Hepatitis C Virus in people with experience of injection drug use following their displacement to Southern Ukraine before 2020.
Displacement
Hepatitis C virus
Nanopore sequencing
People who inject drugs
Phylodynamics
Journal
BMC infectious diseases
ISSN: 1471-2334
Titre abrégé: BMC Infect Dis
Pays: England
ID NLM: 100968551
Informations de publication
Date de publication:
03 Jul 2023
03 Jul 2023
Historique:
received:
11
01
2023
accepted:
24
06
2023
medline:
5
7
2023
pubmed:
4
7
2023
entrez:
3
7
2023
Statut:
epublish
Résumé
Due to practical challenges associated with genetic sequencing in low-resource environments, the burden of hepatitis C virus (HCV) in forcibly displaced people is understudied. We examined the use of field applicable HCV sequencing methods and phylogenetic analysis to determine HCV transmission dynamics in internally displaced people who inject drugs (IDPWID) in Ukraine. In this cross-sectional study, we used modified respondent-driven sampling to recruit IDPWID who were displaced to Odesa, Ukraine, before 2020. We generated partial and near full length genome (NFLG) HCV sequences using Oxford Nanopore Technology (ONT) MinION in a simulated field environment. Maximum likelihood and Bayesian methods were used to establish phylodynamic relationships. Between June and September 2020, we collected epidemiological data and whole blood samples from 164 IDPWID (PNAS Nexus.2023;2(3):pgad008). Rapid testing (Wondfo® One Step HCV; Wondfo® One Step HIV1/2) identified an anti-HCV seroprevalence of 67.7%, and 31.1% of participants tested positive for both anti-HCV and HIV. We generated 57 partial or NFLG HCV sequences and identified eight transmission clusters, of which at least two originated within a year and a half post-displacement. Locally generated genomic data and phylogenetic analysis in rapidly changing low-resource environments, such as those faced by forcibly displaced people, can help inform effective public health strategies. For example, evidence of HCV transmission clusters originating soon after displacement highlights the importance of implementing urgent preventive interventions in ongoing situations of forced displacement.
Sections du résumé
BACKGROUND
BACKGROUND
Due to practical challenges associated with genetic sequencing in low-resource environments, the burden of hepatitis C virus (HCV) in forcibly displaced people is understudied. We examined the use of field applicable HCV sequencing methods and phylogenetic analysis to determine HCV transmission dynamics in internally displaced people who inject drugs (IDPWID) in Ukraine.
METHODS
METHODS
In this cross-sectional study, we used modified respondent-driven sampling to recruit IDPWID who were displaced to Odesa, Ukraine, before 2020. We generated partial and near full length genome (NFLG) HCV sequences using Oxford Nanopore Technology (ONT) MinION in a simulated field environment. Maximum likelihood and Bayesian methods were used to establish phylodynamic relationships.
RESULTS
RESULTS
Between June and September 2020, we collected epidemiological data and whole blood samples from 164 IDPWID (PNAS Nexus.2023;2(3):pgad008). Rapid testing (Wondfo® One Step HCV; Wondfo® One Step HIV1/2) identified an anti-HCV seroprevalence of 67.7%, and 31.1% of participants tested positive for both anti-HCV and HIV. We generated 57 partial or NFLG HCV sequences and identified eight transmission clusters, of which at least two originated within a year and a half post-displacement.
CONCLUSIONS
CONCLUSIONS
Locally generated genomic data and phylogenetic analysis in rapidly changing low-resource environments, such as those faced by forcibly displaced people, can help inform effective public health strategies. For example, evidence of HCV transmission clusters originating soon after displacement highlights the importance of implementing urgent preventive interventions in ongoing situations of forced displacement.
Identifiants
pubmed: 37400776
doi: 10.1186/s12879-023-08423-5
pii: 10.1186/s12879-023-08423-5
pmc: PMC10316605
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
446Informations de copyright
© 2023. The Author(s).
Références
Lancet Gastroenterol Hepatol. 2022 May;7(5):396-415
pubmed: 35180382
BMC Genomics. 2021 Mar 2;22(1):148
pubmed: 33653280
Lancet Gastroenterol Hepatol. 2017 Mar;2(3):161-176
pubmed: 28404132
Lancet. 2022 Apr 16;399(10334):1450-1452
pubmed: 35367006
Bioinformatics. 2014 Nov 15;30(22):3276-8
pubmed: 25095880
Liver Int. 2021 Jun;41 Suppl 1:50-55
pubmed: 34155800
Nature. 2016 Feb 11;530(7589):228-232
pubmed: 26840485
HIV Med. 2022 Jan;23(1):48-59
pubmed: 34468073
Health Promot Perspect. 2020 Jan 28;10(1):24-37
pubmed: 32104654
Sci Rep. 2022 Sep 21;12(1):15749
pubmed: 36131001
J Med Virol. 2013 Jul;85(7):1170-9
pubmed: 23918535
Virus Evol. 2018 Jun 08;4(1):vey016
pubmed: 29942656
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
BMC Bioinformatics. 2013 Nov 06;14:317
pubmed: 24191891
Can J Gastroenterol Hepatol. 2020 Jul 15;2020:9701920
pubmed: 32733822
PLoS One. 2016 Jul 13;11(7):e0159134
pubmed: 27411086
Int J Drug Policy. 2015 Nov;26(11):1081-7
pubmed: 26342273
AIDS. 2016 Nov 28;30(18):2885-2890
pubmed: 27824626
J Int AIDS Soc. 2022 Nov;25(11):e26031
pubmed: 36352546
J Viral Hepat. 2020 Jul;27(7):721-730
pubmed: 32115809
Wellcome Open Res. 2020 Jan 7;5:3
pubmed: 32090172
Int J Infect Dis. 2021 Dec;113:36-42
pubmed: 34560266
Medicine (Baltimore). 2019 Jul;98(28):e16242
pubmed: 31305402
J Public Health (Oxf). 2020 Aug 18;42(3):e287-e298
pubmed: 31822891
Int J Drug Policy. 2017 Sep;47:187-195
pubmed: 28811159
Virus Evol. 2016 Apr 09;2(1):vew007
pubmed: 27774300
BMC Evol Biol. 2011 May 19;11:131
pubmed: 21595904
Lancet Infect Dis. 2020 Nov;20(11):1263-1272
pubmed: 32679081
BMC Infect Dis. 2020 Nov 10;20(1):815
pubmed: 33167892
PNAS Nexus. 2023 Jan 20;2(3):pgad008
pubmed: 36896134
J Gen Virol. 2014 Aug;95(Pt 8):1677-1688
pubmed: 24795446