Publications​

Whole-genome sequencing of human and porcine Escherichia coli isolates on a commercial pig farm in South Africa

Enteric fever surveillance report, South Africa, 2020-2023.

Genomic Evaluation of Multidrug-Resistant Extended-Spectrumβ‑Lactamase (ESBL)-Producing Escherichia coli from Irrigation Water and Fresh Produce in South Africa: A Cross-Sectional Analysis

Detection of the epidemic Pseudomonas aeruginosa AUST-03 (ST 242) strain in people with cystic fibrosis in South Africa

Epidemiology and antimicrobial resistance profiles of pathogenic Escherichia coli from commercial swine and poultry abattoirs and farms in South Africa: A one health approach

SARS-CoV-2 Molecular Evolutionary Dynamics in the Greater Accra Region, Ghana

Harnessing genomics for antimicrobial resistance surveillance 3 - Genomics for public health and international surveillance of antimicrobial resistance

Unlocking the Potential of Genomic Data to Inform Typhoid Fever Control Policy: Supportive Resources for Genomic Data Generation, Analysis, and Visualization

Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 Salmonella Typhi genomes

Antibiotic profiles and draft genome sequences of Kerstersia gyiorium, Providencia stuartii, Providencia vermicola, and Alcaligenes faecalis strain recovered from soft tissue biopsy samples in Ghana

NDM-1- and OXA-23-producing Acinetobacter baumannii in wastewater of a Nigerian hospital.

High Genetic Diversity of Carbapenem-Resistant Acinetobacter baumannii Isolates Recovered in Nigerian Hospitals in 2016 to 2020

Imported cholera cases, South Africa

Enteric fever cluster identification in South Africa using genomic surveillance of Salmonella enterica serovar Typhi

Extended-Spectrum B-Lactamase-producing Escherichia coli among humans, beef cattle, and abattoir environments in Nigeria. Front Cell Infect Microbiol.

Antimicrobial resistance and genomic analysis of staphylococci isolated from livestock and farm attendants in Northern Ghana

Clinical severity of Omicron sub-lineage BA.2 compared to BA.1 in South Africa

The evolving SARS-CoV-2 epidemic in Africa - Insights from rapidly expanding genomic surveillance

Neutralizing antibody activity against 21 SARS-CoV-2 variants in older adults vaccinated with BNT162b2.

Emergence and phenotypic characterisation of the global SARS-CoV-2 C.1.2 lineage. Nat Com.

The evolving SARS-CoV-2 epidemic in Africa - Insights from rapidly expanding genomic surveillance. Continued Emergence and Evolution of Omicron in South Africa: New BA.4 and BA.5 lineages

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in Southern Africa. Nat.

Clinical severity of Omicron sub-lineage BA.2 compared to BA.1 in South Africa

Antimicrobial Susceptibility and Genomic profiling of Salmonella enterica from bloodstream infections at a tertiary referral hospital in Lusaka, Zambia, 2018-2019. IJID Regions.
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Genomic epidemiology of SARS-CoV-2 in Mauritius reveals a new wave of infections dominated by the B.1.1.318, a variant under investigation. (Preprint)

Emergence of Vibrio cholerae O1 Sequence Type 75, South Africa, 2018-2020

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa. Science.