Using small RNA deep sequencing data to detect human viruses
Small RNA sequencing (sRNA-seq) can be used to detect viruses in infected hosts without the necessity to have any prior knowledge or specialized sample preparation. The sRNA-seq method was initially used for viral detection and identification in plants and then in invertebrates and fungi. However, i...
| Autores principales: | , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Hindawi Limited
2016
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/72823 |
| _version_ | 1855542588620144640 |
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| author | Wang, F. Sun, Y. Ruan, J. Chen, R. Chen, X. Kreuze, Jan F. Fei, Z.J. Zhu, X. Gao, S. |
| author_browse | Chen, R. Chen, X. Fei, Z.J. Gao, S. Kreuze, Jan F. Ruan, J. Sun, Y. Wang, F. Zhu, X. |
| author_facet | Wang, F. Sun, Y. Ruan, J. Chen, R. Chen, X. Kreuze, Jan F. Fei, Z.J. Zhu, X. Gao, S. |
| author_sort | Wang, F. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Small RNA sequencing (sRNA-seq) can be used to detect viruses in infected hosts without the necessity to have any prior knowledge or specialized sample preparation. The sRNA-seq method was initially used for viral detection and identification in plants and then in invertebrates and fungi. However, it is still controversial to use sRNA-seq in the detection of mammalian or human viruses. In this study, we used 931 sRNA-seq runs of data from the NCBI SRA database to detect and identify viruses in human cells or tissues, particularly from some clinical samples. Six viruses including HPV-18, HBV, HCV, HIV-1, SMRV, and EBV were detected from 36 runs of data. Four viruses were consistent with the annotations from the previous studies. HIV-1 was found in clinical samples without the HIV-positive reports, and SMRV was found in Diffuse Large B-Cell Lymphoma cells for the first time. In conclusion, these results suggest the sRNA-seq can be used to detect viruses in mammals and humans. |
| format | Journal Article |
| id | CGSpace72823 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2016 |
| publishDateRange | 2016 |
| publishDateSort | 2016 |
| publisher | Hindawi Limited |
| publisherStr | Hindawi Limited |
| record_format | dspace |
| spelling | CGSpace728232025-11-06T14:07:45Z Using small RNA deep sequencing data to detect human viruses Wang, F. Sun, Y. Ruan, J. Chen, R. Chen, X. Kreuze, Jan F. Fei, Z.J. Zhu, X. Gao, S. diagnostic techniques Small RNA sequencing (sRNA-seq) can be used to detect viruses in infected hosts without the necessity to have any prior knowledge or specialized sample preparation. The sRNA-seq method was initially used for viral detection and identification in plants and then in invertebrates and fungi. However, it is still controversial to use sRNA-seq in the detection of mammalian or human viruses. In this study, we used 931 sRNA-seq runs of data from the NCBI SRA database to detect and identify viruses in human cells or tissues, particularly from some clinical samples. Six viruses including HPV-18, HBV, HCV, HIV-1, SMRV, and EBV were detected from 36 runs of data. Four viruses were consistent with the annotations from the previous studies. HIV-1 was found in clinical samples without the HIV-positive reports, and SMRV was found in Diffuse Large B-Cell Lymphoma cells for the first time. In conclusion, these results suggest the sRNA-seq can be used to detect viruses in mammals and humans. 2016 2016-04-07T16:03:07Z 2016-04-07T16:03:07Z Journal Article https://hdl.handle.net/10568/72823 en Open Access application/pdf Hindawi Limited Wang, F.; Sun, Y.; Ruan, J.; Chen, R.; Chen, X.; Kreuze, J.F.; Fei, Z.J.; Zhu, X.; Gao, S. 2016. Using small RNA deep sequencing data to detect human viruses. BioMed Research International. (USA). ISSN 2314-6133. 2016(ID 2596782):9 p. |
| spellingShingle | diagnostic techniques Wang, F. Sun, Y. Ruan, J. Chen, R. Chen, X. Kreuze, Jan F. Fei, Z.J. Zhu, X. Gao, S. Using small RNA deep sequencing data to detect human viruses |
| title | Using small RNA deep sequencing data to detect human viruses |
| title_full | Using small RNA deep sequencing data to detect human viruses |
| title_fullStr | Using small RNA deep sequencing data to detect human viruses |
| title_full_unstemmed | Using small RNA deep sequencing data to detect human viruses |
| title_short | Using small RNA deep sequencing data to detect human viruses |
| title_sort | using small rna deep sequencing data to detect human viruses |
| topic | diagnostic techniques |
| url | https://hdl.handle.net/10568/72823 |
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