2018–2020

T-cell responses to sequentially emerging viral escape mutants shape long-term HIV-1 population dynamics. Akahoshi T, Gatanaga H, Kuse N, Chikata T, Koyanagi M, Ishizuka N, Brumme CJ, Murakoshi H, Brumme ZL, Oka S, Takiguchi M. PLoS Pathog. 2020 Dec 28;16(12):e1009177. doi: 10.1371/journal.ppat.1009177. eCollection 2020 Dec.

Evaluation of Nasopharyngeal Swab Collection Techniques for Nucleic Acid Recovery and Participant Experience: Recommendations for COVID-19 Diagnostics. Kinloch NN, Shahid A, Ritchie G, Dong W, Lawson T, Montaner JSG, Romney MG, Stefanovic A, Matic N, Brumme CJ, Lowe CF, Brumme ZL, Leung V. Open Forum Infect Dis. 2020 Oct 14;7(11):ofaa488. doi: 10.1093/ofid/ofaa488. eCollection 2020 Nov.

The HIV-1 latent reservoir is largely sensitive to circulating T cells. Warren JA, Zhou S, Xu Y, Moeser MJ, MacMillan DR, Council O, Kirchherr J, Sung JM, Roan NR, Adimora AA, Joseph S, Kuruc JD, Gay CL, Margolis DM, Archin N, Brumme ZL, Swanstrom R, Goonetilleke N. Elife. 2020 Oct 6;9:e57246. doi: 10.7554/eLife.57246.

Variation in HIV-1 Nef function within and among viral subtypes reveals genetically separable antagonism of SERINC3 and SERINC5. Jin SW, Mwimanzi FM, Mann JK, Bwana MB, Lee GQ, Brumme CJ, Hunt PW, Martin JN, Bangsberg DR, Ndung'u T, Brumme ZL, Brockman MA. PLoS Pathog. 2020 Sep 14;16(9):e1008813. doi: 10.1371/journal.ppat.1008813. eCollection 2020 Sep.

Human papillomavirus and cervical cancer risk perception and vaccine acceptability among adolescent girls and young women in Durban, South Africa. Russell VL, Ogilvie G, Beksinska M, Nyrenda M, Mitchell-Foster S, Lavoie J, Harder H, Wood B, Smith P, Dietrich JJ, Smit J, Brockman MA, Gray G, Kaida On Behalf Of The Ayazazi Research Team A. S Afr Med J. 2020 Aug 31;110(9):887-893. doi: 10.7196/SAMJ.2020.v110i9.14367.

Suboptimal Biological Sampling as a Probable Cause of False-Negative COVID-19 Diagnostic Test Results. Kinloch NN, Ritchie G, Brumme CJ, Dong W, Dong W, Lawson T, Jones RB, Montaner JSG, Leung V, Romney MG, Stefanovic A, Matic N, Lowe CF, Brumme ZL. J Infect Dis. 2020 Aug 17;222(6):899-902. doi: 10.1093/infdis/jiaa370.

The African natural product knipholone anthrone and its analogue anthralin (dithranol) enhance HIV-1 latency reversal. Richard K, Schonhofer C, Giron LB, Rivera-Ortiz J, Read S, Kannan T, Kinloch NN, Shahid A, Feilcke R, Wappler S, Imming P, Harris M, Brumme ZL, Brockman MA, Mounzer K, Kossenkov AV, Abdel-Mohsen M, Andrae-Marobela K, Montaner LJ, Tietjen I. J Biol Chem. 2020 Oct 9;295(41):14084-14099. doi: 10.1074/jbc.RA120.013031. Epub 2020 Aug 11.

African-led health research and capacity building- is it working? Kasprowicz VO, Chopera D, Waddilove KD, Brockman MA, Gilmour J, Hunter E, Kilembe W, Karita E, Gaseitsiwe S, Sanders EJ, Ndung'u T. BMC Public Health. 2020 Jul 14;20(1):1104. doi: 10.1186/s12889-020-08875-3.

