Skip to Navigation Skip to Content Skip to Footer

Microbiology Logo Microbiology & Immunology
Te Tari Moromoroiti me te Ārai Mate

Professor Miguel Quiñones-Mateu

Research interests:

Viral evolution, HIV, SARS-CoV-2/COVID-19, Drug Resistance, Drug Discovery, Novel Methodologies

Current research:

My research group is interested in (i) understanding the mechanisms and clinical consequences of drug resistant viruses, such as transmission and pathogenicity studies, using a series of tools, including next generation (deep) sequencing technology and (ii) studying latently HIV-infected cells aimed to evaluate novel strategies -drug discovery- to eradicate HIV infection. 


Screen Shot 2020 04 07 at 12.45.00 AM

Quiñones-Mateu Lab March 2020

 Current group members


Prof. Miguel Quiñones-Mateu
Principal Investigator
Office: +64 3 479 7703


Blair Lawley2 Rhodri Harfoot Leanor Hernandez2  
Dr Blair Lawley - Assistant Research Fellow Above the Bar Dr Rhodri Harfoot - Postdoctoral Fellow Dr Leonor C. Hernández - Laboratory Manager  

 Postgraduate Students

Becks Hall Placeholder male Joanna Kuang  
Rebecca Hall - MSc Student

Atlesh Nand Sudhakar - MSc Student

Joanna Kuang - MSc Student  
 Francesca Hills  Margot Allais  Mathilda Saunders  
Francesca Hills - BBiomedSci (Hons) Student  Margot Allais - BSc (Hons) Student  Mathilda Saunders - BSc (Hons) Student  


  • Florence Patlong (4th Year Honours Student) 2019  



View Prof Quiñones-Mateu on PubMed

View Prof Quiñones-Mateu on Google Scholar


Poon, A.F.Y., Ndashimye, E., Avino, M., Gibson, R.M., Kityo, C., Kyeyune, F., Nankya, I., Quiñones-Mateu M.E., and Arts, E.J. (2019). First-line HIV treatment failures in non-B subtypes and recombinants: a cross-sectional analysis of multiple populations in Uganda.  AIDS Research and Therapy, 16:3


Silver, N., Paynter, M., McAllister, G., Atchley, M., Sayir, C., Short, J., Winner, D., Alouani, D.J., Sharkey, F.H., Bergefall, K., Templeton, K., Carrington, D., and Quiñones-Mateu, M.E.* (2018).  Characterization of minority drug resistant HIV-1 variants in the United Kingdom following the verification of a deep sequencing-based HIV-1 genotyping and tropism assay. AIDS Research and Therapy, 15:18

Yendewa, G.A., Poveda, E., Yendewa, S.A., Sahr, F., Quiñones-Mateu, M.E, and Salata, R.A. (2018).  HIV/AIDS in Sierra Leone: characterizing the hidden epidemic. AIDS Reviews, 20:104-113

Ndashimye, E., Avino, M., Kyeyune, F., Nankya, I., Gibson, R.M., Nabulime, E., Poon, A.F.Y., Kityo, C., Mugyenyi, P., Quiñones-Mateu M.E., and Arts, E.J. (2018). Absence of HIV-1 drug resistance mutations supports the use of dolutegravir in Uganda.  AIDS Research and Human Retroviruses, 34:404-414

Tomas, M.E., Mana, T.S.C., Wilson, B.M., Nerandzic, M.M., Joussef-Piña, S., Quiñones-Mateu, M.E., and Donskey, C.J. (2018). Tapering courses of oral vancomycin induce persistent disruption of the microbiota that provide colonization resistance to Clostridium difficile and vancomycin-resistant enterococci in mice. Antimicrobial Agents and Chemotherapy, 62:e02237-17

Kanwar, A., Marshall, S.H., Perez, F., Tomas, M., Jacobs, M.R., Hujer, A.M., Domitrovic, T.N., Rudin, S.D., Rojas, L.J., Kreiswirth, B.N., Chen, L., Quiñones-Mateu, M.E., van Duin, D., Bonomo, R.A., for the Antibacterial Resistance Leadership Group. (2018). Emergence of resistance to colistin during the treatment of bloodstream infection caused by Klebsiella pneumoniae carbapenemase-producing Klebsiella pneumoniae. Open Forum Infectious Diseases, 5:ofy054


