Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray.
Background Arthropod-borne viruses are important emerging pathogens world-wide. Viruses transmitted by mosquitoes, such as dengue, yellow fever, and Japanese encephalitis viruses, infect hundreds of millions of people and animals each year. Global surveillance of these viruses in mosquito vectors us...
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ftdoajarticles:oai:doaj.org/article:0dd3d1e694cd4647ad3594b5a8dfbb59 2023-05-15T15:15:45+02:00 Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. Nathan D Grubaugh Scott S McMenamy Michael J Turell John S Lee 2013-01-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0002349 https://doaj.org/article/0dd3d1e694cd4647ad3594b5a8dfbb59 EN eng Public Library of Science (PLoS) https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23967358/?tool=EBI https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0002349 https://doaj.org/article/0dd3d1e694cd4647ad3594b5a8dfbb59 PLoS Neglected Tropical Diseases, Vol 7, Iss 8, p e2349 (2013) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2013 ftdoajarticles https://doi.org/10.1371/journal.pntd.0002349 2022-12-31T05:07:09Z Background Arthropod-borne viruses are important emerging pathogens world-wide. Viruses transmitted by mosquitoes, such as dengue, yellow fever, and Japanese encephalitis viruses, infect hundreds of millions of people and animals each year. Global surveillance of these viruses in mosquito vectors using molecular based assays is critical for prevention and control of the associated diseases. Here, we report an oligonucleotide DNA microarray design, termed ArboChip5.1, for multi-gene detection and identification of mosquito-borne RNA viruses from the genera Flavivirus (family Flaviviridae), Alphavirus (Togaviridae), Orthobunyavirus (Bunyaviridae), and Phlebovirus (Bunyaviridae). Methodology/principal findings The assay utilizes targeted PCR amplification of three genes from each virus genus for electrochemical detection on a portable, field-tested microarray platform. Fifty-two viruses propagated in cell-culture were used to evaluate the specificity of the PCR primer sets and the ArboChip5.1 microarray capture probes. The microarray detected all of the tested viruses and differentiated between many closely related viruses such as members of the dengue, Japanese encephalitis, and Semliki Forest virus clades. Laboratory infected mosquitoes were used to simulate field samples and to determine the limits of detection. Additionally, we identified dengue virus type 3, Japanese encephalitis virus, Tembusu virus, Culex flavivirus, and a Quang Binh-like virus from mosquitoes collected in Thailand in 2011 and 2012. Conclusions/significance We demonstrated that the described assay can be utilized in a comprehensive field surveillance program by the broad-range amplification and specific identification of arboviruses from infected mosquitoes. Furthermore, the microarray platform can be deployed in the field and viral RNA extraction to data analysis can occur in as little as 12 h. The information derived from the ArboChip5.1 microarray can help to establish public health priorities, detect disease outbreaks, and evaluate ... Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLoS Neglected Tropical Diseases 7 8 e2349 |
institution |
Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
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English |
topic |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 Nathan D Grubaugh Scott S McMenamy Michael J Turell John S Lee Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Background Arthropod-borne viruses are important emerging pathogens world-wide. Viruses transmitted by mosquitoes, such as dengue, yellow fever, and Japanese encephalitis viruses, infect hundreds of millions of people and animals each year. Global surveillance of these viruses in mosquito vectors using molecular based assays is critical for prevention and control of the associated diseases. Here, we report an oligonucleotide DNA microarray design, termed ArboChip5.1, for multi-gene detection and identification of mosquito-borne RNA viruses from the genera Flavivirus (family Flaviviridae), Alphavirus (Togaviridae), Orthobunyavirus (Bunyaviridae), and Phlebovirus (Bunyaviridae). Methodology/principal findings The assay utilizes targeted PCR amplification of three genes from each virus genus for electrochemical detection on a portable, field-tested microarray platform. Fifty-two viruses propagated in cell-culture were used to evaluate the specificity of the PCR primer sets and the ArboChip5.1 microarray capture probes. The microarray detected all of the tested viruses and differentiated between many closely related viruses such as members of the dengue, Japanese encephalitis, and Semliki Forest virus clades. Laboratory infected mosquitoes were used to simulate field samples and to determine the limits of detection. Additionally, we identified dengue virus type 3, Japanese encephalitis virus, Tembusu virus, Culex flavivirus, and a Quang Binh-like virus from mosquitoes collected in Thailand in 2011 and 2012. Conclusions/significance We demonstrated that the described assay can be utilized in a comprehensive field surveillance program by the broad-range amplification and specific identification of arboviruses from infected mosquitoes. Furthermore, the microarray platform can be deployed in the field and viral RNA extraction to data analysis can occur in as little as 12 h. The information derived from the ArboChip5.1 microarray can help to establish public health priorities, detect disease outbreaks, and evaluate ... |
format |
Article in Journal/Newspaper |
author |
Nathan D Grubaugh Scott S McMenamy Michael J Turell John S Lee |
author_facet |
Nathan D Grubaugh Scott S McMenamy Michael J Turell John S Lee |
author_sort |
Nathan D Grubaugh |
title |
Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
title_short |
Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
title_full |
Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
title_fullStr |
Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
title_full_unstemmed |
Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. |
title_sort |
multi-gene detection and identification of mosquito-borne rna viruses using an oligonucleotide microarray. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2013 |
url |
https://doi.org/10.1371/journal.pntd.0002349 https://doaj.org/article/0dd3d1e694cd4647ad3594b5a8dfbb59 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 7, Iss 8, p e2349 (2013) |
op_relation |
https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23967358/?tool=EBI https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0002349 https://doaj.org/article/0dd3d1e694cd4647ad3594b5a8dfbb59 |
op_doi |
https://doi.org/10.1371/journal.pntd.0002349 |
container_title |
PLoS Neglected Tropical Diseases |
container_volume |
7 |
container_issue |
8 |
container_start_page |
e2349 |
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1766346093994442752 |