Differential Vpu-Mediated CD4 and Tetherin Downregulation Functions among Major HIV-1 Group M Subtypes. Umviligihozo G, Cobarrubias KD, Chandrarathna S, Jin SW, Reddy N, Byakwaga H, Muzoora C, Bwana MB, Lee GQ, Hunt PW, Martin JN, Brumme CJ, Bangsberg DR, Karita E, Allen S, Hunter E, Ndung'u T, Brumme ZL, Brockman MA. J Virol. 2020 Jul 1;94(14):e00293-20. doi: 10.1128/JVI.00293-20. Print 2020 Jul 1.

HIV-1 variants are archived throughout infection and persist in the reservoir. Brooks K, Jones BR, Dilernia DA, Wilkins DJ, Claiborne DT, McInally S, Gilmour J, Kilembe W, Joy JB, Allen SA, Brumme ZL, Hunter E. PLoS Pathog. 2020 Jun 3;16(6):e1008378. doi: 10.1371/journal.ppat.1008378. eCollection 2020 Jun.

The Impact of Treatment as Prevention on the HIV Epidemic in British Columbia, Canada. Lima VD, Brumme ZL, Brumme C, Sereda P, Krajden M, Wong J, Guillemi SA, Henry B, Hogg RS, Barrios R, Montaner JSG; STOP HIV/AIDS Study Group. Curr HIV/AIDS Rep. 2020 Apr;17(2):77-87. doi: 10.1007/s11904-020-00482-6.

Consequences of HLA-associated mutations in HIV-1 subtype C Nef on HLA-I downregulation ability. Mann JK, Rajkoomar E, Jin SW, Mkhize Q, Baiyegunhi O, Mbona P, Brockman MA, Ndung'u T. J Med Virol. 2020 Aug;92(8):1182-1190. doi: 10.1002/jmv.25676. Epub 2020 Feb 7.

Longitudinal within-host evolution of HIV Nef-mediated CD4, HLA and SERINC5 downregulation activity: a case study. Sudderuddin H, Kinloch NN, Jin SW, Miller RL, Jones BR, Brumme CJ, Joy JB, Brockman MA, Brumme ZL. Retrovirology. 2020 Jan 9;17(1):3. doi: 10.1186/s12977-019-0510-1.

Genetic Diversity, Compartmentalization, and Age of HIV Proviruses Persisting in CD4⁺ T Cell Subsets during Long-Term Combination Antiretroviral Therapy. Jones BR, Miller RL, Kinloch NN, Tsai O, Rigsby H, Sudderuddin H, Shahid A, Ganase B, Brumme CJ, Harris M, Poon AFY, Brockman MA, Fromentin R, Chomont N, Joy JB, Brumme ZL. J Virol. 2020 Feb 14;94(5):e01786-19. doi: 10.1128/JVI.01786-19. Print 2020 Feb 14.

Natural HIV-1 Nef Polymorphisms Impair SERINC5 Downregulation Activity. Jin SW, Alsahafi N, Kuang XT, Swann SA, Toyoda M, Göttlinger H, Walker BD, Ueno T, Finzi A, Brumme ZL, Brockman MA. Cell Rep. 2019 Nov 5;29(6):1449-1457.e5. doi: 10.1016/j.celrep.2019.10.007.

Detection of HIV transmission hotspots in British Columbia, Canada: A novel framework for the prioritization and allocation of treatment and prevention resources. McLaughlin A, Sereda P, Oliveira N, Barrios R, Brumme CJ, Brumme ZL, Montaner JSG, Joy JB. EBioMedicine. 2019 Oct;48:405-413. doi: 10.1016/j.ebiom.2019.09.026. Epub 2019 Oct 15.

Rates and Correlates of Short Term Virologic Response among Treatment-Naïve HIV-Infected Children Initiating Antiretroviral Therapy in Ethiopia: A Multi-Center Prospective Cohort Study. Tadesse BT, Chala A, Mukonzo J, Chaka TE, Tadesse S, Makonnen E, Brumme ZL, Brumme CJ, Aklillu E. Pathogens. 2019 Sep 24;8(4):161. doi: 10.3390/pathogens8040161.

