Database «Nucleotide sequences of the genome of HIV-1 isolates in the Privolzhsky federal district»
Objective. Optimization of epidemiological surveillance of the spread of drug-resistant HIV strains in the Privolzhsky Federal District (PFD) by introducing modern technologies for collecting, storing, processing, uploading and analyzing data obtained during studies of HIV resistance to antiretroviral drugs (ARVDs).Peksheva O.Yu., Zaytseva N.N., Parfenova O.V., Lyamshaeva S.I., Epifanov V.Yu.
Materials and methods. Nucleotide sequences of the HIV-1 genome were obtained by sequencing fragments of the pol (pro, rev, int) gene of samples from infected patients from the PFD. Molecular genetic, epidemiological and clinical laboratory data were combined and integrated using the functionality of pivot tables and the built-in VBA language of Microsoft Excel into a single digital format.
Results. A database (DB) «Nucleotide sequences of the genome of HIV-1 isolates in the Privolzhsky Federal District» containing information on 1201 samples of HIV-infected patients tested for drug resistance (DR) of HIV from 2016 to 2023 was created. The DB allows analyzing the prevalence of resistance mutations, HIV subtypes, DR to ARVDs, obtaining a sample of patients matched by age, gender, stage of HIV infection, drugs and treatment regimens, adherence, clinical and laboratory parameters. Data is unloaded in Excel, PNG, JPEG, PDF formats, and nucleotide sequences - in FASTA format.
Conclusion. The presented DB optimizes the molecular epidemiological monitoring of HIV DR and the investigation of HIV infection cases, including with the help of phylogenetic analysis in the implementation of epidemiological surveillance of HIV infection in the Privolzhsky Federal District.
Keywords
database
molecular genetic monitoring
nucleotide sequence
drug resistance
Privolzhsky Federal District
phylogenetic analysis
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About the Authors
Olga Yu. Peksheva, Clinical Laboratory Diagnostics Physician, Head of the Laboratory, Privolzhsky District Center for AIDS Prevention and Control, Academician I.N. Blokhina Nizhny Novgorod Research Institute of Epidemiology and Microbiology, Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Nizhny Novgorod, Russia; peolinn@mail.ru; https://orcid.org/0000-0003-1621-4962Natalya N. Zaitseva, МD, Director, Academician I.N. Blokhina Nizhny Novgorod Research Institute of Epidemiology and Microbiology, Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Nizhny Novgorod, Russia; zaytseva@nniiem.ru; https://orcid.org/0000-0001-5370-4026
Olga V. Parfenova, Cand. Biol. Sci., Biologist, Privolzhsky District Center for AIDS Prevention and Control, Academician I.N. Blokhina Nizhny Novgorod Research Institute of Epidemiology and Microbiology, Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Nizhny Novgorod, Russia; olgaparfenova1960@mail.ru
Svetlana I. Lyamshaeva, Clinical Laboratory Diagnostics Physician, Privolzhsky District Center for AIDS Prevention and Control, Academician I.N. Blokhina Nizhny Novgorod Research Institute of Epidemiology and Microbiology, Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Nizhny Novgorod, Russia; liamchaeva@yandex.ru
Vladimir Yu. Epifanov, Expert, Enterprise Management Competence Center, Division of Implementation and Consulting, Innotech Group of Companies, Moscow, Russia; v.y.epifanov@yandex.ru
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