Gibson, R.M., Nickel, G., Crawford, M., Kyeyune, F., Venner, C., Nankya, I., Nabulime, E., Ndashimye, E., Poon, A.J.F., Salata, R.A., Kityo, C., Mugyenyi, P., Quiñones-Mateu M.E., and Arts, E.J. (2017). Sensitive detection of HIV-1 resistance to zidovudine and impact on treatment outcomes in low- to middle-income countries.  Infectious Diseases of Poverty, 6:163

Orrú, C.D., Yuan, J., Appleby, B.S., Li, B., Li, Y., Winner, D., Wang, Z., Zhan, Y., Rodgers, M., Rarick, J., Wyza, R.E., Joshi, T., Wang, G., Cohen, M.L., Zhang, S., Groveman, B.R., Petersen R.B., Ironside J.W., Quiñones-Mateu M.E., Safar, J.G., Kong, Q., Caughey, B., and Zou, W-E. (2017). Prion seeding activity and infectivity in skin samples from patients with sporadic Creutzfeldt-Jacob disease. Science Translational Medicine, 9, eaam7785

Brenner, B.G., Ibanescu, R-I., Oliveira, M., Roger, M., Hardy, I., Routy, J-P, Kyeyune, F., Quiñones-Mateu M.E., and Wainberg, M.A and Montreal PHI Cohort Study Group. (2017). Human immunodeficiency virus type 1 strains belonging to large phylogenetic clusters show accelerated escape from integrase inhibitors in cell culture than viral isolates from singleton/small clusters.  Journal of Antimicrobial Chemotherapy, 72:2171-2183

Weber, J. Gibson, R.M., Sácká, L., Strunin, D., Hodek, J., Weberová, J., Pávová, M., Alouani, D.J., Asaad, R., Rodriguez, B., Lederman, M.M., and Quiñones-Mateu, M.E.* (2017).  Impaired human immunodeficiency virus type 1 replicative fitness in atypical viremic non-progressor individuals. AIDS Research and Therapy, 14:15

Aralaguppe, S.G., Winner, D., Singh, K., Sarafianos, S.G., Quiñones-Mateu M.E., Sonnerborg, A., and Neogi, U. (2017). Increased replication capacity following evolution of PYxE insertion in Gag-p6 associated is associated with enhanced virulence in HIV-1 subtype C from east Africa. Journal of Medical Virology, 89:106-111


Li, Q., Karim, A.F., Ding, X., Das, B., Dobrowolski, C., Gibson, R.M., Quiñones-Mateu M.E., Karn, J., and Rojas, R.E. (2016). Novel high throughput pooled shRNA screening identifies NQO1 as a potential drug target for host directed therapy for tuberculosis. Scientific Reports, 6:27566

Kyeyune, F., Gibson, R.M., Nankya, I., Venner, C., Metha, S., Akao, J., Ndashimye, E., Kityo, C.M., Salata, R.A., Mugyenyi, P., Arts, E.J., and Quiñones-Mateu M.E.* (2016). Low-frequency drug resistance in HIV-infected Ugandans on antiretroviral treatment is associated with regimen failure.  Antimicrobial Agents and Chemotherapy, 60:3380-3397


Virk, S.M., Gibson, R.M., Quiñones-Mateu M.E.*, and Barnholtz-Sloan, J.S., (2015). Identification of variants in primary and recurrent glioblastoma using a cancer-specific gene panel and whole exome sequencing. PLoS ONE, 10:e0124178


Gibson, R.M., Weber, J., Winner, D., Miller, M.D., and Quiñones-Mateu M.E.* (2014). Contribution of human immunodeficiency virus type 1 minority variants to reduced drug susceptibility in patients on an integrase strand transfer inhibitor-based therapy. PLoS ONE, 9:e104512

Quiñones-Mateu M.E.*, Avila, S., Reyes-Teran, G., and Martinez, M.A. (2014). Next-generation sequencing: becoming a critical tool in clinical virology? Journal of Clinical Virology, 61:9-19

Rodriguez, A.K., Garzaro, D.J., Loureiro, C.L., Gutierrez, C.R., Ameli, G., Jaspe, R.C., Porto, L., Monsalve, F., Pozada, A., Vasquez, L., Quiñones-Mateu M.E., Pujol, F.H., and Rangel, H.R. (2014). HIV-1 and GBV-C co-infection in Venezuela.  Journal of Infection in Developing Countries, 8:863-868

