Phylogenetic and recombination analysis of 284 HSP70h gene fragments sampled from three Brazilian orange trees. (A) Largely recombination free maximum likelihood phylogeny of 252 HSP70h gene fragment sequences. Sequences sampled from trees C3, C5 and C6 are represented by blue, green and red dots respectively. Multiple dots on particular branches represent identical sequences. Whereas branches with more than 75% bootstrap support are labeled with filled black diamonds, those with between 50 and 74% support are labeled with unfilled black diamonds. Sequence lineages H1, H2, and H3 are indicated. (B) The mosaic structures of obviously recombinant sequences excluded from the phylogenetic analysis. The mosaics are colour coded according to the main sequence lineages from which they have probably been derived. Coloured dots beside the schematic representations of the recombinant sequences represent the numbers and origins of recombinant sequences sharing similar mosaics. (C) The relative population representation of different major HSP70h lineages identified in A.