Analysis of Genetic Variation at the Prolactin-RsaI (PRL-RsaI) Locus in Indian Native Cattle Breeds (Bos indicus)

The genetic variation of ás1-, â- and ê-caseins and b-lactoglobulin was determined and their effects on the rennet coagulation properties were examined using 335 milk samples from 118 Estonian Native (EN) cows. We found 16 aggregate casein genotypes (ás1-, â-, ê-caseins), of which four . namely, BB A2A2 AA (21.2%), BB A1A2 AB (16.9%), BB A1A2 AA (14.4%), and BB A2A2 AB (10.2%) occurred among nearly two-thirds of the analysed cows. Aggregate casein genotype had a significant overall effect on rennet coagulation parameters. Better rennet coagulation properties were found for aggregate casein genotypes CC A2A2 AB and BC A1A2 BB, among frequent genotypes for BB A1A2 AB. Of the cattle breeds raised in Estonia, milk from EN had the best coagulation properties and highest frequency of favourable ê-Cn B allele.;

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Türkiye’de Yetiştirilen Bazı Sığır Irklarında GHR Geni Bakımından Genetik Çeşitlilik

Turkish Journal of Agriculture - Food Science and Technology ◽

10.24925/turjaf.v6i10.1329-1333.1804 ◽

2018 ◽

Vol 6 (10) ◽

pp. 1329

Author(s):

Özden Çobanoğlu

Keyword(s):

Cluster Analysis ◽

Genetic Variation ◽

Gene Polymorphism ◽

Clustering Analysis ◽

Yield Traits ◽

Cattle Breeds ◽

Ghr Gene ◽

Hardy Weinberg Equilibrium ◽

Native Cattle ◽

Genetic Clustering

In this study, it is aimed to determine GHR gene polymorphism in dairy cattle and some native cattle breeds raised in different regions of Turkey. The study was carried out by 468 Holstein, 280 Jersey, 93 Grey Steppe, 86 Native Black, and 64 East Anatolian Red animals. The FIS values of the populations for the GHR gene were detected negatively except for Grey Steppe and Native Black. FIS value was found 14% and negative with reference to heterozygote genotype was higher than homozygote genotypes in overall population. The expected deviations from the Hardy-Weinberg Equilibrium in terms of the GHR locus were found significant in these five different breeds except for Native Black. The genetic distance values among the populations were calculated between 0.0004 and 0.1881. Based on the cluster analysis, Holstein and East Anatolian Red were located in close cluster; however Jersey, Native Black and Grey Steppe were grouped as in different clusters. As a result, the genetic variation in five different cattle breeds grown in our country in terms of GHR gene has been determined by genetic clustering analysis. Therefore, it can be said that it is possible to increase the level of the yield traits in these breeds based on a genetic progression.

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Deciphering Local Adaptation Of Native Indian Cattle (Bos Indicus) Breeds Using Landscape Genomics And In-Silico Prediction Of Deleterious SNP Effects On Protein Structure And Function

10.21203/rs.3.rs-533895/v1 ◽

2021 ◽

Author(s):

Shivam Bhardwaj ◽

Sanjeev Singh ◽

Indrajit Ganguly ◽

Avnish Kumar Bhatia ◽

S. P. Dixit

Keyword(s):

Local Adaptation ◽

Protein Function ◽

Bos Indicus ◽

Climatic Conditions ◽

Landscape Genomics ◽

Mutant Proteins ◽

Cattle Breeds ◽

Native Cattle ◽

And Function ◽

The Impact

Abstract Present study aimed to explore genomic basis of adaptation of Indian native cattle and to predict the impact of key SNPs on amino acid changes that affect protein function. Four native cattle breeds belonging to contrasting landscape and climatic conditions were genotyped using Illumina 777 K BovineHD BeadChip: Siri & Ladakhi from cold hilly areas, and Kankrej and Hallikar from hot arid and semi-arid regions, respectively. The R.SamBada package in R was used to perform the genotype-environment association analysis. A total of 1,12,780 significant (q < 0.05), models with 30,350 unique SNPs were obtained. Significantly associated SNPs had impact on 4,435 genes and 141 pathways. Only ten SNP variants had a SIFT score of < 0.05 (deleterious), and only two of them, each lying in the genes CRYBA1 and USP18, were predicted to be deleterious with high confidence.. RaptorX predicted the tertiary structures of proteins encoded by wild and mutant variants of these genes. The quality of the models was determined using Ramachandran plots and RaptorX parameters, indicating that they are accurate. RaptorX and I-Mutant 2.0 softwares revealed significant differences among wild and mutant proteins. Identified adaptive alleles might be responsible for the local adaptation of these cattle breeds.

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Y-chromosome variation in Indian native cattle breeds and crossbred population

Indian Journal of Animal Research ◽

10.18805/ijar.v0iof.7006 ◽

2017 ◽

Author(s):

Indrajit Ganguly ◽

Suchit Kumar ◽

Sanjeev Singh ◽

Monika Sodhi ◽

Mukesh Bhakat

Keyword(s):

Y Chromosome ◽

Bos Taurus ◽

Bos Indicus ◽

Cost Effective ◽

Cattle Breeds ◽

Bull Semen ◽

Specific Pcr ◽

Allele Specific ◽

Native Cattle ◽

Male Specific

The paternally inherited Y chromosome markers have been used widely in population genetic studies to trace paternal lineages, to understand differences in migration pattern and populations admixture in animals. In the absence of crossing over, Y-chromosomal markers in the non-recombining male-specific region (MSY) are mostly transmitted as a haplotype. Recent studies of five polymorphic sites on DDX3Y, UTY and ZFY genes of bull MSY assisted in the identification of three haplotypes (Y1, Y2 and Y3) in contemporary cattle. Here we report the screening of five SNPs (ZFY9- 120> C/T; ZFY10- 655> C/T; DDX3Y1- 425>C/T; DDX3Y7 -123>C/T and UTY19-423>C/A) of bull MSY employing optimized and validated allele-specific PCR (AS-PCR) protocols that are useful in effective differentiation of bull/semen samples of Bos indicus and Bos taurus origin. Three haplotypes (Y1, Y2 and Y3) were identified in the present study by the screening of 181 bulls from 10 native cattle breeds and 50 HF crossbred. Y1 and Y2 haplotypes were restricted to HF crossbred with a frequency of 0.98 and 0.02, respectively. The high frequency of Y1 haplotype is possibly due to the occurrence of Y1 lineage predominantly in HF bulls. All the native cattle breeds were observed to have pure indicine haplotype (Y3). These cost effective AS-PCR protocols may be useful for reliable and accurate genotyping of Y-SNPs in diverse native cattle breeds, exotic and crossbred cattle populations.

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