Gibson, R.M., Meyer, A.M., Winner, D., Archer, J., Feyertag, F., Ruiz-Mateos, E., Leal, M., Robertson, D.L., Schmotzer, C.L., and Quiñones-Mateu M.E.* (2014). Sensitive Deep Sequencing-based HIV-1 Genotyping Assay to Simultaneously Determine Susceptibility to Protease, Reverse Transcriptase, Integrase, and Maturation Inhibitors, as well as HIV-1 Coreceptor Tropism.  Antimicrobial Agents and Chemotherapy, 58:2167-2185

Gibson, R.M., Schmotzer, C.L., and Quiñones-Mateu M.E.* (2014). Next-generation sequencing to help monitor patients infected with HIV: ready for clinical use?  Current Infectious Disease Reports, 16:401-410

Quiñones-Mateu M.E.* & Endris V. (2014). The sequencing continuum for clinical research: from Sanger to Next Gen [Science Webinar Series].  Science, 343:1159


Weber, J., Rose, J.D., Vazquez, A.C., Winner, D., Margot, N.A., McColl, D.J., Miller, M.D., and Quiñones-Mateu M.E.* (2013). Resistance mutations outside the integrase coding region have an effect on human immunodeficiency virus replicative fitness but do not affect its susceptibility to integrase strand transfer inhibitors.  PLoS ONE, 8:e65631

Weber, J., Vazquez, A.C., Winner, D., Gibson, R., Rhea, A.M., Rose, J.D., Wylie, D., Henry, K., Wright, A., King, K., Archer, J., Poveda, E., Soriano, V., Robertson, D.L., Olivo, P.D., Arts, E.J., and Quiñones-Mateu M.E.* (2013). Sensitive cell-based assay to determine human immunodeficiency virus type 1 coreceptor tropism Journal of Clinical Microbiology, 51:1517-1527


Archer, J., Weber, J., Henry, K., Winner, D., Gibson, R., Lee, L., Paxinos, E., Arts, E.J., Robertson, D.L., Mimms, L., and Quiñones-Mateu M.E.* (2012). Use of four next-generation sequencing platforms to determine HIV-1 coreceptor tropism. PLoS ONE, 7:e49602

Tebit, D.M., Ndembi, N., Weinberg, A., and Quiñones-Mateu M.E.* (2012). Mucosal transmission of human immunodeficiency virus.  Current HIV Research, 10:3-8

Quiñones-Mateu M.E.*, and Vanham, G. (2012). HIV microbicides: where are we now? (Editorial).  Current HIV Research, 10:1-2


Weber, J., Vazquez, A.C, Winner, D. Rose, J.D., Wylie, D., Rhea, A., Henry, K., Pappas, J., Wright, A., Mohamed, N., Gibson, R., Rodriguez, B., Soriano, V., King, K., Arts, E.J., Olivo, P.D., and Quiñones-Mateu M.E.* (2011). Novel method for simultaneous quantification of phenotypic resistance to maturation, protease, reverse transcriptase, and integrase inhibitors based on 3’Gag(p2/p7/p1/p6)/PR/RT/INT-recombinant viruses: a useful tool in the multi-target era of antiretroviral therapy.  Antimicrobial Agents and Chemotherapy, 55:3729-3742 (PMCID: PMC3147656)

Selhorst P., Vazquez A.C., Terrazas-Aranda, K., Michiels, J., Vereecken, K., Heyndrickx, L., Weber, J., Quiñones-Mateu M.E., Arien, K.K., and Vanham, G. (2011). Human immunodeficiency virus type 1 (cross-) resistance to non-nucleoside reverse transcriptase inhibitors currently under development as microbicides. Antimicrobial Agents and Chemotherapy, 55:1403-1413 (PMCID: PMC3067143)

Jegede O., Khodyakova A., Chernov M., Weber, J., Menendez-Arias, L., Gudkov A., and Quiñones-Mateu M.E.* (2011).  Identification of low-molecular weight inhibitors of HIV-1 reverse transcriptase using a cell-based high-throughput screening system.  Antiviral Research, 91:94-98 (PMCID: PMC3144253)

Quiñones-Mateu M.E.* and Schols, D. (2011). Virus-inhibitory peptide: a natural HIV entry inhibitor in search for a formal target in the viral genome (Editorial comment) AIDS, 25:1663-1664