High resolution melt curve analysis identifies a novel SNP (G21A) in butyrophilin gene having significant association with milk production traits in Holstein Friesian crossbreds of Kerala

Potu, Hemanth; Lali, F A; Anilkumar, K.; Dipu, M. T.; Aravindakshan, T. V.

doi:10.1080/10495398.2022.2039169

Cited by 5 publications

(4 citation statements)

References 15 publications

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“…As the most complex trait in dairy cow production, milk production trait is regulated by many genes and environmental factors. Some nucleotide polymorphisms may be caused by a large (Fu et al, 2022;Jia et al, 2021;Potu et al, 2022) have discussed that SNPs in milk production candidate functional genes can significantly affect milk production traits of dairy cows. In addition, by adding functional gene information of target traits with large genetic effects to expand SNP marker data, the accuracy of genome breeding value prediction can be improved (de Las et al, 2020;Ye et al, 2022).…”

Section: Discussionmentioning

confidence: 99%

“…Scientific evaluation of population genetic structure can provide reference for genetic evaluation, protection and utilization of high‐quality resource populations of Holstein. At present, a large number of studies (Fu et al., 2022; Jia et al., 2021; Potu et al., 2022) have discussed that SNPs in milk production candidate functional genes can significantly affect milk production traits of dairy cows. In addition, by adding functional gene information of target traits with large genetic effects to expand SNP marker data, the accuracy of genome breeding value prediction can be improved (de Las et al., 2020; Ye et al., 2022).…”

Section: Discussionmentioning

confidence: 99%

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Polymorphism of ADAM12, DPP6 and PRKN genes and their associations with milk production traits in Holstein

Li,

Hu,

Feng

et al. 2023

Reprod Domestic Animals

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Milk production traits as the most important economic traits of dairy cows, they directly reflect the benefits of breeding and the economic benefits of pasture. In this study, A disintegrin and metalloproteinase‐12 (ADAM12), Parkinson's disease gene 2 (PRKN) and dipeptidyl peptidase‐like protein subtype 6 (DPP6) polymorphism in 384 Chinese Holstein cows were detected by time‐of‐flight mass spectrometry and through statistical analysis using software such as Popgene 32, SAS 9.4 and Origin 2022, the relationship between single nucleotide polymorphisms (SNPs) of three genes with four milk production traits such as daily milk yield (DMY), milk fat percentage (MFP), milk protein percentage (MPP) and somatic cell score (SCS) was verified at molecular level. The results showed that four polymorphic loci (116,467,133, 116,604,487, 116,618,268 and 116,835,111) of DPP6 gene, two polymorphic loci (97,665,052 and 97,159,837) of PRKN gene and two polymorphic loci (45,542,714 and 45,553,888) of ADAM12 gene were detected. PRKN‐97665052, DPP6‐116467133, ADAM12‐45553888, DPP6‐116604487 and DPP6‐116835111 were all in Hardy–Weinberg equilibrium state (p > .05). ADAM12‐45542714, PRKN‐97159837 and PRKN‐97665052 were moderately polymorphic (0.25 ≤ PIC <0.50) in Holstein. It is evident that the selection potential and genetic variation of these five loci are relatively large, and the genetic richness is relatively high. The correlation analysis of different genotypes between these eight loci and milk production traits of Holstein showed that ADAM12‐45542714 and DPP6‐116835111 (p < .01) had an extremely significant effects on the DMY of Chinese Holstein in Ningxia, while PRKN‐97665052 had an extremely significant effect on MFP (p < .01). The effect of PRKN‐97665052 and DPP6‐116467133 on MPP of Holstein were extremely significant (p < .01). DPP6‐116618268 had an extremely significant effect on the SCS of Holstein in Ningxia (p < .01), and AA genotype individuals showed a higher SCS than GG genotype individuals; the other two loci (ADAM12‐45553888 and DPP6‐116604487) had no significant effects on milk production traits of Holstein (p > .05). In addition, through the joint analysis of DPP6, PRKN and ADAM12 gene loci, it was found that the interaction effect between the three gene loci could significantly affect the DMY, SCS (p < .01) and MPP (p < .05). In conclusion, several different loci of DPP6, PRKN and ADAM12 genes can affect the milk production traits of Holstein to different degrees. PRKN, DPP6 and ADAM12 genes can be used as potential candidate genes for milk production traits of Holstein for marker‐assisted selection, providing theoretical basis for breeding of Holstein.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Polymorphism of ADAM12, DPP6 and PRKN genes and their associations with milk production traits in Holstein

