Genetic Characterization of Hepatitis C Virus Among People Who Use Crack Cocaine: A Study Conducted on the Brazilian Amazon Coast
Abstract
1. Introduction
2. Materials and Methods
2.1. Origin of Data and Biological Samples
2.2. Viral RNA Detection
2.3. Genotyping and Resistance-Associated Substitution Analysis
2.4. Statistical Analysis
3. Results
3.1. Characteristics of PWUCC
3.2. Prevalence of HCV RNA and Viral Subtypes
3.3. Resistance-Associated Substitutions
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
| DAAs | Direct-acting antiviral |
| FSWs | Female sex workers |
| PWUIDs | People who use illicit drugs |
| HCV | Hepatitis C virus |
| PWUCC | People who use crack cocaine |
| RAS | Resistance-associated substitutions |
| RT-PCR | Real-time reverse transcription polymerase chain reaction |
| SOF | Sofosbuvir |
| SUS | Brazil’s Public Health System |
| SVR | Sustained virological response |
| UTR | 5′ untranslated region |
| VEL | Velpatasvir |
| VOX | Voxilaprevir |
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| Characteristics | N (%) |
|---|---|
| Total | 165 (100.0) |
| Sex | |
| Male | 116 (70.3) |
| Female | 49 (29.7) |
| Age (years) | |
| 18–29 | 102 (61.8) |
| 30–40 | 56 (33.9) |
| >40 | 7 (4.3) |
| Color/Race (self-declaration) | |
| White | 22 (13.3) |
| Brown (mixed race) | 113 (68.5) |
| Black | 30 (18.2) |
| Marital status | |
| Single | 134 (81.2) |
| Separated or widowed | 22 (13.3) |
| Married or co-habitating | 9 (5.5) |
| Education Level | |
| No formal education (including illiterates) | 10 (6.1) |
| Elementary school | 113 (68.4) |
| High school | 32 (19.4) |
| University | 10 (6.1) |
| Monthly income (minimum wage) † | |
| ≤1 ‡ | 119 (72.1) |
| 2–3 | 39 (23.6) |
| >3 | 7 (4.3) |
| Sexual orientation | |
| Heterosexual | 150 (90.9) |
| Homosexual | 9 (5.5) |
| Bisexual | 6 (3.6) |
| Housing status † | |
| Lives in his own house/with his parents | 71 (43.0) |
| Lives in a house or rented room | 63 (38.2) |
| Unstable housing (including homeless people) | 31 (18.8) |
| Access to public health service | |
| Yes | 14 (8.5) |
| No | 151 (91.5) |
| Marker | Positive/Total | Prevalence (95% CI) |
|---|---|---|
| HCV RNA | 22/165 | 13.3 (9.2–17.1) |
| Genotype 1 | 15/22 | 68.2 (63.4–73.4) |
| Subtype 1a | 6/22 | 27.3 (22.5–32.6) |
| Subtype 1b | 9/22 | 40.9 (35.7–45.7) |
| Genotype 3 | 7/22 | 31.8 (27.3–36.9) |
| Subtype 3a | 7/22 | 31.8 (27.3–36.9) |
| Sample | Subtype | Coverage (%) | RAS | Probable Resistance * |
|---|---|---|---|---|
| PWUCC01 | 1a | 96.2 | - | None |
| PWUCC02 | 1a | 96.2 | - | None |
| PWUCC03 | 1a | 96.7 | - | None |
| PWUCC04 | 1a | 98.4 | - | None |
| PWUCC05 | 1a | 99.6 | - | None |
| PWUCC06 | 1a | 96.7 | - | None |
| PWUCC07 | 1b | 36.2 | - | None |
| PWUCC08 | 1b | 26.1 | F/L37L | Daclatasvir |
| PWUCC09 | 1b | 35.5 | F/L37I | Daclatasvir |
| PWUCC10 | 1b | 60.5 | - | None |
| PWUCC11 | 1b | 68.8 | F/L37L, P58S | Daclatasvir and Ombitasvir |
