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The improvement in imputation accuracy diminished across different methods of selecting SNPs with increased panel density. 5 O'Brien, A.C., Judge, M.M., Fair, S. & Berry, D.P. (2019) High imputation accuracy from informative low-to-medium density single nucleotide polymorphism genotypes is achievable in sheep1. Genomic technologies have not penetrated enough in livestock, especially in developing nations where animals from a particular breed/population cannot be concurrently genotyped mainly due to financial constraints. [Extracted from the article]

In present study, association of five single nucleotide polymorphisms (SNPs) of database rs109421300, rs43691049, rs109727821, rs109047657 and rs135678421 was investigated with milk minerals including calcium (Ca), phosphorus (P), copper (Cu), zinc (Zn), manganese (Mn), iron (Fe), sodium (Na), potassium (K) and constituents (fat and protein percentage) after adjusting the records with various significant non-genetic factors in crossbred (Vrindavani) cattle. The effect of rs109421300 pertaining to Diacylglycerol Acyltransferase (DGAT) gene located on BTA 14, was highly significant on fat percentage and significant on test day milk yield and non-significant on Ca, Cu, Mn, Zn, Fe, Na, K, test day milk yield and protein percentage. The AA genotypes of rs109421300 locus had significantly lower (2.96±0.17%) fat percentage than AG (4.64±0.22%), GG (4.62±0.27%) genotypes but simultaneously cows with AA genotypes had significantly highest (11.59±0.51 kg) test day milk yield than other two genotypes. At locus rs109727821, the manganese concentration was significantly highest (1.64±0.16 mg/l) for AG followed by AA (0.98±0.15 mg/l) and GG (0.77±0.24 mg/l) genotypes. The other SNPs had no significant association with traits under investigation. The existing association suggested possibilities to select animals for specific minerals and constituent traits in crossbred population. [ABSTRACT FROM AUTHOR]

The present study in the 5’ upstream region of TLR4 gene revealed four Single Nucleotide Polymorphisms (SNPs) in Vrindavani and Tharparkar cattle. The polymorphic information content (PIC), heterozygosity and allelic diversity values were low to moderate for these SNPs. In Vrindavani cattle, one SNP was found to be in Hardy-Weinberg Equilibrium (HWE) and the remaining three were found to be in linkage disequilibrium (LD) as indicated statistically (P > 0.05). In Tharparkar cattle, two SNPs were found to be in HWE and were not in LD as indicated statistically (P > 0.05). These SNPs were used for construction of haplotypes. In-silico analysis of these SNPs predicted abolition of eight transcription factor binding sites and creation of eight new sites. The quantitative real time PCR analysis did not show any significant variation of gene expression among haplotypes. However, gene expression between breed was found to be significant (P < 0.05) which suggested that upstream region of bovine TLR4 gene has a crucial role in its expression. These findings in TLR4 gene offer essential evidence that can be useful in future research exploring its role in immunity. TLR4 can be used as a marker for selection for disease resistance in bovines. [ABSTRACT FROM AUTHOR]