Nicholas Hathaway, MD, PhD
Assistant Professor
Medicine
School of Medicine

Publications (44)

Top publication keywords:
Protozoan ProteinsPlasmodiumTranslocation, GeneticAntimalarialsSulfadoxineAntigens, ProtozoanMalariaMalaria, VivaxCervix UteriPlasmodium vivaxPlasmodium falciparumHigh-Throughput Nucleotide SequencingDrug ResistanceHaplotypesMalaria, Falciparum

• Whole-genome characterization of Plasmodium falciparum population structure and drug resistance across Uganda and neighboring countries.
  bioRxiv : the preprint server for biology 2026 Kiyaga S, Mbabazi M, Katairo T, Asua V, Semakuba FD, Nsengimaana B, Tukwasibwe S, Wiringilimaana I, Nakasaanya J, Mulondo J, Watyekele E, Maiteki-Sebuguzi C, Kateete DP, Nabende JN, Jjingo D, Mboowa G…
• PfPHAST: Plasmodium falciparum Public Health Amplicon Sequencing Tool, a Streamlined Panel for Malaria Genomic Surveillance.
  bioRxiv : the preprint server for biology 2026 Semakuba FD, Nsengimaana B, Mbabazi M, Katairo T, Murie K, Hathaway N, Wiringilimaana I, Muwanika JV, Lum K, Davlieva M, Asua V, Kiyaga S, Tukwasibwe S, Nakasaanya J, Achom KB, Ayitewala A, Mulondo J,…
• Parasite strain turnover and mosquito infectivity in untreated subpatent malaria.
  The Journal of infectious diseases 2026 Muller JG, Ngasala BE, Sanders EA, Yang G, Young NW, Loya M, Crudale R, Simkin A, Hathaway N, Gaither C, Amagai K, Basham C, Lin FC, Dinglasan RR, Mathias DK, Rutha I, Tarimo BB, Juliano JJ, Bailey JA…
• Toward an Open Analysis Ecosystem for Plasmodium Genomic Epidemiology.
  The American journal of tropical medicine and hygiene 2026 Ruybal-Pesántez S, Amaya-Romero J, Bérubé S, Brazeau NF, Diop MF, Hathaway N, Hendry JA, McCann K, Murie K, Murphy M, Niaré K, Phelan J, Schaffner SF, Simkin A, Taylor AR, Greenhouse B, Wesolowski A, …
• Recurrent Plasmodium falciparum Parasitemia and Drug Resistance Mutations During Intermittent Preventive Treatment of Malaria in Pregnancy in Uganda.
  The Journal of infectious diseases 2026 Kizza J, Katairo T, Kakuru A, Nsengimaana B, Esilu T, Wiringilimaana I, Semakuba FD, Gerlovina I, Hathaway N, Briggs J, Tukwasibwe S, Kiwuwa SM, Kamya MR, Nankabirwa JI, Dorsey G, Rosenthal PJ

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• Sustained high prevalence of multiple antimalarial drug resistance markers in Uganda in 2023-2024.
  Antimicrobial agents and chemotherapy 2026 Katairo T, Asua V, Semakuba FD, Nsengimaana B, Kiyaga S, Hathaway N, Murie K, Tukwasibwe S, Wiringilimaana I, Nakasaanyaa J, Mwubaha C, Achom KB, Esilu TE, Ayitewalah A, Mbabazi M, Kabbale KD, Mulondo…
• The Portable Microhaplotype Object and Tools.
  bioRxiv : the preprint server for biology 2025 Hathaway NJ, Murie K, Murphy M, Simkin A, Amaya-Romero J, Hubbard A, Briggs J, Aranda-Díaz A, Early AM, Wesolowski A, Neafsey DE, Bailey JA, Greenhouse B
• Correction: Transmitted/founder (T/F) HIV-1 derived from sexual contact exhibits greater transmission fitness in human cervical tissue than T/F HIV-1 from blood-to-blood contact: Unique glycan profiles on T/F envelopes associated with transmission phenotypes.
  PLoS pathogens 2025 Zhang Y, Klein K, Ratcliff A, Galappaththi SL, Hathaway N, Twells N, Patel M, Temesy S, Bailey JA, Mahal LK, Creuzenet C, Arts EJ
• Evaluation of Plasmodium falciparum PSSP17 essentiality in human-to-mosquito transmission and its prospective candidacy as a biomarker.
  iScience 2025 López-Gutiérrez B, Hathaway N, Alonso-Palomares L, Nyasembe VO, Kato M, Hamerly T, Parr JB, Juliano JJ, Harbers M, Dinglasan RR
• Recurrent Plasmodium falciparum parasitemia and drug resistance mutations during intermittent preventive treatment of malaria in pregnancy in Uganda.
  medRxiv : the preprint server for health sciences 2025 Kizza J, Katairo T, Kakuru A, Nsengimaana B, Esilu T, Wiringilimaana I, Semakuba FD, Gerlovina I, Hathaway N, Briggs J, Tukwasibwe S, Kiwuwa SM, Kamya MR, Nankabirwa JI, Dorsey G, Rosenthal PJ
• Global risk of selection and spread of Plasmodium falciparum histidine-rich protein 2 and 3 gene deletions.
