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Fig. 2 | BMC Microbiology

Fig. 2

From: Carbohydrate metabolic systems present on genomic islands are lost and gained in Vibrio parahaemolyticus

Fig. 2

Phylogenetic analysis of a. GalM, b. MFS, and c. SGLT. Homologues of GalM, SGLT and MFS proteins from members of the Vibrionaceae were obtained from the NCBI genome database. The evolutionary history of each protein was inferred using the Neighbor-Joining method [26]. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1000 replicates) are shown next to the branches [27]. Each tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Dayhoff matrix based method [28] and are in the units of the number of amino acid substitutions per site. The rate variation among sites was modeled with a gamma distribution (shape parameter = 5). All ambiguous positions were removed for each sequence pair (pairwise deletion option). Evolutionary analyses were conducted in MEGA X [29]

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