About the Project

Ester Sabino, MD PhD Principal Investigator

Clinical Diagnostics

Director of the Institute of Tropical Medicine of the University of Sao Paulo Medical School. Prof. Sabino will coordinate all the activities in Brazil. Her laboratory will be responsible for virus sequencing and virus discovery. Together with Prof. Faria, she will oversee all the activities of the program.

Nuno Faria, MSc PhD Principal Investigator

Genomics, Epidemiology and Cartography

Reader in Virus Evolution at the MRC Centre for Global Infectious Disease Analysis, Imperial College London, Associate Professor at the Department of Zoology, University of Oxford, and Visiting Professor at the Institute of Tropical Medicine, University of Sao Paulo Medical School. He will coordinate all the UK teams and lead the integration of genomic, geographic, and epidemiological data. Together with Prof. Sabino, Prof. Faria will oversee all the activities of the program.

Nicholas Loman, MB PhD Co-Principal Investigator

Genomics and metagenomics

Professor of Microbial Genomics and Bioinformatics at the University of Birmingham and lead investigator on the ZiBRA project between 2016-2017. He has a world-class track record of pathogen sequencing and bioinformatics method development. Prof. Loman will be responsible for the molecular biology, sequencing and bioinformatics method development components of CADDE.

Oliver Pybus, DPhil Co-Principal Investigator

Genomics, Epidemiology & Evolution

Professor of Evolution & Infectious Disease at the Department of Zoology, University of Oxford. He is co-Director of the Oxford Martin School Programme on Pandemic Genomics and Chief Editor of the journal Virus Evolution. He will co-lead virus genomic analysis and the integration of genomic, geographic, and epidemiology data streams.

Mauricio L. Nogueira, MD PhD Co-Principal Investigator

Arbovirology and Genomics

Professor of the Medical School at the Faculty of Medicine of São José do Rio Preto. He has established a population cohort to understand arbovirus infection supported by FAPESP and National Institute of Health. His team will be coordinating arbovirus genomic sequencing and validating (meta)genomic approaches in São José do Rio Preto.

Maria Anice Sallum, MD PhD Co-Principal Investigator

Vector Taxonomy

Professor at the Public Health School of the University of São Paulo with long experience  in the field of entomology. She will oversee the mosquito detection work with Dr Adriano Pinter and Dr. Renato de Souza. Her team will collect and analyse mosquitos in key regions of São Paulo State.

Anna Sara Levin, MD PhD Co-Principal Investigator

Clinical Epidemiology

Professor at the Department of Infectious and Parasitic Diseases at the Faculty of Medicine of the University of São Paulo, and coordinator of the group of hospital infection control in the Hospital das Clinicas of the Faculty of Medicine of the University of São Paulo. Prof. Levin was the coordinator of the Yellow Fever clinical trial (SOFFA) and will oversee the clinical epidemiological studies related to yellow fever virus infection in São Paulo state.

Renato Aguiar, PhD Co-Principal Investigator

Viral Genomics and Clinical Virology

Prof. Aguiar is a Professor at the Departamento de Genética, Ecologia e Evolução da Universidade Federal de Minas Gerais (UFMG), and he is also an Associate Professor do Departamento de Genética da Universidade Federal do Rio de Janeiro. He has experience in the area of ​​Genetics, Cellular Biology and Microbiology in connection with Molecular Virology, focusing on projects that guarantee molecular interactions between viral and cellular factors and their role in viral pathogenesis. Prof. Aguiar has experience in epigenetics, regulation of genetics and genetics in viral models and the development of new antiviral agents. He works with HIV, HCV, SIV, Dengue, Chikungunya, Oropouche, Zika, Febre Amarela and most recently Mayaro, and has been a scientific consultant in research projects applied to HIV / AIDS in partnership with the Center of Disease Control (CDC, USA) and UFRJ in Moçambique and Angola.

Philippe Mayaud, MD PhD Co-Principal Investigator

Epidemiology

Professor of Infectious Diseases & Reproductive Health of the London School of Hygiene & Tropical Medicine, Faculty of Infectious & Tropical Diseases; and the Head of the HIV Research Programme at the MCR/UVRI & LSHTM Research unit in Uganda, which he joined in 2019. He has worked in French Guiana and Dominica for four years. A clinician turned epidemiologist, Philippe has a particular interest in HIV/AIDS and sexually transmitted infections (STI), and conducts several research projects in arbovirus epidemiology research in Brazil and China. Philippe holds honorary positions as a Visiting Professor at the Institute of Tropical Medicine of the University of Sao Paulo Medical School and the University of Witwatersrand in South Africa.

