NIHR Global Health Research Unit

Genomic Surveillance of Antimicrobial Resistance

Bridging genomics, microbiology and big data to tackle global Antimicrobial Resistance (AMR)

We are:

  • Building genomic surveillance capacity in low and middle-income countries
  • Growing a global network of labs with AMR expertise
  • Generating actionable data
  • Supporting public health programmes

Genomic Surveillance of Antimicrobial Resistance

We are targeting the most relevant pathogen-antibiotic combinations at each collaborating surveillance unit; analysing pathogen sequence data, basic anonymised patient information, and information about how samples were collected. Understanding the changing profile of antimicrobial resistance enables public health programmes to respond accordingly, locally, regionally and ultimately nationally.

Capacity Building

Laboratory Infrastructure: Implementing whole genome sequencing of pathogens at laboratories in LMICs.


Training: Providing workshops with the Wellcome Genome Campus Advanced Courses Programme.


Data Infrastructure: Analysis and interpretation through tools developed at the Centre for Genomic Pathogen Surveillance.

National Action

Linking genomic and epidemiological surveillance data at a national level, enabling more targeted interventions for infection control for identifying and managing AMR outbreaks once they have occurred and helping prevent further spread.

Global Open Data

Data generated by each national unit (collected across an extensive network of sentinel sites) will be shared with the international community.


We will share data as it becomes available through the open platforms PathogenWatch and Microreact developed by the Centre for Genomic Pathogen Surveillance, and through public sequence databases such as the ENA.

Structured Pathogen Surveys

Sequencing up to 10,000 targeted pathogen samples each year, to characterise populations of AMR bacteria, and understand how these are changing over time.

Our Background

Learn more about the GHRU, who we are, and what we’re doing to tackle antimicrobial resistance.

Our Locations

To achieve global surveillance, we’ve established units in the UK, Colombia, India, Nigeria and The Philippines.

  • Colombia
  • India
  • Philippines

  • Nigeria
  • UK

Our Partners

Prof. K.L. Ravikumar

Chief of Central Research Laboratory

KIMS Hospital and Research Centre, Bangalore


Established and leads a network of 125+ laboratories and hospitals in India. Developed molecular methods to identify and type S.pneumoniae and culture clinical samples. Infection Control Committee Chairman, Sentinel Surveillance Programme member and Advisory Board member on antimicrobial resistance

Dr. Celia Carlos


Research Institute for Tropical Medicine


Paediatric infectious disease specialist. Expanded sentinel sites in the Philippines. President of the Paediatric Infectious Disease Society, she founded the Alliance for Prudent Use of Antibiotics, and represented the Philippines to the World Health Organization, Global Salmonella Surveillance, and WHO Gonococcal Resistance Surveillance Programme in the Western Pacific.

Prof. Iruka Okeke

Professor of Pharmaceutical Microbiology

University of Ibadan


Consultant to the Nigerian Centre for Disease Control, Africa CDC, WHO and others. On the Surveillance and Epidemiology of Drug Resistant Infections Consortium advisory board of the Wellcome Trust. Researches antimicrobial resistance, molecular epidemiology, pathogenesis, E. coli, enteric bacteria, applications and uptake of microbiology in Africa; advocating antimicrobial resistance containment.

Dr Pilar Donado-Godoy

Lead Investigator

Colombian Agriculture Research Corporation


Public health veterinarian and epidemiologist. Founder of Colombia’s Programme for Integrated Surveillance of Antimicrobial Resistance – an international network establishing baselines for antimicrobial resistance of zoonotic bacteria. Works with the Pan American Health Organization of the WHO.

Dr John Stelling

Co-Director of WHONET

Brigham and Women’s Hospital, Boston


Dr. John Stelling is an infectious disease specialist in Boston, Massachusetts. He received his medical degree from Johns Hopkins Medical School and has a Master’s in Public Health from (MIT) Massachussett’s Institute of Technology. Dr. Stelling has been in practice for 29 years.

Prof. David Aanensen


Centre for Genomic Pathogen Surveillance


Senior Group Leader at Big Data Institute, University of Oxford. Within CGPS, provides data and tools for local and international utility, focusing on antimicrobial resistance and genomic surveillance. Examining pathogen surveys, David contextualises WGS datasets and population structure. He identifies important high-risk clones, risk assessment and management.

Meet Our Partners

Learn more about how we envisage developing and learning from our international collaboration.

The GHRU Consortium

The Centre for Genomic Pathogen Surveillance

David Aanensen

Lead PI Central Hub, and Director of The GHRU

Lucy Matkin

Project Manager

Ben Pascoe

Head of Laboratory Implementation

Emmanuelle Kumaran

Digital Epidemiologist

Paul Carvalho

GFGP Consultant

Natacha Couto

Consultant Bioinformatician

Ali Molloy

Independent Consultant

Anneke Schmider

Independent Consultant

Carolin Vegvari

Independent Consultant

The Centre for Genomic Pathogen Surveillance

Celia Carlos

Director, Philippines National Surveillance Unit

Sonia Sia

Head of the Antimicrobial Resistance Reference Laboratory

Elmer M. Herrera

Chief, Finance Division/Financial and Management Officer

Marietta Lagrada

Senior lab scientist / microbiologist

Polle K. Macaranas

Lab scientist / microbiologist

Agnettah M. Olorosa

Lab scientist / microbiologist

June Gayeta


Melissa Ana Masim


Karis Lee Del Castillo – Boehme

Project Coordinator

Laila Flores

PA to Dr Celia Carlos

The Centre for Genomic Pathogen Surveillance

K. L. Ravikumar

Director, India National Surveillance Unit

Geetha Nagaraj

Associate Professor / Project Coordinator

Varun Shammana

Senior Bioinformatician

Vandana Govindan


Muthumeenakshi Bhaskaran

Research Associate

Ravishankar K.N

Manager- Accounts

The University of Ibadan, College of Medicine

Iruka N Okeke

Co-Lead PI, NIHR GHRU, and Director, Nigeria National Surveillance Unit

Grace O. Oparinde

Lab scientist

Jolaade J Ajiboye

Project Coordinator / Admin Support

Ayodele Akinyele

Finance Officer / Admin Support

Elizabeth T Akande

Bioinformatician / PhD Student

El-shama Q Nwoko

Bioinformatician / PhD Student

Abeeb Adeniyi

Digital Epidemiologist

AGROSAVIA, Colombian Agriculture Research Corporation

María del Pilar Donado Godoy

Director, Colombia National Surveillance Unit

Johan Fabian Bernal Morales


Maria Fernanda Valencia Guerrero

Lab scientist / microbiologist

Erik Cristopher Dustin Osma Castro

Project and Finance Coordinator/Administrative Professional

Gabriel Beltrán


Xavier Fargetton

Strategic Development Expert

Felipe Delgadillo

Microbiologist and Biologist

Join Us

If you are interested in joining our network of sentinel sites for genomic surveillance of AMR, please contact us via details below.


Contact Details

NIHR Global Health Research Unit
Centre for Genomic Pathogen Surveillance
Old Road Campus,
University of Oxford
+44(0)1223 495356
[email protected]

Partner Institutions

KIMS Hospital and Research Centre, Bangalore

Research Institute for Tropical Medicine

University of Ibadan

Colombian Agriculture Research Corporation


Centre for Genomic Pathogen Surveillance



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