The Global Transmission Network of HIV-1
Human immunodeficiency virus type 1 (HIV-1) is pandemic, but its contemporary global transmission network has not been characterized. A better understanding of the properties and dynamics of this network is essential for surveillance, prevention, and eventual eradication of HIV. Here, we apply a sim...
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| Veröffentlicht in: | The Journal of infectious diseases 2014-01, Vol.209 (2), p.304-313 |
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| container_title | The Journal of infectious diseases |
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| creator | Wertheim, Joel O. Brown, Andrew J. Leigh Hepler, N. Lance Mehta, Sanjay R. Richman, Douglas D. Smith, Davey M. Pond, Sergei L. Kosakovsky |
| description | Human immunodeficiency virus type 1 (HIV-1) is pandemic, but its contemporary global transmission network has not been characterized. A better understanding of the properties and dynamics of this network is essential for surveillance, prevention, and eventual eradication of HIV. Here, we apply a simple and computationally efficient network-based approach to all publicly available HIV polymerase sequences in the global database, revealing a contemporary picture of the spread of HIV-1 within and between countries. This approach automatically recovered well-characterized transmission clusters and extended other clusters thought to be contained within a single country across international borders. In addition, previously undescribed transmission clusters were discovered. Together, these clusters represent all known modes of HIV transmission. The extent of international linkage revealed by our comprehensive approach demonstrates the need to consider the global diversity of HIV, even when describing local epidemics. Finally, the speed of this method allows for nearreal-time surveillance of the pandemic's progression. |
| doi_str_mv | 10.1093/infdis/jit524 |
| format | Article |
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Leigh ; Hepler, N. Lance ; Mehta, Sanjay R. ; Richman, Douglas D. ; Smith, Davey M. ; Pond, Sergei L. Kosakovsky</creator><creatorcontrib>Wertheim, Joel O. ; Brown, Andrew J. Leigh ; Hepler, N. Lance ; Mehta, Sanjay R. ; Richman, Douglas D. ; Smith, Davey M. ; Pond, Sergei L. Kosakovsky</creatorcontrib><description>Human immunodeficiency virus type 1 (HIV-1) is pandemic, but its contemporary global transmission network has not been characterized. A better understanding of the properties and dynamics of this network is essential for surveillance, prevention, and eventual eradication of HIV. Here, we apply a simple and computationally efficient network-based approach to all publicly available HIV polymerase sequences in the global database, revealing a contemporary picture of the spread of HIV-1 within and between countries. This approach automatically recovered well-characterized transmission clusters and extended other clusters thought to be contained within a single country across international borders. In addition, previously undescribed transmission clusters were discovered. Together, these clusters represent all known modes of HIV transmission. The extent of international linkage revealed by our comprehensive approach demonstrates the need to consider the global diversity of HIV, even when describing local epidemics. 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For Permissions, please e-mail: . 2013</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c472t-222a2bebbbbd251bab2feafeae85e912b42986d6bae0b8f2ba4c3e44c6c636553</citedby><cites>FETCH-LOGICAL-c472t-222a2bebbbbd251bab2feafeae85e912b42986d6bae0b8f2ba4c3e44c6c636553</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/43707962$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/43707962$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>230,314,776,780,799,881,27901,27902,57992,58225</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=28319684$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24151309$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Wertheim, Joel O.</creatorcontrib><creatorcontrib>Brown, Andrew J. Leigh</creatorcontrib><creatorcontrib>Hepler, N. Lance</creatorcontrib><creatorcontrib>Mehta, Sanjay R.</creatorcontrib><creatorcontrib>Richman, Douglas D.</creatorcontrib><creatorcontrib>Smith, Davey M.