Fig. 2

Phylogenetic tree generated from the 390 study isolates’ assemblies. Inner squares represent the presence of amino acid changes in (from inner to outer) penicillin-binding protein (PBP) 1a, PBP2b and PBP2x protein sequences described in the Comprehensive Antibiotic Resistance Database (CARD) to provide non-susceptibility to penicillin. Filled squares represent the presence of all described mutations for PBP1a and PBP2b, and > 4 of the 7 mutations described for PBP2x in CARD. Empty squares depict < 4 PBP2x mutations. Penicillin and amoxicillin susceptibilities are colour-coded (green for susceptible, orange for non-susceptible and red for resistant). Acquired resistance genes are depicted as coloured squares when present in the isolate, potentially conferring resistance to macrolides (brown, blue and purple squares), tetracycline (grey square) and aminoglycosides (light blue square). Outer circles represent serotype of the isolate and Global Pneumococcal Sequence Clusters (only GPSCs presenting > 3 isolates are shown). Finally, pink blocks indicate isolates belonging to the same ST and presenting with different serotypes. Serotype 15B/C was present across 8 STs and is highlighted in blue