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HIV-1 unique recombinant forms identified in Slovenia and their characterization by near full-length genome sequencing
ID
Lunar, Maja M.
(
Author
),
ID
Mlakar, Jana
(
Author
),
ID
Zorec, Tomaž Mark
(
Author
),
ID
Poljak, Mario
(
Author
)
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https://www.mdpi.com/1999-4915/12/1/63
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Abstract
Surveillance of HIV circulating recombinant forms (CRFs) is important because HIV diversity can affect various aspects of HIV infection from prevention to diagnosis and patient management. A comprehensive collection of pol sequences obtained from individuals diagnosed with HIV-1 from 2000 to 2016 in Slovenia was subtyped to identify possible unique recombinant forms (URFs). Selected samples were subjected to near full-length genome (NFLG) sequencing and detailed recombination analyses. Discordant subtyping results were observed for 68/387 (17.6%) sequences and 20 sequences were identified as the most probable URFs and selected for NFLG characterization. Further, 11 NFLGs and two sequences of >7000 base pairs were obtained. Seven sequences were identified as "pure" subtypes or already characterized CRFs: subtype B (n = 5), sub-subtype A6 (n = 1), and CRF01_AE (n = 1). The remaining six sequences were determined to be URFs; four displayed a single recombination event and two exhibited a complex recombination pattern involving several subtypes or CRFs. Finally, three HIV strains were recognized as having epidemic potential and could be further characterized as new CRFs. Our study shows that the identification of new CRFs is possible, even in countries where HIV diversity is considered limited, emphasizing the importance of the surveillance of HIV recombinant forms.
Language:
English
Keywords:
molecular epidemiology
,
HIV-1
,
subtype
,
unique recombinant form
,
near full-length genome
,
next-generation sequencing
,
surveillance
Work type:
Article
Typology:
1.01 - Original Scientific Article
Organization:
MF - Faculty of Medicine
Publication status:
Published
Publication version:
Version of Record
Year:
2020
Number of pages:
22 str.
Numbering:
Vol. 12, iss. 1, art. 63
PID:
20.500.12556/RUL-133285
UDC:
616.9
ISSN on article:
1999-4915
DOI:
10.3390/v12010063
COBISS.SI-ID:
34697433
Publication date in RUL:
19.11.2021
Views:
1423
Downloads:
152
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Record is a part of a journal
Title:
Viruses
Shortened title:
Viruses
Publisher:
MDPI
ISSN:
1999-4915
COBISS.SI-ID:
517597977
Licences
License:
CC BY 4.0, Creative Commons Attribution 4.0 International
Link:
http://creativecommons.org/licenses/by/4.0/
Description:
This is the standard Creative Commons license that gives others maximum freedom to do what they want with the work as long as they credit the author.
Licensing start date:
03.01.2020
Secondary language
Language:
Slovenian
Keywords:
molekularna epidemiologija
,
HIV-1
,
podtip
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