</creatorcontrib><creatorcontrib>Pond, Sergei L. Kosakovsky</creatorcontrib><title>The Global Transmission Network of HIV-1</title><title>The Journal of infectious diseases</title><addtitle>J Infect Dis</addtitle><description>Human immunodeficiency virus type 1 (HIV-1) is pandemic, but its contemporary global transmission network has not been characterized. A better understanding of the properties and dynamics of this network is essential for surveillance, prevention, and eventual eradication of HIV. Here, we apply a simple and computationally efficient network-based approach to all publicly available HIV polymerase sequences in the global database, revealing a contemporary picture of the spread of HIV-1 within and between countries. This approach automatically recovered well-characterized transmission clusters and extended other clusters thought to be contained within a single country across international borders. In addition, previously undescribed transmission clusters were discovered. Together, these clusters represent all known modes of HIV transmission. The extent of international linkage revealed by our comprehensive approach demonstrates the need to consider the global diversity of HIV, even when describing local epidemics. Finally, the speed of this method allows for nearreal-time surveillance of the pandemic's progression.</description><subject>AIDS</subject><subject>Biological and medical sciences</subject><subject>Cluster Analysis</subject><subject>Computational Biology - methods</subject><subject>Data transmission</subject><subject>Databases, Genetic</subject><subject>Disease transmission</subject><subject>Disease Transmission, Infectious</subject><subject>Epidemics</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetic Variation</subject><subject>Geographic regions</subject><subject>Global Health</subject><subject>HIV</subject><subject>HIV 1</subject><subject>HIV infections</subject><subject>HIV Infections - epidemiology</subject><subject>HIV Infections - transmission</subject><subject>HIV-1 - classification</subject><subject>HIV-1 - genetics</subject><subject>HIV-1 - isolation & purification</subject><subject>HIV/AIDS</subject><subject>Human immunodeficiency virus 1</subject><subject>Humans</subject><subject>Infectious diseases</subject><subject>Major and Brief Reports</subject><subject>Medical sciences</subject><subject>Microbiology</subject><subject>Miscellaneous</subject><subject>Molecular Epidemiology</subject><subject>Pandemics</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Virology</subject><issn>0022-1899</issn><issn>1537-6613</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU1PGzEQhq2qqATKkSNoL0hcFuzx96USQm2CFMEl5WrZjhc2bNbB3lD139doQ9SeOhppDvPMq5l5ETol-IpgTa_bvlm2-XrVDhzYJzQhnMpaCEI_ownGADVRWh-io5xXGGNGhfyCDoERTijWE3S5eA7VtIvOdtUi2T6v25zb2Ff3YfgV00sVm2p291iTr-igsV0OJ7t6jH7--L64ndXzh-nd7c289kzCUAOABRdciSVw4qyDJtiSQfGgCTgGWomlcDZgpxpwlnkaGPPCCyo4p8fo26i72bp1WPrQD8l2ZpPatU2_TbSt-bfTt8_mKb4ZqiSVShWBy51Aiq_bkAdTTvKh62wf4jYbIoginIEk_0eZxpIzoaCg9Yj6FHNOodlvRLB5N8KMRpjRiMKf_33Gnv74fAEudoDN3nZN-b0v43tOUaKFehc6G7lVHmLa9xmVWGoB9A855Zxx</recordid><startdate>20140115</startdate><enddate>20140115</enddate><creator>Wertheim, Joel O.</creator><creator>Brown, Andrew J. Leigh</creator><creator>Hepler, N. Lance</creator><creator>Mehta, Sanjay R.</creator><creator>Richman, Douglas D.</creator><creator>Smith, Davey M.</creator><creator>Pond, Sergei L. Kosakovsky</creator><general>Oxford University Press</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7U9</scope><scope>H94</scope><scope>5PM</scope></search><sort><creationdate>20140115</creationdate><title>The Global Transmission Network of HIV-1</title><author>Wertheim, Joel O. ; Brown, Andrew J. Leigh ; Hepler, N. Lance ; Mehta, Sanjay R. ; Richman, Douglas D. ; Smith, Davey M. ; Pond, Sergei L. 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Lance</creatorcontrib><creatorcontrib>Mehta, Sanjay R.</creatorcontrib><creatorcontrib>Richman, Douglas D.</creatorcontrib><creatorcontrib>Smith, Davey M.</creatorcontrib><creatorcontrib>Pond, Sergei L. Kosakovsky</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Virology and AIDS Abstracts</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>The Journal of infectious diseases</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Wertheim, Joel O.</au><au>Brown, Andrew J. Leigh</au><au>Hepler, N. 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| ispartof | The Journal of infectious diseases, 2014-01, Vol.209 (2), p.304-313 |
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| source | Jstor Complete Legacy; Oxford University Press Journals All Titles (1996-Current); MEDLINE; Alma/SFX Local Collection |
| subjects | AIDS Biological and medical sciences Cluster Analysis Computational Biology - methods Data transmission Databases, Genetic Disease transmission Disease Transmission, Infectious Epidemics Fundamental and applied biological sciences. Psychology Genetic Variation Geographic regions Global Health HIV HIV 1 HIV infections HIV Infections - epidemiology HIV Infections - transmission HIV-1 - classification HIV-1 - genetics HIV-1 - isolation & purification HIV/AIDS Human immunodeficiency virus 1 Humans Infectious diseases Major and Brief Reports Medical sciences Microbiology Miscellaneous Molecular Epidemiology Pandemics Phylogenetics Phylogeny Virology |
| title | The Global Transmission Network of HIV-1 |
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