Additional file 2: Figure S1. of Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events

Prevalence of isolates representing CC5, CC22 and CC30 between 2001 and 2010. Shown as % of S. aureus isolates in each year. Error bars show 95% confidence intervals. Figure S2 (A, B). Unrooted maximum likelihood tree of S. aureus isolates belonging to CC22 (A) or CC30 (B). Both lineages were composed predominantly of EMRSA isolates; red branches show clades representing the EMRSA-15 (A) and EMRSA-16 (B) clones. Figure S3. Relationship between the probability of MGE carriage and the root-to-tip distance in MRSA CC22 isolates. Curve based on prediction from logistic regression model. Figure S4. Annual macrolide prescription items in England between 2001 and 2010. A prescription item refers to a single item prescribed on a prescription form. Copyright NHSBSA 2013. This information is licenced under the terms of the Open Government Licence: http://www.nationalarchives.gov.uk/doc/open-government-licence/version/3 . Figure S5. Prevalence of P1-ermC carriage and erythromycin resistance in MRSA CC22 isolates between 2001 and 2010. Shown as % of MRSA CC22 isolates in each year. Figure S6. Median of pairwise SNP distances between MRSA CC22 isolates each year between 2001 and 2010. (DOCX 1420 kb)