  Nature medicine 2025 Watson OJ, Tran TN, Zupko RJ, Symons T, Thomson R, Visser T, Rumisha S, Dzianach PA, Hathaway N, Kim I, Juliano JJ, Bailey JA, Slater H, Okell L, Gething P, Ghani A, Boni MF, Parr JB, Cunningham J
• Transmitted/founder (T/F) HIV-1 derived from sexual contact exhibits greater transmission fitness in human cervical tissue than T/F HIV-1 from blood-to-blood contact: Unique glycan profiles on T/F envelopes associated with transmission phenotypes.
  PLoS pathogens 2025 Zhang Y, Klein K, Ratcliff A, Galappaththi SL, Hathaway N, Twells N, Patel M, Temesy S, Bailey JA, Mahal LK, Creuzenet C, Arts EJ
• Towards an open analysis ecosystem for Plasmodium genomic epidemiology.
  medRxiv : the preprint server for health sciences 2025 Ruybal-Pesántez S, Amaya-Romero J, Bérubé S, Brazeau NF, Diop MF, Hathaway N, Hendry J, McCann K, Murie K, Murphy M, Niaré K, Phelan J, Schaffner SF, Simkin A, Taylor AR, Greenhouse B, Wesolowski A, …
• Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health.
  Scientific reports 2025 Aranda-Díaz A, Neubauer Vickers E, Murie K, Palmer B, Hathaway N, Gerlovina I, Boene S, García-Ulloa M, Cisteró P, Katairo T, Semakuba FD, Nsengimaana B, Gwarinda H, García-Fernández C, Louie W, …
• Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health.
  bioRxiv : the preprint server for biology 2025 Aranda-Díaz A, Vickers EN, Murie K, Palmer B, Hathaway N, Gerlovina I, Boene S, Garcia-Ulloa M, Cisteró P, Katairo T, Semakuba FD, Nsengimaana B, Gwarinda H, García-Fernández C, Louie W, Esayas E, Da …
• Interchromosomal segmental duplication drives translocation and loss of P. falciparum histidine-rich protein 3.
  eLife 2024 Hathaway NJ, Kim IE, WernsmanYoung N, Hui ST, Crudale R, Liang EY, Nixon CP, Giesbrecht D, Juliano JJ, Parr JB, Bailey JA
• Genomic epidemiology demonstrates spatially clustered, local transmission of Plasmodium falciparum in forest-going populations in southern Lao PDR.
  PLoS pathogens 2024 Chen YA, Vickers EN, Aranda-Diaz A, Murphy M, Gerlovina I, Rerolle F, Dantzer E, Hongvanthong B, Chang HH, Lover AA, Hathaway NJ, Bennett A, Greenhouse B
• Global risk of selection and spread of Plasmodium falciparum histidine-rich protein 2 and 3 gene deletions.
  medRxiv : the preprint server for health sciences 2024 Watson OJ, Tran TN, Zupko RJ, Symons T, Thomson R, Visser T, Rumisha S, Dzianach PA, Hathaway N, Kim I, Juliano JJ, Bailey JA, Slater H, Okell L, Gething P, Ghani A, Boni MF, Parr JB, Cunningham J
• Delayed referral for liver transplant evaluation worsens outcomes in chronic liver disease patients requiring inpatient transplant evaluation.
  World journal of transplantation 2023 Cooper KM, Colletta A, Hathaway NJ, Liu D, Gonzalez D, Talat A, Barry C, Krishnarao A, Mehta S, Movahedi B, Martins PN, Devuni D
• Targeted and whole-genome sequencing reveal a north-south divide in P. falciparum drug resistance markers and genetic structure in Mozambique.
  Communications biology 2023 da Silva C, Boene S, Datta D, Rovira-Vallbona E, Aranda-Díaz A, Cisteró P, Hathaway N, Tessema S, Chidimatembue A, Matambisso G, Nhama A, Macete E, Pujol A, Nhamussua L, Galatas B, Guinovart C, Enosse…
• Amplicon Sequencing as a Potential Surveillance Tool for Complexity of Infection and Drug Resistance Markers in Plasmodium falciparum Asymptomatic Infections.
