Next-Generation Sequencing of 5′ Untranslated Region of Hepatitis C Virus in Search of Minor Viral Variant in a Patient Who Revealed New Genotype While on Antiviral Treatment

2015 ◽  
pp. 11-23 ◽  
Author(s):  
Kamila Caraballo Cortes ◽  
Iwona Bukowska-Ośko ◽  
Agnieszka Pawełczyk ◽  
Karol Perlejewski ◽  
Rafał Płoski ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Untranslated Region ◽  
Antiviral Treatment ◽  
Next Generation ◽  
Viral Variant ◽  
New Genotype ◽  
Generation Sequencing

scholarly journals Spouse-to-Spouse Transmission and Evolution of Hypervariable Region 1 and 5’ Untranslated Region of Hepatitis C Virus Analyzed by Next-Generation Sequencing

PLoS ONE ◽  
2016 ◽  
Vol 11 (2) ◽  
pp. e0150311 ◽  
Author(s):  
Kamila Caraballo Cortes ◽  
Osvaldo Zagordi ◽  
Joanna Jabłońska ◽  
Agnieszka Pawełczyk ◽  
Natalia Kubisa ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Untranslated Region ◽  
Hypervariable Region ◽  
Next Generation ◽  
Hypervariable Region 1 ◽  
Generation Sequencing

scholarly journals Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report

2019 ◽  
Vol 16 (1) ◽  
Author(s):  
Hany K. Soliman ◽  
Mohamed Abouelhoda ◽  
Mahmoud N. El Rouby ◽  
Ola S. Ahmed ◽  
G. Esmat ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Antiviral Treatment ◽  
Hcv Rna ◽  
Next Generation ◽  
New Variant ◽  
Next Generation Sequencing Ngs ◽  
Egyptian Patient ◽  
Generation Sequencing

Abstract Background Human pegivirus (HPgV) is structurally similar to hepatitis C virus (HCV) and was discovered 20 years ago. Its distribution, natural history and exact rule of this viral group in human hosts remain unclear. Our aim was to determine, by deep next-generation sequencing (NGS), the entire genome sequence of HPgV that was discovered in an Egyptian patient while analyzing HCV sequence from the same patient. We also inspected whether the co-infection of HCV and HPgV will affect the patient response to HCV viral treatment. To the best of our knowledge, this is the first report for a newly isolated HPgV in an Egyptian patient who is co-infected with HCV. Case presentation The deep Next Generation Sequencing (NGS) technique was used to detect HCV sequence in hepatitis C patient’s plasma. The results revealed the presence of HPgV with HCV. This co-infection was confirmed using conventional PCR of the HPgV 5′ untranslated region. The patient was then subjected to direct-acting-antiviral treatment (DAA). At the end of the treatment, the patient showed a good response to the HCV treatment (i.e., no HCV-RNA was detected in the plasma), while the HPgV-RNA was still detected. Sequence alignment and phylogenetic analyses demonstrated that the detected HPgV was a novel isolate and was not previously published. Conclusion We report a new variant of HPgV in a patient suffering from hepatitis C viral infection.

Genetic diversity of Hepatitis C Virus in Pakistan using Next Generation Sequencing

2018 ◽  
Vol 108 ◽  
pp. 26-31 ◽  
Author(s):  
Sana Saleem ◽  
Amjad Ali ◽  
Bushra Khubaib ◽  
Madiha Akram ◽  
Zareen Fatima ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing

Next-generation sequencing for the clinical management of hepatitis C virus infections: does one test fits all purposes?

2019 ◽  
Vol 56 (6) ◽  
pp. 420-434 ◽  
Author(s):  
Lize Cuypers ◽  
Marijn Thijssen ◽  
Arash Shakibzadeh ◽  
Farzaneh Sabahi ◽  
Mehrdad Ravanshad ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Clinical Management ◽  
Next Generation ◽  
Virus Infections ◽  
Generation Sequencing

scholarly journals Next-Generation Sequencing Reveals Frequent Opportunities for Exposure to Hepatitis C Virus in Ghana

PLoS ONE ◽  
2015 ◽  
Vol 10 (12) ◽  
pp. e0145530 ◽  
Author(s):  
Joseph C. Forbi ◽  
Jennifer E. Layden ◽  
Richard O. Phillips ◽  
Nallely Mora ◽  
Guo-liang Xia ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals A Phylogenetic Analysis of Hepatitis C Virus Transmission, Relapse, and Reinfection Among People Who Inject Drugs Receiving Opioid Agonist Therapy

2020 ◽  
Vol 222 (3) ◽  
pp. 488-498 ◽  
Author(s):  
Matthew J Akiyama ◽  
Daniel Lipsey ◽  
Lilia Ganova-Raeva ◽  
Lili T Punkova ◽  
Linda Agyemang ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
People Who Inject Drugs ◽  
Next Generation ◽  
Agonist Therapy ◽  
Opioid Agonist ◽  
Opioid Agonist Therapy ◽  
Generation Sequencing

Abstract Background Understanding hepatitis C virus (HCV) transmission among people who inject drugs (PWID) is essential for HCV elimination. We aimed to differentiate reinfections from treatment failures and to identify transmission linkages and associated factors in a cohort of PWID receiving opioid agonist therapy (OAT). Methods We analyzed baseline and follow-up specimens from 150 PWID from 3 OAT clinics in the Bronx, New York. Next-generation sequencing data from the hypervariable region 1 of HCV were analyzed using Global Hepatitis Outbreak and Surveillance Technology. Results There were 3 transmission linkages between study participants. Sustained virologic response (SVR) was not achieved in 9 participants: 7 had follow-up specimens with similar sequences to baseline, and 2 died. In 4 additional participants, SVR was achieved but the participants were viremic at later follow-up: 2 were reinfected with different strains, 1 had a late treatment failure, and 1 was transiently viremic 17 months after treatment. All transmission linkages were from the same OAT clinic and involved spousal or common-law partnerships. Conclusion This study highlights the use of next-generation sequencing as an important tool for identifying viral transmission and to help distinguish relapse and reinfection among PWID. Results reinforce the need for harm reduction interventions among couples and those who report ongoing risk factors after SVR.

scholarly journals First identification of a recombinant form of hepatitis C virus in Austrian patients by full-genome next generation sequencing

PLoS ONE ◽  
2017 ◽  
Vol 12 (7) ◽  
pp. e0181273 ◽  
Author(s):  
Evelyn Stelzl ◽  
Bernhard Haas ◽  
Bernd Bauer ◽  
Sherry Zhang ◽  
Ellen H. Fiss ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Recombinant Form ◽  
Full Genome ◽  
Next Generation ◽  
Generation Sequencing
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