Li,

Hu,

Feng

et al. 2023

Reprod Domestic Animals

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“…Then, all the generated ssDNA strands bind with universal probes labeled with uorophores and quench the uorescence signal. Finally, a melting curve analysis (MCA) [32][33][34] is performed following the reaction. The concentration of miRNAs can thus be quantied by calculating the rate of uorescence change at the corresponding T m value.…”

Section: Introductionmentioning

confidence: 99%

Programmable DNA barcode-encoded exponential amplification reaction for the multiplex detection of miRNAs

Tan,

Zhang,

Deng

2024

Anal. Methods

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“…Since 2009, the United States, Canada, and other dairy developed countries have successively applied genomic selection (GS) to cow breeding, which selects target traits through single nucleotide polymorphism (SNP) markers to improve selection intensity, efficiency, and accuracy [ 8 ]. Studies have shown that SNPs in the candidate functional genes can significantly affect the milk production traits of dairy cattle [ 9 , 10 , 11 , 12 , 13 ]. Moreover, some researchers showed that extending SNP marker data by adding functional gene information with a large genetic effect of target traits can improve the accuracy of genome breeding value prediction [ 14 , 15 , 16 ].…”

Section: Introductionmentioning

confidence: 99%

Single Nucleotide Polymorphisms of ALDH18A1 and MAT2A Genes and Their Genetic Associations with Milk Production Traits of Chinese Holstein Cows

Li³

et al. 2022

Genes

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Our preliminary work had suggested two genes, aldehyde dehydrogenase 18 family member A1 (ALDH18A1) and methionine adenosyltransferase 2A (MAT2A), related to amino acid synthesis and metabolism as candidates affecting milk traits by analyzing the liver transcriptome and proteome of dairy cows at different lactation stages. In this study, the single nucleotide polymorphisms (SNPs) of ALDH18A1 and MAT2A genes were identified and their genetic effects and underlying causative mechanisms on milk production traits in dairy cattle were analyzed, with the aim of providing effective genetic information for the molecular breeding of dairy cows. By resequencing the entire coding and partial flanking regions of ALDH18A1 and MAT2A, we found eight SNPs located in ALDH18A1 and two in MAT2A. Single-SNP association analysis showed that most of the 10 SNPs of these two genes were significantly associated with the milk yield traits, 305-day milk yield, fat yield, and protein yield in the first and second lactations (corrected p ≤ 0.0488). Using Haploview 4.2, we found that the seven SNPs of ALDH18A1 formed two haplotype blocks; subsequently, the haplotype-based association analysis showed that both haplotypes were significantly associated with 305-day milk yield, fat yield, and protein yield (corrected p ≤ 0.014). Furthermore, by Jaspar and Genomatix software, we found that 26:g.17130318 C>A and 11:g.49472723G>C, respectively, in the 5′ flanking region of ALDH18A1 and MAT2A genes changed the transcription factor binding sites (TFBSs), which might regulate the expression of corresponding genes to affect the phenotypes of milk production traits. Therefore, these two SNPs were considered as potential functional mutations, but they also require further verification. In summary, ALDH18A1 and MAT2A were proved to probably have genetic effects on milk production traits, and their valuable SNPs might be used as candidate genetic markers for dairy cattle’s genomic selection (GS).

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High resolution melt curve analysis identifies a novel SNP (G21A) in butyrophilin gene having significant association with milk production traits in Holstein Friesian crossbreds of Kerala

Cited by 5 publications

References 15 publications

Polymorphism of ADAM12, DPP6 and PRKN genes and their associations with milk production traits in Holstein

Polymorphism of ADAM12, DPP6 and PRKN genes and their associations with milk production traits in Holstein

Programmable DNA barcode-encoded exponential amplification reaction for the multiplex detection of miRNAs

Single Nucleotide Polymorphisms of ALDH18A1 and MAT2A Genes and Their Genetic Associations with Milk Production Traits of Chinese Holstein Cows

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