Vivian Silva, MD PhD Co-Principal Investigator

Clinical Epidemiology

Medical Research Supervisor at the Department of Infectious and Parasitic Diseases, USP Medical School and coordinator of the ZIKAlliance projects at the University of São Paulo. She will supervise the clinical epidemiology studies related to Zika, yellow fever and chikungunya virus infection.

Renato Souza, PhD Co-Principal Investigator

Virology and Entomology

Researcher at the Instituto Adolfo Lutz, São Paulo State Public Health Laboratory. Dr. Renato will be responsible for coordinating metadata and occurrence data for ongoing epidemics of yellow fever, Chikungunya, Zika and dengue. He will analyze the data in collaboration with the LSHTM and the Oxford teams.

Neal Alexander, PhD Co-Principal Investigator

Epidemiology

Professor of Medical Statistics and Epidemiology at the London School of Hygiene and Tropical Medicine. He is based in Cali, Colombia, where he leads the Epidemiology and Biostatistics Unit of the Centro Internacional de Entrenamiento e Investigaciones Médicas (CIDEIM). He has had a leading role in the design and analysis of multiple cluster-randomized trials of interventions against the mosquito vectors of dengue. He is the theme leader for methodology in the UK Medical Research Council Tropical Epidemiology Group at LSHTM, and a member of the World Health Organization Vector Control Advisory Group (VCAG).

Adriano Pinter, PhD Co-Principal Investigator

Public health surveillance

Scientific Director of the Superentendencia de Controle de Endemias (SUCEN), the Public Health Institution responsible for the control of endemic infectious disease in São Paulo State. During the Yellow fever epidemic he developed a geography model to define and guide priorities in vaccination across São Paulo State.

Marcelo Urbano Ferreira, MD PhD Co-Principal Investigator

Spatial and Digital Epidemiology, Precision Public Health

Dr Ferreira graduated in medicine from the University of São Paulo, with a master’s and PhD in Parasitology. His research is focussed on Parasitology, Human Parasite Protozoology, acting on the following subjects: malaria, plasmodium falciparum, epidemiologia, diversidade antigenica and genetica de populacoes.

Josh Quick, PhD

Genomics & Metagenomics

UKRI Future Leaders Fellow developing methods for rapid AMR prediction at the Institute of Microbiology and Infection, University of Birmingham, United Kingdom. Josh has developed several genomic protocols for the ZiBRA project, and he has been working closely with the Loman Labs, the CADDE project and the ARTIC network to develop rapid metagenomic approaches for pathogen discovery.

Charlys da Costa, Pharm. D, PhD

Viral Metagenomics and Virus Discovery

Postdoctoral researcher at the Institute of Tropical Medicine, of the University of Sao Paulo Medical School, supported by FAPESP. Charlys is interested in viral metagenomics and virus discovery. Charlys conducts whole genomic sequencing of samples collected in several cohorts, and he conducts viral metagenomic sequencing for cases with unknown etiology.

Oliver Brady, DPhil

Epidemiology

Assistant Professor and Sir Henry Wellcome Fellow at the London School of Hygiene and Tropical Medicine. Dr. Brady’s research focuses on the global spatial distribution, spread and burden of mosquito-transmitted diseases using modern epidemiological mapping and modelling approaches. He has been a key member of large dengue (International Research Consortium on Dengue Risk Assessment, Management and Surveillance) and Zika (ZIKAlliance) EU-funded projects and works closely with Ministries of Health in South America and Asia. His involvement in CADDE will see the development of models fit to real-time surveillance data to predict the spatial spread of new epidemics.

Kath O’Reilly, PhD

Epidemiology

Dr. Kath O’Reilly is an Assistant Professor at the London School of Hygiene and Tropical Medicine. Dr O’Reilly is an epidemiologist who specialises in the use of statistical and mathematical models to assist in the development of control strategies for infectious diseases. She is particularly interested in viral diseases that are being targeted for elimination and eradication. Ongoing research includes application of modelling to polio eradication and vector-borne diseases such as Zika and dengue virus. Kath will be analysing epidemiological surveillance data from within CADDE and working with colleagues to understand and anticipate transmission of arboviruses.

