SNPs in AKIRIN2, TTN, EDG1 and MYBPC1 genes are associated with growth-related traits in Chinese Qinchuan cattle

Abstract Growth performances are the main breeding objectives in Chinese beef cattle. The objective of this study was to confirm genetic effects of the c.*188G > A SNP in AKIRIN2, the g.231054C > T SNP in TTN, the g.1471620G > T SNP in EDG1, and the g.70014208A > G SNP in MYBPC1 gene on growth-related traits in Chinese Qinchuan cattle, as well as to compare the frequencies of the well-characterized alleles of these SNPs among six Chinese cattle populations, three Japanese cattle populations, two European cattle populations and one Korean cattle breed. In this study, a total of 655 cattle samples were genotyped using MassARRAY and PCR-RFLP. Association analysis indicated that the four SNPs have effects one to six indexes of growth-related traits including body length, wither height, hip height, hip width, rump length, chest depth and chest circumference in Chinese Qinchuan cattle (P < 0.05 to P < 0.001). The well-characterized A (c.*188G > A), T (g.231054C > T) and T (g.1471620G > T) alleles in Japanese Black cattle were significantly higher than Chinese cattle breeds, on the contrary, the G allele (g.70014208A > G) was markedly higher in Chinese cattle breeds than other cattle breeds. These results suggest that the four SNPs might be useful as a molecular marker for growth-related traits in Chinese Qinchuan cattle.

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Association of SNPs in AKIRIN2, TTN, EDG1 and MYBPC1 genes with growth and carcass traits in Qinchuan cattle

Annals of Animal Science ◽

10.2478/aoas-2021-0025 ◽

2021 ◽

Vol 0 (0) ◽

Author(s):

Zixuan Cheng ◽

Cong Sheng ◽

Yaxing Li ◽

Shenyuan Wang ◽

Kaifeng Wu ◽

...

Keyword(s):

Carcass Traits ◽

Longissimus Muscle ◽

Qinchuan Cattle ◽

Muscle Area ◽

Korean Cattle ◽

Cattle Breeds ◽

Chinese Cattle ◽

Pcr Rflp ◽

Fat Thickness ◽

European Cattle

Abstract Growth and carcass traits are the main breeding objectives in beef cattle. The aim of this study was to confirm genetic effects of the c.*188G>A SNP of AKIRIN2, the g.231054C>T SNP of TTN, the g.1471620G>T SNP of EDG1 and the g.70014208A>G SNP of MYBPC1 on growth and carcass traits in Chinese Qinchuan (QC) cattle, as well as to compare the frequencies of the well-characterized alleles of these SNPs among six Chinese cattle populations, three Japanese cattle populations, two European cattle populations and one Korean cattle population. In this study, a total of 665 cattle samples were genotyped using MassARRAY and PCR-RFLP. Association analysis explored effects of four SNPs on growth and carcass traits including body length, wither height, hip height, hip width, rump length, chest depth, chest circumference, back fat thickness, ultrasound longissimus muscle area and ultrasound longissimus muscle depth in QC (P<0.05 to P<0.001). The well-characterized A (c.*188G>A), T (g.231054C>T) and T (g.1471620G>T) alleles in Japanese Black cattle were significantly higher than Chinese cattle breeds, on the contrary, the G allele (g.70014208A>G) was markedly higher in Chinese cattle breeds than other cattle breeds. These results suggest that the four SNPs might be useful as a molecular marker for growth-related traits in Chinese QC cattle.

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The Distribution Characteristics of a 19-bp Indel of the PLAG1 Gene in Chinese Cattle

Animals ◽

10.3390/ani9121082 ◽

2019 ◽

Vol 9 (12) ◽

pp. 1082 ◽

Cited By ~ 3

Author(s):

Zihui Zhou ◽

Bizhi Huang ◽

Zhenyu Lai ◽

Shipeng Li ◽

Fei Wu ◽

...