Prevalence and Correlates of Pre-Treatment HIV Drug Resistance among HIV-Infected Children in Ethiopia. Tadesse BT, Tsai O, Chala A, Chaka TE, Eromo T, Lapointe HR, Baraki B, Shahid A, Tadesse S, Makonnen E, Brumme ZL, Aklillu E, Brumme CJ. Viruses. 2019 Sep 19;11(9):877. doi: 10.3390/v11090877.

HIV Diversity and Genetic Compartmentalization in Blood and Testes during Suppressive Antiretroviral Therapy. Miller RL, Ponte R, Jones BR, Kinloch NN, Omondi FH, Jenabian MA, Dupuy FP, Fromentin R, Brassard P, Mehraj V, Chomont N, Poon AFY, Joy JB, Brumme ZL, Routy JP; ORCHID Study Group. J Virol. 2019 Aug 13;93(17):e00755-19. doi: 10.1128/JVI.00755-19. Print 2019 Sep 1.

Immune Correlates of Disease Progression in Linked HIV-1 Infection. Tuen M, Bimela JS, Banin AN, Ding S, Harkins GW, Weiss S, Itri V, Durham AR, Porcella SF, Soni S, Mayr L, Meli J, Torimiro JN, Tongo M, Wang X, Kong XP, Nádas A, Kaufmann DE, Brumme ZL, Nanfack AJ, Quinn TC, Zolla-Pazner S, Redd AD, Finzi A, Gorny MK, Nyambi PN, Duerr R. Front Immunol. 2019 May 14;10:1062. doi: 10.3389/fimmu.2019.01062. eCollection 2019.

Augmentation of HIV-specific T cell function by immediate treatment of hyperacute HIV-1 infection. Ndhlovu ZM, Kazer SW, Nkosi T, Ogunshola F, Muema DM, Anmole G, Swann SA, Moodley A, Dong K, Reddy T, Brockman MA, Shalek AK, Ndung'u T, Walker BD. Sci Transl Med. 2019 May 22;11(493):eaau0528. doi: 10.1126/scitranslmed.aau0528.

Nef-mediated inhibition of NFAT following TCR stimulation differs between HIV-1 subtypes. Naidoo L, Mzobe Z, Jin SW, Rajkoomar E, Reddy T, Brockman MA, Brumme ZL, Ndung'u T, Mann JK. Virology. 2019 May;531:192-202. doi: 10.1016/j.virol.2019.02.011. Epub 2019 Feb 21.

Clinical and evolutionary consequences of HIV adaptation to HLA: implications for vaccine and cure. Avila-Rios S, Carlson JM, John M, Mallal S, Brumme ZL. Curr Opin HIV AIDS. 2019 May;14(3):194-204. doi: 10.1097/COH.0000000000000541.

Modulation of TCR-dependent NFAT signaling is impaired in HIV-1 Nef isolates from elite controllers. Jin SW, Markle TJ, Anmole G, Rahimi A, Kuang XT, Brumme ZL, Brockman MA. Virology. 2019 Apr;530:39-50. doi: 10.1016/j.virol.2019.02.008. Epub 2019 Feb 11.

HIV Subtype and Nef-Mediated Immune Evasion Function Correlate with Viral Reservoir Size in Early-Treated Individuals. Omondi FH, Chandrarathna S, Mujib S, Brumme CJ, Jin SW, Sudderuddin H, Miller RL, Rahimi A, Laeyendecker O, Bonner P, Yue FY, Benko E, Kovacs CM, Brockman MA, Ostrowski M, Brumme ZL. J Virol. 2019 Mar 5;93(6):e01832-18. doi: 10.1128/JVI.01832-18. Print 2019 Mar 15.

Genetic complexity in the replication-competent latent HIV reservoir increases with untreated infection duration in infected youth. Brumme ZL, Sudderuddin H, Ziemniak C, Luzuriaga K, Jones BR, Joy JB, Cunningham CK, Greenough T, Persaud D. AIDS. 2019 Feb 1;33(2):211-218. doi: 10.1097/QAD.0000000000002045.

Expression of human inducible nitric oxide synthase in response to cytokines is regulated by hypoxia-inducible factor-1. Lee M, Wang C, Jin SW, Labrecque MP, Beischlag TV, Brockman MA, Choy JC. Free Radic Biol Med. 2019 Jan;130:278-287. doi: 10.1016/j.freeradbiomed.2018.10.441. Epub 2018 Nov 2.

