Development of TaqMan PCR assay for genotyping SNP rs211250281 of the bovine
            <i>agpat6</i>
            gene

Kovalchuk, Svetlana N.

doi:10.1080/10495398.2022.2077742

Cited by 2 publications

(2 citation statements)

References 43 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…ПЦР-методы включают ПЦР с использованием аллель-специфичных праймеров (как с детекцией по конечной точке -KASP, так и в режиме реального времени -rhAmp), гибридизационных зондов (технология TaqMan и другие), а также ферментов рестрикции (ПЦР-ПДРФ). Для использования отдельных методов требуется соответствующее оборудование (например, амплификатор с детекцией в реальном времени для технологии TaqMan [4]). Перечисленные технологии имеют примерно одинаковую производительность, которая ограничена количеством каналов детекции в амплификаторе, а также стоимость.…”

Section: биология и биотехнологииunclassified

Cattle genotyping methods for post-GWAS annotation of SNPs

Bytov¹,

Sokolova²,

Bezborodova³

et al. 2023

Agrarian Bulletin of The

View full text Add to dashboard Cite

Abstract. Genome-wide association analysis is one of the key tools for elucidating the genetic etiology of various phenotypes, including diseases and the degree of predisposition to them. Subsequently, for statistically significant genetic markers, it is necessary to conduct validation studies on independent cohorts. These post-GWAS validation studies test genetic markers that are strongly associated with the phenotype, regardless of sample size, allowing to identify false-positive results from the initial association analysis. When choosing a genotyping technique for post-GWAS validation studies, consideration should be given to the sample size and the number of genetic markers planned to be studied, since genotyping techniques differ in throughput und cost. The aim of this paper is to describe modern methods of genotyping depending on their performance and to carry out genotyping of cattle for the SNPs rs137396952 and rs134055603, for which a high degree of association with the development of ketosis was shown in previous GWAS studies. Utilized genotyping methods include TaqMan and High-Resolution Melt Analysis; genotype analysis was performed using the SNPStats web tool. When comparing the results of genotyping using these technologies, the specifity of allelic discrimination carried out using these methods was demonstrated. Testing of the genotyping results had shown that rs134055603 does not obey the Hardy-Weinberg equilibrium in the studied cohort of animals. Scientific novelty. Obtained genotyping results will be used in further association tests with physiologically valuable parameters of dairy cattle, including resistance to diseases.

show abstract

Section: биология и биотехнологииunclassified

Cattle genotyping methods for post-GWAS annotation of SNPs

Bytov¹,

Sokolova²,

Bezborodova³

et al. 2023

Agrarian Bulletin of The

View full text Add to dashboard Cite

show abstract

“…The TaqMan probe technique has the advantages of low equipment cost, simple operation, and short processing time. Moreover, it provides high specificity by precisely targeting the DNA sequence of interest [23,24]. The TaqMan-ARMS-PCR technology is based on a real-time fluorescence quantitative PCR platform, utilizing ARMS primers for specific PCR amplification of the mutation target sequence and TaqMan probes for specific site detection of the amplified products, thereby genotyping the gene.…”

Section: Introductionmentioning

confidence: 99%

Application of the TaqMan ARMS-PCR Approach for Genotyping Drug-Induced Hearing Loss Using Dried Blood Samples

Tan,

Zhang,

Wei

et al. 2024

CIMB

View full text Add to dashboard Cite

A single nucleotide variant in mitochondrial DNA (mtDNA) 1555A>G is associated with drug-induced hearing loss. For the 1555A>G mutation site, 1555A wild-type and 1555G mutant-type plasmids were constructed, respectively. In this study, a PCR method based on the TaqMan amplification refractory mutation system was proposed to detect mtDNA 1555A>G. A common upstream primer, a common TaqMan probe, and two downstream allele-specific primers with mismatched bases were designed. One-step amplification and detection of the wild-type and mutant type at the 1555 site were realized for the deafness-related gene through two reactions. Based on this detection method, the minimum detection limit of the wild-type and mutant type detection systems for plasmids was 50 copies/μL. The minimum sensitivity for the detection of nucleic acids in real dried blood spot (DBS) samples was 0.1 ng/μL. In the normal DBS DNA sample, the detection limit of the mutation abundance reached 0.78%. The specificity of the detection method was 100%, and the coefficient of variation was less than 3.36%. This approach was validated using clinical DNA extracted from 113 DBS samples of newborns. Additionally, it showed 100% agreement with bi-directional Sanger sequencing. It can be used as an optional method for the clinical detection of deafness-related genes.

show abstract

Development of TaqMan PCR assay for genotyping SNP rs211250281 of the bovine agpat6 gene

Cited by 2 publications

References 43 publications

Cattle genotyping methods for post-GWAS annotation of SNPs

Cattle genotyping methods for post-GWAS annotation of SNPs

Application of the TaqMan ARMS-PCR Approach for Genotyping Drug-Induced Hearing Loss Using Dried Blood Samples

Contact Info

Product

Resources

About