Keyword(s):

Regional Distribution ◽

Body Height ◽

The Body ◽

Qinchuan Cattle ◽

Cattle Breeding ◽

Cattle Breeds ◽

Mixed Genetic Background ◽

Chinese Cattle ◽

Intron 1 ◽

New Evidence

Pleomorphic adenoma gene 1 (PLAG1) belongs to the PLAG family of zinc finger transcription factors. In cattle, a 19-bp insertion/deletion (indel) was identified in intron 1 of the PLAG1 gene (GenBank Accession No. AC_000171.1). Researches showed that the indel is polymorphic in Chinese cattle breeds such as Qinchuan cattle, Pinan cattle, Xianan cattle, and Jiaxian red cattle, and correlation analysis showed that the polymorphism is related to the height of these cattle breeds. Chinese cattle breeds show a difference in height related to geographical distribution. We investigated the distribution of the 19-bp indel polymorphism in 37 cattle breeds, including 1354 individuals. The results showed that there were three genotypes and two alleles (W, 366 bp; D, 347 bp). From northern cattle to southern cattle, the frequency of W allele gradually decreased, while the frequency of D allele showed an opposite trend, which was consistent with the distribution of cattle breeds of different height in China. Therefore, the polymorphism of this indel may be related to the regional distribution of cattle breeds in China. In addition, we chose Yunling cattle with a mixed genetic background to study the genetic effects of the 19-bp indel on body size traits. Statistical analysis showed that PLAG1 was significantly associated with the body height, cross height, and chest circumference of Yunling cattle (p < 0.05). This study provides new evidence that the 19-bp indel of the PLAG1 gene is a highly effective trait marker that can be used as a candidate molecular marker for cattle breeding.

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Polymorphism of the Melanocortin 1 Receptor (MC1R) Gene and its Role in Determining the Coat Colour of Central European Cattle Breeds

Animals ◽

10.3390/ani10101878 ◽

2020 ◽

Vol 10 (10) ◽

pp. 1878

Author(s):

Karolina Kasprzak-Filipek ◽

Wioletta Sawicka-Zugaj ◽

Zygmunt Litwińczuk ◽

Witold Chabuz ◽

Rūta Šveistienė ◽

...

Keyword(s):

Receptor Gene ◽

Restriction Enzymes ◽

Strong Relationship ◽

Coat Colour ◽

Melanocortin 1 Receptor ◽

Mc1r Gene ◽

Central European ◽

Cattle Breeds ◽

Pcr Rflp ◽

European Cattle

There are many genes responsible for the appearance of different coat colours, among which the melanocortin 1 receptor gene (MC1R) plays an important role. The aim of the study was to characterize genetic variation in Central European cattle breeds based on polymorphism of the MC1R gene and factors determining their coat colour. The study was conducted on 290 individuals of the following breeds: Polish White-Backed (PW), Lithuanian White-Backed (LW), Polish Red (PR), Lithuanian Red (LR), Carpathian Brown (CB), Ukrainian Grey (UG), and Slovak Pinzgau (SP). Polymorphism at the MC1R gene locus was analysed by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) using two restriction enzymes: Cfr10I and SsiI. The proportions of alleles and genotypes in the MC1R locus indicates a strong relationship between polymorphism and the coat colour of cattle: The ED allele proved to be characteristic for the breeds with a white-backed coat (PW and LW), while the dominant allele in the red breeds (PR and LR) was E+. It is noteworthy that coat colour in the SP population was determined only by the recessive e allele, which resulted in the formation of a separate clade in the phylogenetic tree.

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REALIZATION OF PARENTAL INDICES OF COW PRODUCTIVITY IN DIFFERENT MILKING BREEDS AT BREEDING FARM "AGROFIRMA "PAKHMA"

АГРАРНЫЙ ВЕСТНИК ВЕРХНЕВОЛЖЬЯ ◽

10.35523/2307-5872-2020-30-1-97-102 ◽

2020 ◽

Keyword(s):