Genotypic and Mechanistic Characterization of Subtype-Specific HIV Adaptation to Host Cellular Immunity. Kinloch NN, Lee GQ, Carlson JM, Jin SW, Brumme CJ, Byakwaga H, Muzoora C, Bwana MB, Cobarrubias KD, Hunt PW, Martin JN, Carrington M, Bangsberg DR, Harrigan PR, Brockman MA, Brumme ZL. J Virol. 2018 Dec 10;93(1):e01502-18. doi: 10.1128/JVI.01502-18. Print 2019 Jan 1.

Implications of HIV-1 Nef for "Shock and Kill" Strategies to Eliminate Latent Viral Reservoirs. Kuang XT, Brockman MA. Viruses. 2018 Nov 30;10(12):677. doi: 10.3390/v10120677.

Dual HLA B*42 and B*81-reactive T cell receptors recognize more diverse HIV-1 Gag escape variants. Ogunshola F, Anmole G, Miller RL, Goering E, Nkosi T, Muema D, Mann J, Ismail N, Chopera D, Ndung'u T, Brockman MA, Ndhlovu ZM. Nat Commun. 2018 Nov 27;9(1):5023. doi: 10.1038/s41467-018-07209-7.

Phylogenetic approach to recover integration dates of latent HIV sequences within-host. Jones BR, Kinloch NN, Horacsek J, Ganase B, Harris M, Harrigan PR, Jones RB, Brockman MA, Joy JB, Poon AFY, Brumme ZL. Proc Natl Acad Sci U S A. 2018 Sep 18;115(38):E8958-E8967. doi: 10.1073/pnas.1802028115. Epub 2018 Sep 5.

HLA-C downregulation by HIV-1 adapts to host HLA genotype. Bachtel ND, Umviligihozo G, Pickering S, Mota TM, Liang H, Del Prete GQ, Chatterjee P, Lee GQ, Thomas R, Brockman MA, Neil S, Carrington M, Bwana B, Bangsberg DR, Martin JN, Kallas EG, Donini CS, Cerqueira NB, O'Doherty UT, Hahn BH, Jones RB, Brumme ZL, Nixon DF, Apps R. PLoS Pathog. 2018 Sep 4;14(9):e1007257. doi: 10.1371/journal.ppat.1007257. eCollection 2018 Sep.

Extensive host immune adaptation in a concentrated North American HIV epidemic. Brumme ZL, Kinloch NN, Sanche S, Wong A, Martin E, Cobarrubias KD, Sandstrom P, Levett PN, Harrigan PR, Joy JB. AIDS. 2018 Sep 10;32(14):1927-1938. doi: 10.1097/QAD.0000000000001912.

HIV-1 proviral landscapes distinguish posttreatment controllers from noncontrollers. Sharaf R, Lee GQ, Sun X, Etemad B, Aboukhater LM, Hu Z, Brumme ZL, Aga E, Bosch RJ, Wen Y, Namazi G, Gao C, Acosta EP, Gandhi RT, Jacobson JM, Skiest D, Margolis DM, Mitsuyasu R, Volberding P, Connick E, Kuritzkes DR, Lederman MM, Yu XG, Lichterfeld M, Li JZ. J Clin Invest. 2018 Aug 31;128(9):4074-4085. doi: 10.1172/JCI120549. Epub 2018 Aug 20.

Pol-Driven Replicative Capacity Impacts Disease Progression in HIV-1 Subtype C Infection. Ojwach DBA, MacMillan D, Reddy T, Novitsky V, Brumme ZL, Brockman MA, Ndung'u T, Mann JK. J Virol. 2018 Sep 12;92(19):e00811-18. doi: 10.1128/JVI.00811-18. Print 2018 Oct 1.

Identification of Novel HIV-1 Latency-Reversing Agents from a Library of Marine Natural Products. Richard K, Williams DE, de Silva ED, Brockman MA, Brumme ZL, Andersen RJ, Tietjen I. Viruses. 2018 Jun 27;10(7):348. doi: 10.3390/v10070348.

