Biopolym. Cell. 2019; 35(5):333-339.
Molecular Biomedicine
Set of STR-markers for 6p21.31 chromosomal region linkage analysis and CNV study
1Hryshchenko N. V., 2Kirichenkova O. P., 1Gordiyk V. V., 1Kravchenko S. A., 1, 3Kashuba V. I.
- Institute of Molecular Biology and Genetics, NAS of Ukraine
150, Akademika Zabolotnoho Str., Kyiv, Ukraine, 03143 - Educational and Scientific Center "Institute of Biology and Medicine",
Taras Shevchenko National University of Kyiv
64/13, Volodymyrska Str., Kyiv, Ukraine, 01601 - Karolinska Institutet
Stockholm SE-171 77, Sweden
Abstract
Aim. To create a panel of informative STR-markers in HLA locus for the analysis of genomic rearrangements in different types of malignant tumors as well as for the selection of the HLA matched sibling for allogeneic transplantation. Methods. The preliminary screening of six presumed STR-markers located in the proximal, central and distal parts of the HLA chromosome region (6p21.31) was performed by agarose gel electrophoresis of the PCR-fragments. The accurate genotyping of the most promising STR-markers was carried out by electrophoretic separation of the PCR-fragments in a polyacrylamide gel on an automatic laser analyzer. Results. Based on the obtained results we have selected three STRs with the highest heterozygosity indexes (HI): D6S2678 – HLA class I (HI=91.4 %), DQIV – class II (HI=62.8 %) and D6S2925 – class III (HI=74.3 %) as potential markers for linkage and CNV study. Conclusion. We have demonstrated that the selected panel of markers allows us to effectively solve both tasks: detection of somatic rearrangements in different parts of HLA locus in tumor samples and HLA-haplotype determination to select a suitable related donor for transplantation.
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