Milk Yield ◽

Cattle Breed ◽

Holstein Cattle ◽

Milk Productivity ◽

Cattle Breeds ◽

Significant Difference ◽

Production Indices ◽

High Level ◽

Beta Lactoglobulin ◽

Percentage Protein

Combination of genotypes of main types’ genetic markers causes milk productivity in cattle. The article studies correlation between kappa casein genotypes (C3N3), beta-lactoglobulin (LGB), their complexes and milk production indices in cows bred under equal conditions at a breeding farm. The calculation of parental milk yield and fat indices between the three breeds showed a significant difference (P>0,999) of PCI of Ayrshire and Holstein cattle breed milk yield - 3395 kg, PCI of fat - 0,22%; between Holstein and Yaroslavl cattle breeds - 3200 kg, PCI offat - 0,16%. A significant difference of realization indices of protein between all three breeds was not stated. The highest realization ofparental milk yield index was stated - between Ayrshire and Yaroslavl cattle breeds- 113%, Holstein cattle breed - 88%. As for the fat and protein indices, all three cattle breeds showed a high realization of PCI from 98% to 109%. However, Holstein cattle breed showed the highest percentage: protein - 101%, fat - 109%. A significant difference of PCI realization of milk productivity in CSN3 and LGB genotypes was not stated. It was also stated that there is a tendency of high level parental indices realization when there is a higher number of B-allele variants in genotypes of cows.

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On the origin and diversification of Podolian cattle breeds: testing scenarios of European colonization using genome-wide SNP data

Genetics Selection Evolution ◽

10.1186/s12711-021-00639-w ◽

2021 ◽

Vol 53 (1) ◽

Author(s):

Gabriele Senczuk ◽

Salvatore Mastrangelo ◽

Paolo Ajmone-Marsan ◽

Zsolt Becskei ◽

Paolo Colangelo ◽

...

Keyword(s):

Genetic Diversity ◽

Diversity Indices ◽

Melting Pot ◽

Cattle Breeds ◽

Snp Data ◽

Early Migration ◽

Genome Wide ◽

European Colonization ◽

Approximate Bayesian ◽

European Cattle

Abstract Background During the Neolithic expansion, cattle accompanied humans and spread from their domestication centres to colonize the ancient world. In addition, European cattle occasionally intermingled with both indicine cattle and local aurochs resulting in an exclusive pattern of genetic diversity. Among the most ancient European cattle are breeds that belong to the so-called Podolian trunk, the history of which is still not well established. Here, we used genome-wide single nucleotide polymorphism (SNP) data on 806 individuals belonging to 36 breeds to reconstruct the origin and diversification of Podolian cattle and to provide a reliable scenario of the European colonization, through an approximate Bayesian computation random forest (ABC-RF) approach. Results Our results indicate that European Podolian cattle display higher values of genetic diversity indices than both African taurine and Asian indicine breeds. Clustering analyses show that Podolian breeds share close genomic relationships, which suggests a likely common genetic ancestry. Among the simulated and tested scenarios of the colonization of Europe from taurine cattle, the greatest support was obtained for the model assuming at least two waves of diffusion. Time estimates are in line with an early migration from the domestication centre of non-Podolian taurine breeds followed by a secondary migration of Podolian breeds. The best fitting model also suggests that the Italian Podolian breeds are the result of admixture between different genomic pools. Conclusions This comprehensive dataset that includes most of the autochthonous cattle breeds belonging to the so-called Podolian trunk allowed us not only to shed light onto the origin and diversification of this group of cattle, but also to gain new insights into the diffusion of European cattle. The most well-supported scenario of colonization points to two main waves of migrations: with one that occurred alongside with the Neolithic human expansion and gave rise to the non-Podolian taurine breeds, and a more recent one that favoured the diffusion of European Podolian. In this process, we highlight the importance of both the Mediterranean and Danube routes in promoting European cattle colonization. Moreover, we identified admixture as a driver of diversification in Italy, which could represent a melting pot for Podolian cattle.

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Genome‐wide SNP analysis clearly distinguished the Belarusian Red cattle from other European cattle breeds

Animal Genetics ◽

10.1111/age.13102 ◽

2021 ◽

Author(s):

N. A. Zinovieva ◽

I. P. Sheiko ◽

A. V. Dotsev ◽

R. I. Sheiko ◽

M. E. Mikhailova ◽

...

