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Maximum likelihood phylogeny of 937 pneumococcal carriage isolates corresponding to Fig 3. Color ramps in legend designate SCs. Antigens include pspA, SP2194, SP0609, phtD, ply, pspC, rrgA/B/C (type 1 pilus islet), stkP, strH, nanA, zmpA, cbpE, hyl, eno, pepO, pavA, and GroEL. Accession numbers for antigen variants have been previously published [15].
