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Comparative analyses of the results of HLA genes typing by NGS method using different platforms

Authors :
I. E. Pavlova
E. V. Kuzmich
E. G. Khamaganova
D. V. Rudik
E. P. Kuzminova
A. R. Abdrakhimova
Source :
Медицинская иммунология, Vol 26, Iss 4, Pp 717-726 (2024)
Publication Year :
2024
Publisher :
St. Petersburg branch of the Russian Association of Allergologists and Clinical Immunologists, 2024.

Abstract

Next generation sequencing (NGS) allows high-resolution and allelic HLA-typing. The most common platform is MiSeq (Illumina, USA). Currently, the maintenance of this device is difficult, which has necessitated the search for analogues that are not inferior in capacity and quality of HLA-typing. The purpose of our study was a comparative analysis of the results of HLA-typing by NGS using the MiSeq (Illumina, USA) and FastaSeq 300 (Gene-Mind, China) platforms. The study included DNA samples of hematopoietic stem cell (HSC) donors: 12 samples were obtained and analyzed at the FSBI RosNIIGT FMBA of Russia and 24 samples at the National Medical Research Center for Hematology of the Ministry of Health of the Russian Federation. HLA typing of all samples was performed twice: using a MiSeq sequencer and a FastaSeq 300 sequencer. The results of HLA-typing of 12 samples from the FSBI RosNIIGT FMBA of Russia, obtained on two platforms, coincided. DRB1 allele of one sample was achieved as group P with MiSeq, but as group G with FastaSeq 300. The results of HLA-typing of 24 samples from the National Medical Research Center for Hematology of the Ministry of Health of the Russian Federation, obtained on two platforms, coincided. However, differences in the level of resolution of HLA-typing were observed for 10 samples. A higher level of resolution with using MiSeq was observed for genes: B – 2 cases; C, DRB3, DRB4 – 3 cases each. When using FastaSeq 300, a higher level of resolution was achieved a little more often and was established for the genes: DRB1 – 4, DQB1 – 7, DPA1 – 10 cases. Differences in the level of resolution of HLA-typing for some samples are not critical, since high-resolution typing results are currently used to select HSC donor-recipient pairs. Our study indicated the possibility of effectively using the FastaSeq 300 for HLA-typing.

Details

Language :
Russian
ISSN :
15630625 and 2313741X
Volume :
26
Issue :
4
Database :
Directory of Open Access Journals
Journal :
Медицинская иммунология
Publication Type :
Academic Journal
Accession number :
edsdoj.944ae1339ff24ebf8f82e7496e841837
Document Type :
article
Full Text :
https://doi.org/10.15789/1563-0625-CAO-16916