| PWUCC12 PWUCC13 PWUCC14 PWUCC15 PWUCC16 PWUCC17 PWUCC18 PWUCC19 PWUCC20 PWUCC21 PWUCC22 | 1b 1b 1b 1b 3a 3a 3a 3a 3a 3a 3a | 88.6 86.3 88.6 88.6 67.4 99.1 52.7 71.7 99.8 71.0 99.8 | F/L37L+H/Q54H - - F/L37L - - - - - - - | Daclatasvir None None Daclatasvir None None None None None None None |
| Total frequency | 5/22 (22.7%) | |||
| Daclatasvir (F/L37L, F/L37I or F/L37L+H/Q54H) | 4/22 (18.1%) | |||
| Daclatasvir and Ombitasvir (F/L37L and P58S) | 1/22 (4.5%) | |||
| Sample | Subtype | Coverage (%) | RAS | Probable Resistance * |
|---|---|---|---|---|
| PWUCC01 | 1a | 94.89 | - | None |
| PWUCC02 | 1a | 96.56 | - | None |
| PWUCC03 | 1a | 93.41 | - | None |
| PWUCC04 | 1a | 95.48 | - | None |
| PWUCC05 | 1a | 95.28 | - | None |
| PWUCC06 | 1a | 95.87 | - | None |
| PWUCC07 | 1b | 93.62 | - | None |
| PWUCC08 | 1b | 94.01 | - | None |
| PWUCC09 | 1b | 93.04 | F/L159F, F/L159F+C/N316N, C/N316N | Dasabuvir and Sofosbuvir |
| PWUCC10 | 1b | 93.73 | - | None |
| PWUCC11 | 1b | 93.5 | C/N316N | Dasabuvir and Sofosbuvir |
| PWUCC12 PWUCC13 PWUCC14 PWUCC15 PWUCC16 PWUCC17 PWUCC18 PWUCC19 PWUCC20 PWUCC21 PWUCC22 | 1b 1b 1b 1b 3a 3a 3a 3a 3a 3a 3a | 92.82 94.59 93.62 93.84 95.46 96.22 94.71 96.07 94.48 94.94 95.01 | - - - - - - - A/T/V150V A/T/V150V - A/T/V150V | None None None None None None None Sofosbuvir Sofosbuvir None Sofosbuvir |
| Total frequency | 5/22 (22.7%) | |||
| Dasabuvir and sofosbuvir (F/L159F, F/L159F+C/N316N and/or C/N316N) | 2/22 (9.0%) | |||
| Sofosbuvir (A/T/V150V) | 3/22 (13.6%) | |||
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Heymbeeck, J.A.A.; do Nascimento, W.L.; Freitas, M.C.S.; de Sousa Rocha, L.; Costa, F.F.; de Queiroz, J.P.Q.; Simeone, D.; Martins, L.C.; Machado, L.F.A.; Fischer, B.; et al. Genetic Characterization of Hepatitis C Virus Among People Who Use Crack Cocaine: A Study Conducted on the Brazilian Amazon Coast. Pathogens 2025, 14, 1296. https://doi.org/10.3390/pathogens14121296
Heymbeeck JAA, do Nascimento WL, Freitas MCS, de Sousa Rocha L, Costa FF, de Queiroz JPQ, Simeone D, Martins LC, Machado LFA, Fischer B, et al. Genetic Characterization of Hepatitis C Virus Among People Who Use Crack Cocaine: A Study Conducted on the Brazilian Amazon Coast. Pathogens. 2025; 14(12):1296. https://doi.org/10.3390/pathogens14121296
Chicago/Turabian StyleHeymbeeck, João Alphonse A., Wilker Leite do Nascimento, Marina Cristina S. Freitas, Leticia de Sousa Rocha, Franciane Ferreira Costa, Jocilena Pamela Q. de Queiroz, Diego Simeone, Luísa Caricio Martins, Luiz Fernando A. Machado, Benedikt Fischer, and et al. 2025. "Genetic Characterization of Hepatitis C Virus Among People Who Use Crack Cocaine: A Study Conducted on the Brazilian Amazon Coast" Pathogens 14, no. 12: 1296. https://doi.org/10.3390/pathogens14121296
APA StyleHeymbeeck, J. A. A., do Nascimento, W. L., Freitas, M. C. S., de Sousa Rocha, L., Costa, F. F., de Queiroz, J. P. Q., Simeone, D., Martins, L. C., Machado, L. F. A., Fischer, B., Kupek, E., & Oliveira-Filho, A. B. (2025). Genetic Characterization of Hepatitis C Virus Among People Who Use Crack Cocaine: A Study Conducted on the Brazilian Amazon Coast. Pathogens, 14(12), 1296. https://doi.org/10.3390/pathogens14121296

