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Long-read deep sequencing reveals high rates of multilineage transmission and rapid viral population changes in acute HIV infection.

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Title: Long-read deep sequencing reveals high rates of multilineage transmission and rapid viral population changes in acute HIV infection.
Authors: Mullins JI; Department of Microbiology, University of Washington, Seattle, WA, USA. jmullins@uw.edu., Deng W; Department of Microbiology, University of Washington, Seattle, WA, USA.; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Giorgi EE; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Magaret CA; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Rolland M; Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc, Bethesda, MD, USA.; U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, MD, USA., Bhattacharya T; Theoretical Division, Los Alamos National Laboratory, Los Alamos, NM, USA.; Santa Fe Institute, Santa Fe, NM, USA., Westfall DH; Department of Microbiology, University of Washington, Seattle, WA, USA.; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Yssel AEJ; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa.; Sand Technologies, Cape Town, South Africa., Bumgarner RE; Department of Microbiology, University of Washington, Seattle, WA, USA., Murrell B; Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Stockholm, Sweden., Ndung'u T; African Health Research Institute, University of KwaZulu Natal, Durban, South Africa.; HIV Pathogenesis Programme, The Doris Duke Medical Research Institute, University of KwaZulu-Natal, Durban, South Africa.; Ragon Institute of Mass General Brigham, Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.; Division of Infection and Immunity, University College London, London, UK., Robb ML; Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc, Bethesda, MD, USA., Rossenkhan R; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Edlefsen PT; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Dong KL; Ragon Institute of Mass General Brigham, Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA., Chen L; Department of Microbiology, University of Washington, Seattle, WA, USA., Gwashu-Nyangiwe A; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Zhao H; Department of Microbiology, University of Washington, Seattle, WA, USA.; Department of Obstetrics and Gynecology, University of Washington, Seattle, WA, USA., Thebus R; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Ndabambi N; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Galvao B; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Sawe F; Kenya Medical Research Institute, Walter Reed Army Institute of Research-Africa, Nairobi, Kenya.; Henry M. Jackson Foundation Medical Research International, Nairobi, Kenya., Nitayaphan S; Armed Forces Research Institute of Medical Sciences, Bangkok, Thailand., York T; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Matten D; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Murrell H; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa., Pankow AP; Department of Microbiology, University of Washington, Seattle, WA, USA.; Department of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Juraska M; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Ludwig J; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Hural J; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Cohen MS; University of North Carolina, Chapel Hill, NC, USA., Corey L; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., McElrath MJ; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Gilbert PB; Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA., Williamson C; Institute of Infectious Diseases and Molecular Medicine, Division of Medical Virology, University of Cape Town, Cape Town, South Africa.; National Health Laboratory Services, Johannesburg, South Africa.
Source: Nature communications [Nat Commun] 2026 May 25; Vol. 17 (1). Date of Electronic Publication: 2026 May 25.
Publication Type: Journal Article
Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
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