Keyword(s):

Snp Analysis ◽

Cattle Breeds ◽

Genome Wide ◽

European Cattle

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Prolactin Genotyping of Najdi Cattle Breed Using PCR-RFLP

Journal of Animal and Veterinary Advances ◽

10.3923/javaa.2010.281.283 ◽

2010 ◽

Vol 9 (2) ◽

pp. 281-283

Author(s):

S. Sharifi ◽

H. Roshanfekr ◽

S.R. Khatami ◽

K.H. Mirzadeh

Keyword(s):

Cattle Breed ◽

Pcr Rflp

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Identifying Cattle Breed-Specific Partner Choice of Transcription Factors during the African Trypanosomiasis Disease Progression Using Bioinformatics Analysis

Vaccines ◽

10.3390/vaccines8020246 ◽

2020 ◽

Vol 8 (2) ◽

pp. 246 ◽

Cited By ~ 1

Author(s):

Abirami Rajavel ◽

Felix Heinrich ◽

Armin Otto Schmitt ◽

Mehmet Gültas

Keyword(s):

Disease Progression ◽

Neuronal Degeneration ◽

Cattle Breed ◽

Tsetse Fly ◽

Partner Choice ◽

Sub Saharan Africa ◽

Economic Losses ◽

Intermittent Fever ◽

Cattle Breeds ◽

Animal Trypanosomiasis

African Animal Trypanosomiasis (AAT) is a disease caused by pathogenic trypanosomes which affects millions of livestock every year causing huge economic losses in agricultural production especially in sub-Saharan Africa. The disease is spread by the tsetse fly which carries the parasite in its saliva. During the disease progression, the cattle are prominently subjected to anaemia, weight loss, intermittent fever, chills, neuronal degeneration, congestive heart failure, and finally death. According to their different genetic programs governing the level of tolerance to AAT, cattle breeds are classified as either resistant or susceptible. In this study, we focus on the cattle breeds N’Dama and Boran which are known to be resistant and susceptible to trypanosomiasis, respectively. Despite the rich literature on both breeds, the gene regulatory mechanisms of the underlying biological processes for their resistance and susceptibility have not been extensively studied. To address the limited knowledge about the tissue-specific transcription factor (TF) cooperations associated with trypanosomiasis, we investigated gene expression data from these cattle breeds computationally. Consequently, we identified significant cooperative TF pairs (especially D B P − P P A R A and D B P − T H A P 1 in N’Dama and D B P − P A X 8 in Boran liver tissue) which could help understand the underlying AAT tolerance/susceptibility mechanism in both cattle breeds.

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Genetic variations of the bovine MX1 and their association with mastitis

Czech Journal of Animal Science ◽

10.17221/97/2015-cjas ◽

2017 ◽

Vol 62 (No. 4) ◽

pp. 157-167

Author(s):

N. Chen ◽

F. Wang ◽

N. Yu ◽

Y. Gao ◽

J. Huang ◽

...

Keyword(s):

Dairy Cattle ◽

Wide Spectrum ◽

Holstein Cows ◽

Holstein Cattle ◽

Nucleotide Polymorphisms ◽

Coding Region ◽

Bacterial Strains ◽

Cattle Breeds ◽

Chinese Cattle ◽

Mx1 Gene

The primary agent of mastitis is a wide spectrum of bacterial strains; however, viral-related mastitis has also been reported. The MX dynamin-like GTPase 1 (MX1) gene has been demonstrated to confer positive antiviral responses to many viruses, and may be a suitable candidate gene for the study of disease resistance in dairy cattle. The present study was conducted to investigate the genetic diversity of the MX1 gene in Chinese cattle breeds and its effects on mastitis in Holstein cows. First, polymorphisms were identified in the complete coding region of the bovine MX1 gene in 14 Chinese cattle breeds. An association study was then carried out, utilizing polymorphisms detected in Holstein cows to determine the associations of these single nucleotide polymorphisms (SNPs) with mastitis. We identified 13 previously reported SNPs in Chinese domestic cattle and four of them in Holstein cattle. A novel 12 bp indel was also discovered in Holstein cattle. In addition, haplotype frequencies and linkage disequilibrium of four SNPs detected in Holstein cows were investigated. Analysis of these four SNPs in Chinese Holstein cows revealed two SNPs (g.143181370 T>C and g.143182088 C>T)<br /> significantly (P < 0.05) associated with somatic cell score (SCS). The results indicated that SNPs in the MX1 gene might contribute to the variations observed in the SCS of dairy cattle. Therefore, implementation of these two mutations in selection indexes of the dairy industry might be beneficial by favouring the selection individuals with lower SCS.

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