Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates.
Camels are known carriers for many viral pathogens, including Middle East respiratory syndrome coronavirus (MERS-CoV). It is likely that there are additional, as yet unidentified viruses in camels with the potential to cause disease in humans. In this study, we performed metagenomic sequencing analy...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2017-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC5597213?pdf=render |
| _version_ | 1818310784118161408 |
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| author | Yan Li Abdelmalik Ibrahim Khalafalla Clinton R Paden Mohammed F Yusof Yassir M Eltahir Zulaikha M Al Hammadi Ying Tao Krista Queen Farida Al Hosani Susan I Gerber Aron J Hall Salama Al Muhairi Suxiang Tong |
| author_facet | Yan Li Abdelmalik Ibrahim Khalafalla Clinton R Paden Mohammed F Yusof Yassir M Eltahir Zulaikha M Al Hammadi Ying Tao Krista Queen Farida Al Hosani Susan I Gerber Aron J Hall Salama Al Muhairi Suxiang Tong |
| author_sort | Yan Li |
| collection | DOAJ |
| description | Camels are known carriers for many viral pathogens, including Middle East respiratory syndrome coronavirus (MERS-CoV). It is likely that there are additional, as yet unidentified viruses in camels with the potential to cause disease in humans. In this study, we performed metagenomic sequencing analysis on nasopharyngeal swab samples from 108 MERS-CoV-positive dromedary camels from a live animal market in Abu Dhabi, United Arab Emirates. We obtained a total of 846.72 million high-quality reads from these nasopharyngeal swab samples, of which 2.88 million (0.34%) were related to viral sequences while 512.63 million (60.5%) and 50.87 million (6%) matched bacterial and eukaryotic sequences, respectively. Among the viral reads, sequences related to mammalian viruses from 13 genera in 10 viral families were identified, including Coronaviridae, Nairoviridae, Paramyxoviridae, Parvoviridae, Polyomaviridae, Papillomaviridae, Astroviridae, Picornaviridae, Poxviridae, and Genomoviridae. Some viral sequences belong to known camel or human viruses and others are from potentially novel camel viruses with only limited sequence similarity to virus sequences in GenBank. A total of five potentially novel virus species or strains were identified. Co-infection of at least two recently identified camel coronaviruses was detected in 92.6% of the camels in the study. This study provides a comprehensive survey of viruses in the virome of upper respiratory samples in camels that have extensive contact with the human population. |
| first_indexed | 2024-12-13T07:51:34Z |
| format | Article |
| id | doaj.art-c11d3bd4634f4272b150ea193da37654 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-13T07:51:34Z |
| publishDate | 2017-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-c11d3bd4634f4272b150ea193da376542022-12-21T23:54:39ZengPublic Library of Science (PLoS)PLoS ONE1932-62032017-01-01129e018471810.1371/journal.pone.0184718Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates.Yan LiAbdelmalik Ibrahim KhalafallaClinton R PadenMohammed F YusofYassir M EltahirZulaikha M Al HammadiYing TaoKrista QueenFarida Al HosaniSusan I GerberAron J HallSalama Al MuhairiSuxiang TongCamels are known carriers for many viral pathogens, including Middle East respiratory syndrome coronavirus (MERS-CoV). It is likely that there are additional, as yet unidentified viruses in camels with the potential to cause disease in humans. In this study, we performed metagenomic sequencing analysis on nasopharyngeal swab samples from 108 MERS-CoV-positive dromedary camels from a live animal market in Abu Dhabi, United Arab Emirates. We obtained a total of 846.72 million high-quality reads from these nasopharyngeal swab samples, of which 2.88 million (0.34%) were related to viral sequences while 512.63 million (60.5%) and 50.87 million (6%) matched bacterial and eukaryotic sequences, respectively. Among the viral reads, sequences related to mammalian viruses from 13 genera in 10 viral families were identified, including Coronaviridae, Nairoviridae, Paramyxoviridae, Parvoviridae, Polyomaviridae, Papillomaviridae, Astroviridae, Picornaviridae, Poxviridae, and Genomoviridae. Some viral sequences belong to known camel or human viruses and others are from potentially novel camel viruses with only limited sequence similarity to virus sequences in GenBank. A total of five potentially novel virus species or strains were identified. Co-infection of at least two recently identified camel coronaviruses was detected in 92.6% of the camels in the study. This study provides a comprehensive survey of viruses in the virome of upper respiratory samples in camels that have extensive contact with the human population.http://europepmc.org/articles/PMC5597213?pdf=render |
| spellingShingle | Yan Li Abdelmalik Ibrahim Khalafalla Clinton R Paden Mohammed F Yusof Yassir M Eltahir Zulaikha M Al Hammadi Ying Tao Krista Queen Farida Al Hosani Susan I Gerber Aron J Hall Salama Al Muhairi Suxiang Tong Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. PLoS ONE |
| title | Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. |
| title_full | Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. |
| title_fullStr | Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. |
| title_full_unstemmed | Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. |
| title_short | Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates. |
| title_sort | identification of diverse viruses in upper respiratory samples in dromedary camels from united arab emirates |
| url | http://europepmc.org/articles/PMC5597213?pdf=render |
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