Novel HLA class I associations with HIV-1 control in a unique genetically admixed population. Valenzuela-Ponce H, Alva-Hernández S, Garrido-Rodríguez D, Soto-Nava M, García-Téllez T, Escamilla-Gómez T, García-Morales C, Quiroz-Morales VS, Tapia-Trejo D, Del Arenal-Sánchez S, Prado-Galbarro FJ, Hernández-Juan R, Rodríguez-Aguirre E, Murakami-Ogasawara A, Mejía-Villatoro C, Escobar-Urias IY, Pinzón-Meza R, Pascale JM, Zaldivar Y, Porras-Cortés G, Quant-Durán C, Lorenzana I, Meza RI, Palou EY, Manzanero M, Cedillos RA, Aláez C, Brockman MA, Harrigan PR, Brumme CJ, Brumme ZL, Ávila-Ríos S, Reyes-Terán G; Mesoamerican HIV Project Group. Sci Rep. 2018 Apr 17;8(1):6111. doi: 10.1038/s41598-018-23849-7.

Inhibition of NF-κB-dependent HIV-1 replication by the marine natural product bengamide A. Tietjen I, Williams DE, Read S, Kuang XT, Mwimanzi P, Wilhelm E, Markle T, Kinloch NN, Naphen CN, Tenney K, Mesplède T, Wainberg MA, Crews P, Bell B, Andersen RJ, Brumme ZL, Brockman MA. Antiviral Res. 2018 Apr;152:94-103. doi: 10.1016/j.antiviral.2018.02.017. Epub 2018 Feb 22.

Killer cell immunoglobulin-like receptor 3DL1 variation modifies HLA-B*57 protection against HIV-1. Martin MP, Naranbhai V, Shea PR, Qi Y, Ramsuran V, Vince N, Gao X, Thomas R, Brumme ZL, Carlson JM, Wolinsky SM, Goedert JJ, Walker BD, Segal FP, Deeks SG, Haas DW, Migueles SA, Connors M, Michael N, Fellay J, Gostick E, Llewellyn-Lacey S, Price DA, Lafont BA, Pymm P, Saunders PM, Widjaja J, Wong SC, Vivian JP, Rossjohn J, Brooks AG, Carrington M. J Clin Invest. 2018 May 1;128(5):1903-1912. doi: 10.1172/JCI98463. Epub 2018 Apr 3.

High Levels of Dual-Class Drug Resistance in HIV-Infected Children Failing First-Line Antiretroviral Therapy in Southern Ethiopia. Tadesse BT, Kinloch NN, Baraki B, Lapointe HR, Cobarrubias KD, Brockman MA, Brumme CJ, Foster BA, Jerene D, Makonnen E, Aklillu E, Brumme ZL. Viruses. 2018 Feb 1;10(2):60. doi: 10.3390/v10020060.

Weaker HLA Footprints on HIV in the Unique and Highly Genetically Admixed Host Population of Mexico. Soto-Nava M, Avila-Ríos S, Valenzuela-Ponce H, García-Morales C, Carlson JM, Tapia-Trejo D, Garrido-Rodriguez D, Alva-Hernández SN, García-Tellez TA, Murakami-Ogasawara A; International HIV Adaptation Collaborative; Mallal SA, John M, Brockman MA, Brumme CJ, Brumme ZL, Reyes-Teran G; HIV MexNet Group. J Virol. 2018 Jan 2;92(2):e01128-17. doi: 10.1128/JVI.01128-17. Print 2018 Jan 15.

The Croton megalobotrys Müll Arg. traditional medicine in HIV/AIDS management: Documentation of patient use, in vitro activation of latent HIV-1 provirus, and isolation of active phorbol esters. Tietjen I, Ngwenya BN, Fotso G, Williams DE, Simonambango S, Ngadjui BT, Andersen RJ, Brockman MA, Brumme ZL, Andrae-Marobela K. J Ethnopharmacol. 2018 Jan 30;211:267-277. doi: 10.1016/j.jep.2017.09.038. Epub 2017 Sep 29. PMID: 28970153