Janey Messina, PhD Co-Principal Investigator

Genomics Epidemiology & Cartography

Dr. Messina is currently an Associate Professor at the School of Geography and the Environment. She has a BA from the University of California, Los Angeles, an MS from the University of Illinois at Urbana-Champaign, and a PhD from the University of North Carolina – Chapel Hill. Her doctoral research focused on the geography and epidemiology of HIV, malaria, and anaemia in the Democratic Republic of Congo. Janey has been a senior postdoctoral researcher with the Spatial Epidemiology and Ecology Group in the Department of Zoology, University of Oxford. She coordinated the group’s contribution to the International Research Consortium on Dengue Risk Assessment, Management and Surveillance, focusing her research on global patterns and drivers of dengue virus transmission, as well as potential changes in the landscape and epidemiology of the disease resulting from factors such as urbanisation, climate change and economic shifts.

Moritz Kraemer, PhD

Spatial dynamics and epidemiology

Dr Moritz Kraemer investigates the spatial dynamics of infectious diseases and their vectors. He mostly applies and develops mechanistic stochastic modelling frameworks in order to understand their invasion process. His aim is to integrate genetic data in such analyses.

Nelson da Cruz Gouveia MD, PhD, MSc

Public Health and Preventive Medicine

Nelson Gouveia has a degree in Medicine (1986) from the Federal University of São Paulo, Brazil and an MSc in Epidemiology (1993) and a PhD in Public Health (1998) from the London School of Hygiene and Tropical Medicine of the University of London, UK. He is currently Professor at the Department of Preventive Medicine of the University of São Paulo Medical School where he teachs basic epidemiologic methods to graduate medical students and environmental epidemiology to post-graduate students. His research interests includes a wide variety of environmental exposures and its health effects such as ambient air pollution and climate change, and the utilization of geographic information systems (GIS) for exposure modeling in environmental epidemiology. He is also interested in the application of results from epidemiologic studies in the public health policy arena. (Source: Lattes Curriculum)

Izabel Oliva Marcilio de Souza, PhD

Epidemiological Surveillance

Sanitary doctor, PhD in Sciences by the Department of Preventive Medicine, Faculty of Medicine, University of São Paulo (FMUSP). Coordinator of the Epidemiological Surveillance Center at Hospital das Clínicas, USP Medical School. Collaborating professor in the discipline of Epidemiology in the undergraduate course in Medicine and in the multidisciplinary residency in Public Health in that same Department.

Julien Thézé, PhD

Computational Virology

Leonardo Bastos, PhD

Epidemiology and Statistics

Dr. Bastos has a Ph.D. in Statistics from FioCRUZ Rio de Janeiro and he is currently a research fellow at the Department of Infectious Disease Epidemiology and Faculty of Epidemiology and Population Health at the London School of Hygiene and Tropical Medicine.

Andreza De Souza Santos, MA, PhD

Participatory Politics, Inequalities and Local Governments

Dr Andreza de Souza Santos has a PhD in Social Anthropology from the University of St Andrews, and is currently a Director of the Brazilian Studies Programme at Oxford University; part of the Latin American Centre with research interests including participatory politics, inequalities and local governments. Dr De Souza Santos is collaborating with CADDE looking at local government responses to the COVID-19 Pandemic in Brazil.

Lewis Buss, MB

Clinical Epidemiology, Statistics and Primary Care

Dr Lewis Buss has a distinction in medicine from the University of Cambridge and University College London, and is currently doing a master’s degree in the Department of Preventive Medicine at the Faculty of Medicine, University of São Paulo. His main interests are clinical epidemiology, biostatistics and primary care.

Sarah Hill, DPhil

Genomic Epidemiology and Metagenomics

Postdoctoral researcher at the Faria lab, at the Department of Zoology, University of Oxford. Dr. Hill studies a variety of systems, including the evolution and dynamics of viruses in wild animal populations, and virus transmission within social networks. Dr. Hill will contribute to the development and application of new techniques to integrate virus genetic data with traditional clinical and demographic data. Sarah is coordinating the activities related with whole-genome sequencing of yellow fever virus from human, non-human primates and different vector species in Brazil.

Mariana Cunha, PhD

Molecular Biology and Molecular Surveillance

Scientific Researcher at the Center of Virology, Instutito Adolfo Lutz. Dr. Cunha graduated in Veterinary Medicine and Zootechnology at the University of Sao Paulo (USP). She specialized in Animal Health, Food and Environmental Security at the Instituto de Biociencias-USP and completed her PhD in Experimental Pathology at FMVZ-UPS. Currently she is a Scientific Researcher III in the Center of Vector-Borne Diseases at the Center of Virology, Instutito Adolfo Lutz.