  The Journal of infectious diseases 2022 Wamae K, Kimenyi KM, Osoti V, de Laurent ZR, Ndwiga L, Kharabora O, Hathaway NJ, Bailey JA, Juliano JJ, Bejon P, Ochola-Oyier LI
• Hypnozoite depletion in successive Plasmodium vivax relapses.
  PLoS neglected tropical diseases 2022 Noviyanti R, Carey-Ewend K, Trianty L, Parobek C, Puspitasari AM, Balasubramanian S, Park Z, Hathaway N, Utami RAS, Soebianto S, Jeny J, Yudhaputri F, Perkasa A, Coutrier FN, Tirta YK, Ekawati L, …
• Characterization of triatomine bloodmeal sources using direct Sanger sequencing and amplicon deep sequencing methods.
  Scientific reports 2022 Balasubramanian S, Curtis-Robles R, Chirra B, Auckland LD, Mai A, Bocanegra-Garcia V, Clark P, Clark W, Cottingham M, Fleurie G, Johnson CD, Metz RP, Wang S, Hathaway NJ, Bailey JA, Hamer GL, Hamer SA
• Sensitive, Highly Multiplexed Sequencing of Microhaplotypes From the Plasmodium falciparum Heterozygome.
  The Journal of infectious diseases 2022 Tessema SK, Hathaway NJ, Teyssier NB, Murphy M, Chen A, Aydemir O, Duarte EM, Simone W, Colborn J, Saute F, Crawford E, Aide P, Bailey JA, Greenhouse B
• Plasmodium falciparum is evolving to escape malaria rapid diagnostic tests in Ethiopia.
  Nature microbiology 2021 Feleke SM, Reichert EN, Mohammed H, Brhane BG, Mekete K, Mamo H, Petros B, Solomon H, Abate E, Hennelly C, Denton M, Keeler C, Hathaway NJ, Juliano JJ, Bailey JA, Rogier E, Cunningham J, Aydemir O, …
• A novel CRISPR-based malaria diagnostic capable of Plasmodium detection, species differentiation, and drug-resistance genotyping.
  EBioMedicine 2021 Cunningham CH, Hennelly CM, Lin JT, Ubalee R, Boyce RM, Mulogo EM, Hathaway N, Thwai KL, Phanzu F, Kalonji A, Mwandagalirwa K, Tshefu A, Juliano JJ, Parr JB
• Deep Gene Sequence Cluster Analyses of Multi-Virus-Infected Mucosal Tissue Reveal Enhanced Transmission of Acute HIV-1.
  Journal of virology 2021 Klein K, Nankya I, Nickel G, Ratcliff AN, Meadows AAJ, Hathaway N, Bailey JA, Stieh DJ, Cheeseman HM, Carias AM, Lobritz MA, Mann JFS, Gao Y, Hope TJ, Shattock RJ, Arts EJ
• Plasmodium falciparum DHFR and DHPS Mutations Are Associated With HIV-1 Co-Infection and a Novel DHPS Mutation I504T Is Identified in Western Kenya.
  Frontiers in cellular and infection microbiology 2020 Torrevillas BK, Garrison SM, McKeeken AJ, Patel D, Van Leuven JT, Dizon NI, Rivas KI, Hathaway NJ, Bailey JA, Waitumbi JN, Kifude CM, Oyieko J, Stewart VA, Luckhart S
• Sex-based differences in clearance of chronic Plasmodium falciparum infection.
  eLife 2020 Briggs J, Teyssier N, Nankabirwa JI, Rek J, Jagannathan P, Arinaitwe E, Bousema T, Drakeley C, Murray M, Crawford E, Hathaway N, Staedke SG, Smith D, Rosenthal PJ, Kamya M, Dorsey G, Rodriguez-…
• The impact of antimalarial resistance on the genetic structure of Plasmodium falciparum in the DRC.
  Nature communications 2020 Verity R, Aydemir O, Brazeau NF, Watson OJ, Hathaway NJ, Mwandagalirwa MK, Marsh PW, Thwai K, Fulton T, Denton M, Morgan AP, Parr JB, Tumwebaze PK, Conrad M, Rosenthal PJ, Ishengoma DS, Ngondi J, …
• Antimalarial Drug Resistance Profiling of Plasmodium falciparum Infections in Ghana Using Molecular Inversion Probes and Next-Generation Sequencing.
  Antimicrobial agents and chemotherapy 2020 Mensah BA, Aydemir O, Myers-Hansen JL, Opoku M, Hathaway NJ, Marsh PW, Anto F, Bailey J, Abuaku B, Ghansah A
• Efficient Transmission of Mixed Plasmodium falciparum/vivax Infections From Humans to Mosquitoes.
