Literature DB >> 29940601

Leveraging Phylogenetics to Understand HIV Transmission and Partner Notification Networks.

Dana K Pasquale1, Irene A Doherty2,3, Lynne A Sampson3,4, Stephane Hué5, Peter A Leone3, Joseph Sebastian6, Sue L Ledford7, Joseph J Eron3, William C Miller8, Ann M Dennis3.   

Abstract

BACKGROUND: Partner notification is an important component of public health test and treat interventions. To enhance this essential function, we assessed the potential for molecular methods to supplement routine partner notification and corroborate HIV networks.
METHODS: All persons diagnosed with HIV infection in Wake County, NC, during 2012-2013 and their disclosed sexual partners were included in a sexual network. A data set containing HIV-1 pol sequences collected in NC during 1997-2014 from 15,246 persons was matched to HIV-positive persons in the network and used to identify putative transmission clusters. Both networks were compared.
RESULTS: The partner notification network comprised 280 index cases and 383 sexual partners and high-risk social contacts (n = 131 HIV-positive). Of the 411 HIV-positive persons in the partner notification network, 181 (44%) did not match to a HIV sequence, 61 (15%) had sequences but were not identified in a transmission cluster, and 169 (41%) were identified in a transmission cluster. More than half (59%) of transmission clusters bridged sexual network partnerships that were not recognized in the partner notification; most of these clusters were dominated by men who have sex with men.
CONCLUSIONS: Partner notification and HIV sequence analysis provide complementary representations of the existent partnerships underlying the HIV transmission network. The partner notification network components were bridged by transmission clusters, particularly among components dominated by men who have sex with men. Supplementing the partner notification network with phylogenetic data highlighted avenues for intervention.

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Mesh:

Year:  2018        PMID: 29940601      PMCID: PMC6058319          DOI: 10.1097/QAI.0000000000001695

Source DB:  PubMed          Journal:  J Acquir Immune Defic Syndr        ISSN: 1525-4135            Impact factor:   3.731


  43 in total

1.  HIV-1 pol gene variation is sufficient for reconstruction of transmissions in the era of antiretroviral therapy.

Authors:  Stéphane Hué; Jonathan P Clewley; Patricia A Cane; Deenan Pillay
Journal:  AIDS       Date:  2004-03-26       Impact factor: 4.177

2.  Transmitted drug resistance and phylogenetic relationships among acute and early HIV-1-infected individuals in New York City.

Authors:  Delivette Castor; Andrea Low; Teresa Evering; Sharon Karmon; Brandi Davis; Amir Figueroa; Melissa LaMar; Donald Garmon; Saurabh Mehandru; Martin Markowitz
Journal:  J Acquir Immune Defic Syndr       Date:  2012-09-01       Impact factor: 3.731

Review 3.  Social networks, sexual networks and HIV risk in men who have sex with men.

Authors:  Yuri A Amirkhanian
Journal:  Curr HIV/AIDS Rep       Date:  2014-03       Impact factor: 5.071

4.  Demographic but not geographic insularity in HIV transmission among young black MSM.

Authors:  Alexandra M Oster; Danuta Pieniazek; Xinjian Zhang; William M Switzer; Rebecca A Ziebell; Leandro A Mena; Xierong Wei; Kendra L Johnson; Sonita K Singh; Peter E Thomas; Kimberlee A Elmore; James D Heffelfinger
Journal:  AIDS       Date:  2011-11-13       Impact factor: 4.177

5.  Epidemiological network analysis in HIV-1 B infected patients diagnosed in Italy between 2000 and 2008.

Authors:  Annapaola Callegaro; Valentina Svicher; Claudia Alteri; Alessandra Lo Presti; Daniela Valenti; Antonio Goglio; Marco Salemi; Eleonora Cella; Carlo Federico Perno; Massimo Ciccozzi; Franco Maggiolo
Journal:  Infect Genet Evol       Date:  2011-02-01       Impact factor: 3.342

6.  Transmission clustering among newly diagnosed HIV patients in Chicago, 2008 to 2011: using phylogenetics to expand knowledge of regional HIV transmission patterns.

Authors:  Ronald J Lubelchek; Sarah C Hoehnen; Anna L Hotton; Stacey L Kincaid; David E Barker; Audrey L French
Journal:  J Acquir Immune Defic Syndr       Date:  2015-01-01       Impact factor: 3.731

7.  Network analysis among HIV-infected young black men who have sex with men demonstrates high connectedness around few venues.

Authors:  Alexandra M Oster; Cyprian Wejnert; Leandro A Mena; Kim Elmore; Holly Fisher; James D Heffelfinger
Journal:  Sex Transm Dis       Date:  2013-03       Impact factor: 2.830

8.  Integration of Contact Tracing and Phylogenetics in an Investigation of Acute HIV Infection.

Authors:  Ann M Dennis; Dana K Pasquale; Rachael Billock; Steve Beagle; Victoria Mobley; Anna Cope; JoAnn Kuruc; Joseph Sebastian; Charles Walworth; Peter A Leone
Journal:  Sex Transm Dis       Date:  2018-04       Impact factor: 2.830

9.  Using HIV networks to inform real time prevention interventions.

Authors:  Susan J Little; Sergei L Kosakovsky Pond; Christy M Anderson; Jason A Young; Joel O Wertheim; Sanjay R Mehta; Susanne May; Davey M Smith
Journal:  PLoS One       Date:  2014-06-05       Impact factor: 3.240

10.  HIV-1 transmission patterns in antiretroviral therapy-naïve, HIV-infected North Americans based on phylogenetic analysis by population level and ultra-deep DNA sequencing.