Jaqueline Goes de Jesus, PhD

Genomic Epidemiology using ONT

Postdoctoral researcher with Prof. Sabino, at the Institute of Tropical Medicine of the University of Sao Paulo Medical School. Dr. Goes de Jesus has a BSc in Biomedicine by the Bahia School of Medicine and Public Health, a MSc Biotechnology in Health and Research Medicine from the Foundation Oswaldo Cruz, and a PhD in Human Experimental Pathology in the Federal University of Bahia. Dr. Goes de Jesus develops research in the field of emergent arboviruses such as Zika, dengue, and yellow fever, and conducted an internship at the Loman Lab, University of Birmingham, United Kingdom. She will oversee CADDE sequencing activities in São Paulo.

William Marciel de Souza, PhD

Genomic epidemiology and metagenomics

Postdoctoral researcher with Prof. Figueiredo, at the Virology Center Research of Ribeirão Preto Medical School, University of São Paulo. Dr. de Souza has a BSc in Biomedicine by the Universidade do Oeste de Santa Catarina, and a MSc and a PhD by the University of São Paulo. He did a PhD internship at the MRC-University of Glasgow Centre for Virus Research, United Kingdom. He is a member of the International Committee of Taxonomy of Viruses, Peribunyaviridae Study Group, with extensive experience in virology. Currently, Dr. de Souza is working on prospective, genomic and evolutionary studies of emerging and re-emerging zoonotic viruses at the Faria lab.

Andre Luis Acosta, PhD

Spatial and ecological analysis

Postdoctoral Researcher at the team of Prof. Maria Anice Sallum at the Public Health School of the University of São Paulo. Dr. Acosta was previously based at the Centre for Research in Biodiversity and Computation, University of Sao Paulo, and at the Global Health group at the University of Sao Paulo. Dr. Acosta completed his BSc in Biology from the Universidade Estadual Paulista, a MSc in Biodiversity by the University of Porto and a PhD in Ecology at the University of Sao Paulo.

Poliana Lemos, PhD

Entomology

Postdoctoral researcher in the team of Prof. Maria Anice Sallum, Public Health School of the University of São Paulo. Dr. Lemos was previously based at the Center for Technological Innovations of the Evandro Chagas Institute, Para State, Brazil. Dr. Lemos research interests include virology, genetics, medical entomology, molecular entomology, NGS, mosquito cytogenetics, ecology of aquatic Insects and disease vectors. Dr. Lemos is co-supervised by Prof.  Maria Anice Sallum.

Ingra Morales, MSc PhD Candidate

Nanopore Metagenomics

Ingra is conducting a PhD at the Institute of Tropical Medicine of the University of Sao Paulo Medical School. She graduated from Biomedicine at the Federal University of Alfenas, Minas Gerais, and has extensive experience in real-time, rapid detection and NGS sequencing of arboviruses in Brazil. Together with the Loman Lab, University of Birmingham, United Kingdom, she is working on the development of a new protocol for arboviral rapid detection using nanopore sequencing.

Darlan da Silva Candido, MSc DPhil Candidate

Genomic Epidemiology and Metagenomics

Darlan is interested in phylogenetics and phylogeography tools to recreate and understand the determinants of viral outbreaks and how this information can be translated into public policy recommendations. More specifically, his research focuses on recent arboviral outbreaks in Latin America (Zika, chikungunya, dengue and yellow fever viruses), combining genetic, spatial and ecological information. Darlan’s research is supported by the Oxford University Clarendon Fund and the Department of Zoology. He is currently a DPhil candidate at the Faria lab.

Sabrina Li, MSc DPhil candidate

Cartography and Geography

Sabrina is a DPhil student based in the School of Geography and the Environment. She is interested in investigating the interactions between mosquitoes, humans, non-human primates, and the environment on yellow fever spread in Brazil using mapping and spatial modeling. She is currently a DPhil candidate with Prof. Pybus and Prof. Messina.

Carlos Prete

FAPESP

Carlos is a PhD student focused on the development of techniques for processing acoustic emission signals for structural monitoring of aircraft. This work is carried out in conjunction with Embraer.

Flávia Salles

Infectious Disease and Public Health