A Complex of Pyrosequencing-Based Methods for Detection of Somatic Mutations in Codons 600 and 601 of the BRAF gene

is to develop methods for the differentiation of mutations in the codon 600 and to increase the sensitivity of the K601E mutation detection. The nucleotide sequence of the codons 592-602 was identified using the PyroMark Q24 genetic analysis system. The mutations search in codon 600 was conducted us...

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Published in:	Sovremennye tekhnologii v medit͡s︡ine Vol. 14; no. 2; pp. 41 - 49
Main Authors:	Dribnokhodova, O P, Esman, A S, Korchagin, V I, Bukharina, A Yu, Dunaeva, E A, Leshkina, G V, Borisova, E V, Voiciehovskaya, Ya A, Daoud, A I, Khlyavich, V N, Mironov, K O
Format:	Journal Article
Language:	English
Published:	Russia (Federation) Privolzhsky Research Medical University 2022
Subjects:	Biotechnologies Codon - genetics High-Throughput Nucleotide Sequencing Humans Mutation - genetics Proto-Oncogene Proteins B-raf - genetics Thyroid Nodule - genetics fine-needle aspiration biopsy pyrosequencing oncogenetics BRAF thyroid cancer
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Summary:	is to develop methods for the differentiation of mutations in the codon 600 and to increase the sensitivity of the K601E mutation detection. The nucleotide sequence of the codons 592-602 was identified using the PyroMark Q24 genetic analysis system. The mutations search in codon 600 was conducted using the 600-S primer in line with the following order of adding nucleotides: GCTGTCАTCTGCTAGCTAGAC (corresponding to nucleotides 1799-1786). The K601E mutation was detected using the 601-S primer in line with the following order of nucleotide addition: GCTACTCACTGTAG (corresponding to nucleotides 1801-1793). The analytical characteristics of the proposed methods for somatic mutations' detection were determined using dilutions of plasmid DNA samples containing the gene region without mutations or with one of the following mutations: V600E, V600R, V600K, V600M, and K601E. Validation was performed on 132 samples of biological material obtained from the thyroid nodules. The developed methods allow to determine 2% of the V600E or V600M mutations, 1% of the V600K and V600R mutations, and 3% of the K601E mutations in samples with high DNA concentration; it is also possible to confidently detect at least 5% of the mutant allele for all mutations in low concentration samples (less than 500 copies/PCR). During biological material testing, 53 samples with the V600E mutation were detected; the proportion of the mutant allele was 4.9-50.0%. A complex of methods for determination of the nucleotide sequence of the codons 592-601 and the algorithm for testing samples and analyzing mutations in the codons 600-601 was developed. The method provides sufficient sensitivity to detect frequent mutations in codons 600 and 601 and allows them to be precisely differentiated.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Conflicts of interest. The authors declare that they have no conflicts of interest. Acknowledgement. The authors express their gratitude to K.K. Noskova, Head of the Clinical Diagnostic Laboratory of the Moscow Clinical Scientific Center named after A.S. Loginov, for assistance with obtaining biological materials. How to cite: Dribnokhodova O.P., Esman A.S., Korchagin V.I., Bukharina A.Yu., Dunaeva E.A., Leshkina G.V., Borisova E.V., Voiciehovskaya Ya.A., Daoud A.I., Khlyavich V.N., Mironov K.O. A complex of pyrosequencing-based methods for detection of somatic mutations in codons 600 and 601 of the braf gene. Sovremennye tehnologii v medicine 2022; 14(2): 41, https://doi.org/10.17691/stm2022.14.2.04
ISSN:	2076-4243 2309-995X
DOI:	10.17691/stm2022.14.2.04