Authors:  Lisa L Ross; Joseph Horton; Samiul Hasan; James R Brown; Daniel Murphy; Edwin DeJesus; Martin Potter; Anthony LaMarca; Ivan Melendez-Rivera; Douglas Ward; Jonathon Uy; Mark S Shaefer
Journal:  PLoS One       Date:  2014-02-26       Impact factor: 3.240

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  11 in total

Review 1.  Using Social Networks to Understand and Overcome Implementation Barriers in the Global HIV Response.

Authors:  Guy Harling; Alexander C Tsai
Journal:  J Acquir Immune Defic Syndr       Date:  2019-12       Impact factor: 3.731

2.  Evaluation of Phylogenetic Methods for Inferring the Direction of Human Immunodeficiency Virus (HIV) Transmission: HIV Prevention Trials Network (HPTN) 052.

Authors:  Yinfeng Zhang; Chris Wymant; Oliver Laeyendecker; M Kathryn Grabowski; Matthew Hall; Sarah Hudelson; Estelle Piwowar-Manning; Marybeth McCauley; Theresa Gamble; Mina C Hosseinipour; Nagalingeswaran Kumarasamy; James G Hakim; Johnstone Kumwenda; Lisa A Mills; Breno R Santos; Beatriz Grinsztejn; Jose H Pilotto; Suwat Chariyalertsak; Joseph Makhema; Ying Q Chen; Myron S Cohen; Christophe Fraser; Susan H Eshleman
Journal:  Clin Infect Dis       Date:  2021-01-23       Impact factor: 9.079

3.  HIV Response Interventions that Integrate HIV Molecular Cluster and Social Network Analysis: A Systematic Review.

Authors:  Daniel J Gore; Kellie Schueler; Santhoshini Ramani; Arno Uvin; Gregory Phillips; Moira McNulty; Kayo Fujimoto; John Schneider
Journal:  AIDS Behav       Date:  2021-11-15

4.  Intersection of Syphilis and Human Immunodeficiency Virus (HIV) Networks to Identify Opportunities to Enhance HIV Prevention.

Authors:  Ann M Dennis; Andrew Cressman; Dana Pasquale; Simon D W Frost; Elizabeth Kelly; Jalila Guy; Victoria Mobley; Erika Samoff; Christopher B Hurt; Candice Mcneil; Lisa Hightow-Weidman; Monique Carry; Matthew Hogben; Arlene C Seña
Journal:  Clin Infect Dis       Date:  2022-02-11       Impact factor: 9.079

5.  Factors Associated With Human Immunodeficiency Virus Infections Linked in Genetic Clusters But Disconnected in Partner Tracing.

Authors:  Dana K Pasquale; Irene A Doherty; William C Miller; Peter A Leone; Lynne A Sampson; Sue Lynn Ledford; Joseph Sebastian; Ann M Dennis
Journal:  Sex Transm Dis       Date:  2020-02       Impact factor: 3.868

6.  Prevalence and Transmission Dynamics of HIV-1 Transmitted Drug Resistance in a Southeastern Cohort.

Authors:  Sara N Levintow; Nwora Lance Okeke; Stephane Hué; Laura Mkumba; Arti Virkud; Sonia Napravnik; Joseph Sebastian; William C Miller; Joseph J Eron; Ann M Dennis
Journal:  Open Forum Infect Dis       Date:  2018-07-20       Impact factor: 3.835

7.  Phylodynamic Analysis Complements Partner Services by Identifying Acute and Unreported HIV Transmission.

Authors:  Ellsworth M Campbell; Anne Patala; Anupama Shankar; Jin-Fen Li; Jeffrey A Johnson; Emily Westheimer; Cynthia L Gay; Stephanie E Cohen; William M Switzer; Philip J Peters
Journal:  Viruses       Date:  2020-01-27       Impact factor: 5.048

8.  Priority Intervention Targets Identified Using an In-Depth Sampling HIV Molecular Network in a Non-Subtype B Epidemics Area.

Authors:  Bin Zhao; Wei Song; Minghui An; Xue Dong; Xin Li; Lu Wang; Jianmin Liu; Wen Tian; Zhen Wang; Haibo Ding; Xiaoxu Han; Hong Shang
Journal:  Front Cell Infect Microbiol       Date:  2021-03-29       Impact factor: 5.293

9.  Using phylogenetics to infer HIV-1 transmission direction between known transmission pairs.

Authors:  Christian Julian Villabona-Arenas; Stéphane Hué; James A C Baxter; Matthew Hall; Katrina A Lythgoe; John Bradley; Katherine E Atkins
Journal:  Proc Natl Acad Sci U S A       Date:  2022-09-14       Impact factor: 12.779

10.  Characterization of HIV Risk Behaviors and Clusters Using HIV-Transmission Cluster Engine Among a Cohort of Persons Living with HIV in Washington, DC.

Authors:  Brittany Wilbourn; Brittani Saafir-Callaway; Kamwing Jair; Joel O Wertheim; Oliver Laeyendeker; Jeanne A Jordan; Michael Kharfen; Amanda Castel
Journal:  AIDS Res Hum Retroviruses       Date:  2021-07-22       Impact factor: 1.723

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