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Supplemental Information

Supplemental Information, Figures and Tables

DOI: 10.7287/peerj.preprints.636v1/supp-1

Meta data of Strains in sample set

DOI: 10.7287/peerj.preprints.636v1/supp-2

Gene Ontology (GO) and functions for core genes in sample set, under positive selection

DOI: 10.7287/peerj.preprints.636v1/supp-3

Gene Ontology (GO) and functions of core-genes influenced by recombination in the sample set

DOI: 10.7287/peerj.preprints.636v1/supp-4

Additional Information

Competing Interests

Sophie Mukwana is an employee of Biotech Forensics, Kenya. Richard F Selden and Rosemary S. Turingan are employees of NetBio, Waltham, USA.

Author Contributions

Matthew N. Ezewudo conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Sandeep Joseph performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Santiago Castillo-Ramirez contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Deborah Dean contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Carlos Del Rio contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Xavier Didelot contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Jo-Anne Dillon analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Richard F Selden contributed reagents/materials/analysis tools, reviewed drafts of the paper.

William M. Shafer analyzed the data, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Rosemary S. Turingan contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Magnus Unemo analyzed the data, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Timothy D. Read conceived and designed the experiments, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

DNA Deposition

The following information was supplied regarding the deposition of DNA sequences:

NCBI: Accession Numbers: ATKL00000000 - ATRM00000000

Funding

This work was supported by National Institutes of Allergy and Infectious Diseases (NIAD) grant AI09768 (RFS, DD and TDR), and NIH grants R37 AI021150-29 (W.M.S.) and R43 AI097688 (T.D.R., D.D. and R.F. S.) and a VA Merit Award from the Medical Research Service of the Department of Veterans Affairs. W.M.S. was supported by a Senior Research Career Scientist Award from the VA Medical Research Service of the Department of Veterans Affairs. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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