Figure 2.

Phylogeny of ssrA-GI integrase, DsiB. (A) Grey-scale similarity 'barcode' representation (black is identical sites) of pairwise global alignment (Needleman-Wunsch, free end-gaps) between a representative DsiB [DhcVS_1282, Genbank: ACZ62382], and CcrB1 of Staphylococcus aureus [Genbank: ADC39978]. Key domains of CcrB1 are annotated below the alignment, and traced in black if they are also detected in DhcVS_1282 by the conserved domain database search [84] incorporated in PSI-BLAST [85]. (B) Maximum Likelihood tree of the putative integrases encoded on Dehalococcoides ssrA-GIs, DsiB, as well as key integrases involved in mobility of SCCmec in Staphylococcus aureus [64] (unless otherwise noted). The clade of integrase sequences found on vcr-GIs are shaded in blue. Nodes with 100% bootstrap support are bolded with a filled circle. CisA of Clostridium acetobutylicum ATCC 824 is rooted as an outgroup, as in [86]. The following abbreviations are used to label CcrA, CcrB, or CcrC from bacteria other than S. aureus: 'Lys spha' - Lysinibacillus sphaericus C3-41; 'Clost perf' - Clostridium perfringens C str. JGS1495; 'Macca' - Macrococcus caseolyticus [86].

McMurdie et al. BMC Genomics 2011 12:287   doi:10.1186/1471-2164-12-287
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