About the Authors

John Kiiru

Contributed equally to this work with: John Kiiru, Ankur Mutreja

Affiliation Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya

Ankur Mutreja

Contributed equally to this work with: John Kiiru, Ankur Mutreja

Affiliation Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom

Ahmed Abade Mohamed

Affiliation Centers for Disease Control and Prevention, Nairobi, Kenya

Racheal W. Kimani

Affiliation Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya

Joyce Mwituria

Affiliation Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya

Robert Onsare Sanaya

Affiliation Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya

Jane Muyodi

Affiliation Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya

Gunturu Revathi

Affiliation Division of Microbiology, Department of Pathology, Aga Khan University Hospital, Nairobi, Kenya

Julian Parkhill

Affiliation Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom

Nicholas Thomson

Affiliation Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom

Gordon Dougan

Affiliation Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom

Samuel Kariuki

skariuki@kemri.org

Affiliations Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya, Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: SK JNK AM AAM. Performed the experiments: RWK J. Mwituria ROS J. Muyodi. Analyzed the data: SK AM GR NT GD JP. Contributed reagents/materials/analysis tools: SK GD. Wrote the manuscript: SK JNK AM NT GD.