinto¹,

Ferraz²,

Meirelles³

et al. 2010

Genet. Mol. Res.

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“…Meat tenderness is known to be affected by polymorphisms in the calpain and calpastatin genes, and these polymorphisms differ in allele frequency between Brahman and Bt cattle (White et al, 2005;Barendse et al, 2007Barendse et al, , 2008Davis et al, 2008). However, none of calpain and calpastatin genes was detected within the highly significant LDPF segments.…”

mentioning

confidence: 99%

Detection of chromosome segments of zebu and taurine origin and their effect on beef production and growth1

Bolormaa¹,

Hayes²,

Hawken³

et al. 2011

Journal of Animal Science

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Cattle in breeds formed by recent crossing of Bos taurus (Bt) and Bos indicus (Bi) subspecies should contain chromosomes that are a composite of Bt and Bt segments. Using data from a 50K SNP chip, we were able to identify whether a chromosome segment of 11 SNP in a composite animal descended from a Bt or a Bi ancestor. When the method was tested in purebred Bt or Brahman cattle, about 94% of segments were assigned correctly. About 10% of the genome in Australian Brahman cattle appears to be of Bt origin, as might be expected from their history. We then examined the effect of the origin of each chromosome segment on BW in a population of 515 Bt × Bi composite cattle and found 67 chromosome segments with a significant (P < 0.01) effect. We confirmed these effects by examining these 67 segments in a population of Brahman cattle and in a population of mixed breeds including composite breeds such as Santa Gertrudis and Brahman cattle. About 66% of the 67 segments had an effect in the same direction in the confirmation analyses as in the discovery population. However, the effect on BW and other traits of chromosome segment origin is small, indicating that we had low power to detect these effects with the number of animals available. Consequently, when chromosome segment origin was used in genomic selection to predict BW, the accuracy was low (0.08). Chromosome segments that had a positive effect on BW tend to be at greater frequency in composite breeds than chromosome segments with a negative effect on BW.

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“…An association between meat tenderness and both genetic markers in the calpastatin and calpain genes has been confirmed in various studies (e.g. Casas et al, 2006;Barendse et al, 2007). The DGAT1 gene genetic variants was primarily associated with milk production (Thaller et al, 2003), but several later studies reported the association between SNPs in DGAT1 gene and marbling and fat thickness (Wu et al, 2012;Tait et al, 2014).…”

Section: Resultsmentioning

confidence: 82%

Polymorphisms in Candidate Genes for Beef Quality in Pinzgau Cattle

Trakovická¹,

Moravčíková²,

Nádaský³

et al. 2018

AGR

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The aim of present study was to identify the polymorphisms in genes encoding calpastatin (CASTUoG), calpain (CAPN1, CAPN2), diacylglycerol Oacyltransferase (DGAT1), thyroglobulin (TG5), and Stearoyl-CoA Desaturase (SCD) in order to analyse genetic structure of Pinzgau cattle. The genomic DNA for genotyping was obtained from in total 56 blood samples of Pinzgau bulls. After extraction, the concentration of DNA was controlled by the spectrophotometry measurement. The genotyping of each individual was carried out by using PCR-RFLP methods. The average value of observed (0.37±0.05) and expected heterozygosity (0.39±0.06) clearly indicated the prevalence of homozygous individuals. Observed Wright's fixation indexes showed positive values across all loci (0.03±0.06), which confirmed slight deficiency of heterozygote animals compared to the Hardy-Weinberg equilibrium expectations. The Hardy-Weinberg equilibrium was found in population, which signalizes only slight impact of factors such as selection, migration or inbreeding. The effectiveness of loci allele impact in populations has been described also by effective allele numbers (1.68±0.13) that expressed the decrease of allele activity in population. The loss of heterozygosity in analysed population was found across all of genetic markers. Each of the evaluated indicators clearly points to the need of genetic diversity monitoring. Moreover, the analyses of single nucleotide polymorphisms in genes significantly involved in control of economically important production traits are still very usable methods for identification of genetic markers that can be used in marker assisted selection of cattle.

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Epistasis Between Calpain 1 and Its Inhibitor Calpastatin Within Breeds of Cattle

Cited by 74 publications

References 63 publications

Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle

Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle

Detection of chromosome segments of zebu and taurine origin and their effect on beef production and growth1

Polymorphisms in Candidate Genes for Beef Quality in Pinzgau Cattle

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