DGV: Dengue Genographic Viewer
Dengue viruses (DENVs) and their vectors are widely distributed throughout the tropical and subtropical regions of the world. An autochthonous case of DENV was reported in Tokyo, Japan, in 2014, for the first time in 70 years. A comprehensive database of DENV sequences containing both serotype and g...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-06-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.00875/full |
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| author | Akifumi eYamashita Tetsuya eSakamoto Tetsuya eSakamoto Tsuyoshi eSekizuka Kengo eKato Tomohiko eTakasaki Makoto eKuroda |
| author_facet | Akifumi eYamashita Tetsuya eSakamoto Tetsuya eSakamoto Tsuyoshi eSekizuka Kengo eKato Tomohiko eTakasaki Makoto eKuroda |
| author_sort | Akifumi eYamashita |
| collection | DOAJ |
| description | Dengue viruses (DENVs) and their vectors are widely distributed throughout the tropical and subtropical regions of the world. An autochthonous case of DENV was reported in Tokyo, Japan, in 2014, for the first time in 70 years. A comprehensive database of DENV sequences containing both serotype and genotype data and epidemiological data is crucial to trace DENV outbreak isolates and promptly respond to outbreaks. We constructed a DENV database containing the serotype, genotype, year and country/region of collection by collecting all publically available DENV sequence information from the National Center for Biotechnology Information (NCBI) and assigning genotype information. We also implemented the web service Dengue Genographic Viewer (DGV), which shows the geographical distribution of each DENV genotype in a user-specified time span. DGV also assigns the serotype and genotype to a user-specified sequence by performing a homology search against the curated DENV database, and shows its homologous sequences with the geographical position and year of collection. DGV also shows the distribution of DENV-infected entrants to Japan by plotting epidemiological data from the Infectious Agents Surveillance Report (IASR), Japan. This overview of the DENV genotype distribution may aid in planning for the control of DENV infections. DGV is freely available online at: (https://gph.niid.go.jp/geograph/dengue/content/genomemap). |
| first_indexed | 2024-12-14T16:36:24Z |
| format | Article |
| id | doaj.art-fbf24b7d0a1f40ac8b42049837efbd96 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-14T16:36:24Z |
| publishDate | 2016-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-fbf24b7d0a1f40ac8b42049837efbd962022-12-21T22:54:26ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2016-06-01710.3389/fmicb.2016.00875206021DGV: Dengue Genographic ViewerAkifumi eYamashita0Tetsuya eSakamoto1Tetsuya eSakamoto2Tsuyoshi eSekizuka3Kengo eKato4Tomohiko eTakasaki5Makoto eKuroda6National Institute of Infectious DiseasesNational Institute of Infectious DiseasesCTC System Management CorporationNational Institute of Infectious DiseasesNational Institute of Infectious DiseasesNational Institute of Infectious DiseasesNational Institute of Infectious DiseasesDengue viruses (DENVs) and their vectors are widely distributed throughout the tropical and subtropical regions of the world. An autochthonous case of DENV was reported in Tokyo, Japan, in 2014, for the first time in 70 years. A comprehensive database of DENV sequences containing both serotype and genotype data and epidemiological data is crucial to trace DENV outbreak isolates and promptly respond to outbreaks. We constructed a DENV database containing the serotype, genotype, year and country/region of collection by collecting all publically available DENV sequence information from the National Center for Biotechnology Information (NCBI) and assigning genotype information. We also implemented the web service Dengue Genographic Viewer (DGV), which shows the geographical distribution of each DENV genotype in a user-specified time span. DGV also assigns the serotype and genotype to a user-specified sequence by performing a homology search against the curated DENV database, and shows its homologous sequences with the geographical position and year of collection. DGV also shows the distribution of DENV-infected entrants to Japan by plotting epidemiological data from the Infectious Agents Surveillance Report (IASR), Japan. This overview of the DENV genotype distribution may aid in planning for the control of DENV infections. DGV is freely available online at: (https://gph.niid.go.jp/geograph/dengue/content/genomemap).http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.00875/fullDengue VirusgenotypingNGSgenographweb service. |
| spellingShingle | Akifumi eYamashita Tetsuya eSakamoto Tetsuya eSakamoto Tsuyoshi eSekizuka Kengo eKato Tomohiko eTakasaki Makoto eKuroda DGV: Dengue Genographic Viewer Frontiers in Microbiology Dengue Virus genotyping NGS genograph web service. |
| title | DGV: Dengue Genographic Viewer |
| title_full | DGV: Dengue Genographic Viewer |
| title_fullStr | DGV: Dengue Genographic Viewer |
| title_full_unstemmed | DGV: Dengue Genographic Viewer |
| title_short | DGV: Dengue Genographic Viewer |
| title_sort | dgv dengue genographic viewer |
| topic | Dengue Virus genotyping NGS genograph web service. |
| url | http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.00875/full |
| work_keys_str_mv | AT akifumieyamashita dgvdenguegenographicviewer AT tetsuyaesakamoto dgvdenguegenographicviewer AT tetsuyaesakamoto dgvdenguegenographicviewer AT tsuyoshiesekizuka dgvdenguegenographicviewer AT kengoekato dgvdenguegenographicviewer AT tomohikoetakasaki dgvdenguegenographicviewer AT makotoekuroda dgvdenguegenographicviewer |