  The Journal of infectious diseases 2020 Balasubramanian S, Rahman RS, Lon C, Parobek C, Ubalee R, Hathaway N, Kuntawunginn W, My M, Vy D, Saxe J, Lanteri C, Lin FC, Spring M, Meshnick SR, Juliano JJ, Saunders DL, Lin JT
• Pooled Deep Sequencing of Drug Resistance Loci from Plasmodium falciparum Parasites across Ethiopia.
  The American journal of tropical medicine and hygiene 2019 Brazeau NF, Assefa A, Mohammed H, Seme H, Tsadik AG, Parr JB, Keeler C, Hathaway NJ, Meshnick SR, Bailey JA, Kassa M, Juliano JJ, Woyessa A
• SeekDeep: single-base resolution de novo clustering for amplicon deep sequencing.
  Nucleic acids research 2018 Hathaway NJ, Parobek CM, Juliano JJ, Bailey JA
• Plasmodium falciparum genetic variation of var2csa in the Democratic Republic of the Congo.
  Malaria journal 2018 Verity R, Hathaway NJ, Waltmann A, Doctor SM, Watson OJ, Patel JC, Mwandagalirwa K, Tshefu AK, Bailey JA, Ghani AC, Juliano JJ, Meshnick SR
• Matched Placental and Circulating Plasmodium falciparum Parasites are Genetically Homologous at the var2csa ID1-DBL2X Locus by Deep Sequencing.
  The American journal of tropical medicine and hygiene 2018 Waltmann A, Patel JC, Thwai KL, Hathaway NJ, Parobek CM, Massougbodji A, Fievet N, Bailey JA, Deloron P, Juliano JJ, Ndam NT, Meshnick SR
• A deep sequencing approach to estimate Plasmodium falciparum complexity of infection (COI) and explore apical membrane antigen 1 diversity.
  Malaria journal 2017 Miller RH, Hathaway NJ, Kharabora O, Mwandagalirwa K, Tshefu A, Meshnick SR, Taylor SM, Juliano JJ, Stewart VA, Bailey JA
• Increased risk of low birth weight in women with placental malaria associated with P. falciparum VAR2CSA clade.
  Scientific reports 2017 Patel JC, Hathaway NJ, Parobek CM, Thwai KL, Madanitsa M, Khairallah C, Kalilani-Phiri L, Mwapasa V, Massougbodji A, Fievet N, Bailey JA, Ter Kuile FO, Deloron P, Engel SM, Taylor SM, Juliano JJ, …
• Surveillance for sulfadoxine-pyrimethamine resistant malaria parasites in the Lake and Southern Zones, Tanzania, using pooling and next-generation sequencing.
  Malaria journal 2017 Ngondi JM, Ishengoma DS, Doctor SM, Thwai KL, Keeler C, Mkude S, Munishi OM, Willilo RA, Lalji S, Kaspar N, Kitojo C, Paxton LA, Hathaway NJ, Bailey JA, Juliano JJ, Meshnick SR, Gutman J
• Longitudinal Pooled Deep Sequencing of the Plasmodium vivax K12 Kelch Gene in Cambodia Reveals a Lack of Selection by Artemisinin.
  The American journal of tropical medicine and hygiene 2016 Brazeau NF, Hathaway N, Parobek CM, Lin JT, Bailey JA, Lon C, Saunders DL, Juliano JJ
• A deep sequencing tool for partitioning clearance rates following antimalarial treatment in polyclonal infections.
  Evolution, medicine, and public health 2016 Mideo N, Bailey JA, Hathaway NJ, Ngasala B, Saunders DL, Lon C, Kharabora O, Jamnik A, Balasubramanian S, Björkman A, Mårtensson A, Meshnick SR, Read AF, Juliano JJ
• Variation in the Microbiota of Ixodes Ticks with Regard to Geography, Species, and Sex.
  Applied and environmental microbiology 2015 Van Treuren W, Ponnusamy L, Brinkerhoff RJ, Gonzalez A, Parobek CM, Juliano JJ, Andreadis TG, Falco RC, Ziegler LB, Hathaway N, Keeler C, Emch M, Bailey JA, Roe RM, Apperson CS, Knight R, Meshnick SR
• Using Amplicon Deep Sequencing to Detect Genetic Signatures of Plasmodium vivax Relapse.
  The Journal of infectious diseases 2015 Lin JT, Hathaway NJ, Saunders DL, Lon C, Balasubramanian S, Kharabora O, Gosi P, Sriwichai S, Kartchner L, Chuor CM, Satharath P, Lanteri C, Bailey JA, Juliano JJ
• Differing patterns of selection and geospatial genetic diversity within two leading Plasmodium vivax candidate vaccine antigens.
  PLoS neglected tropical diseases 2014 Parobek CM, Bailey JA, Hathaway NJ, Socheat D, Rogers WO, Juliano JJ