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. 2012 Jun 7;7(6):e38793. doi: 10.1371/journal.pone.0038793

Figure 3. Evolution of atpA and atpA-like genes in bacteria.

Figure 3

The phylogenetic tree was inferred from the amino acid sequences of ATPase alpha subunits encoded by atpA and atpA-like genes. Multiple alignment was generated with MUSCLE. The phylogenetic tree was generated by the ML method. Branches corresponding to Type 1, Type 1′, Type 2 and Type 3 proteins were supported by 96–100% bootstrap values. The ML, NJ, MP and ME methods generated trees with similar topologies, except alternative branching of N-ATPases using NJ or ME (indicated by a star). Main bacterial groups are indicated. Proteins from mollicutes are named by their mnemonics, others by the species name. See Table S2 for details.