Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report
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 e...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2019-11-01
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| Series: | Virology Journal |
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| Online Access: | http://link.springer.com/article/10.1186/s12985-019-1242-5 |
| _version_ | 1811293333871394816 |
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| author | Hany K. Soliman Mohamed Abouelhoda Mahmoud N. El Rouby Ola S. Ahmed G. Esmat Zeinab K. Hassan Mohammed M. Hafez Dina Ahmed Mehaney Manojkumar Selvaraju Rania Kamal Darwish Yehia A. Osman Abdel-Rahman N. Zekri |
| author_facet | Hany K. Soliman Mohamed Abouelhoda Mahmoud N. El Rouby Ola S. Ahmed G. Esmat Zeinab K. Hassan Mohammed M. Hafez Dina Ahmed Mehaney Manojkumar Selvaraju Rania Kamal Darwish Yehia A. Osman Abdel-Rahman N. Zekri |
| author_sort | Hany K. Soliman |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-04-13T04:59:50Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 1743-422X |
| language | English |
| last_indexed | 2024-04-13T04:59:50Z |
| publishDate | 2019-11-01 |
| publisher | BMC |
| record_format | Article |
| series | Virology Journal |
| spelling | doaj.art-3ad79f9de19d446e9e317319fb6961d62022-12-22T03:01:23ZengBMCVirology Journal1743-422X2019-11-011611710.1186/s12985-019-1242-5Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case reportHany K. Soliman0Mohamed Abouelhoda1Mahmoud N. El Rouby2Ola S. Ahmed3G. Esmat4Zeinab K. Hassan5Mohammed M. Hafez6Dina Ahmed Mehaney7Manojkumar Selvaraju8Rania Kamal Darwish9Yehia A. Osman10Abdel-Rahman N. Zekri11Cancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversitySystems and Biomedical Engineering Department, Faculty of Engineering, Cairo UniversityCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversityCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversityEndemic Medicine and Hepatology Department, Faculty of Medicine, Cairo UniversityCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversityCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversityClinical and chemical pathology Department, Faculty of Medicine, Cairo UniversityIntegrated gulf biosciences (IGB)Clinical and chemical pathology Department, Faculty of Medicine, Cairo UniversityBotany Department, Faculty of Science, Mansoura UniversityCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo UniversityAbstract 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.http://link.springer.com/article/10.1186/s12985-019-1242-5Human pegivirusHCVDeep NGSEgyptian patient |
| spellingShingle | Hany K. Soliman Mohamed Abouelhoda Mahmoud N. El Rouby Ola S. Ahmed G. Esmat Zeinab K. Hassan Mohammed M. Hafez Dina Ahmed Mehaney Manojkumar Selvaraju Rania Kamal Darwish Yehia A. Osman Abdel-Rahman N. Zekri Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report Virology Journal Human pegivirus HCV Deep NGS Egyptian patient |
| title | Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report |
| title_full | Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report |
| title_fullStr | Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report |
| title_full_unstemmed | Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report |
| title_short | Whole-genome sequencing of human Pegivirus variant from an Egyptian patient co-infected with hepatitis C virus: a case report |
| title_sort | whole genome sequencing of human pegivirus variant from an egyptian patient co infected with hepatitis c virus a case report |
| topic | Human pegivirus HCV Deep NGS Egyptian patient |
| url | http://link.springer.com/article/10.1186/s12985-019-1242-5 |
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