Fig. 4
Evolutionary relationships of taxa and phylogenetic tree for 16S rRNA gene sequences of PHA-producing Bacillus sp. LPPI-18 (ON678114). The evolutionary history was inferred by using the maximum likelihood method based on the Kimura 2-parameter model [27]. The tree with the highest log likelihood is shown. The percentage of trees in which the associated taxa clustered together is shown next to the branches. Initial tree(s) for the heuristic search were obtained automatically by applying neighbor-joining and BioNJ algorithms to a matrix of pairwise distances estimated using the maximum composite likelihood (MCL) approach, and then selecting the topology with superior log likelihood value. The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. The analysis involved 24 nucleotide sequences. Selected codon positions were 1st+2nd+3rd+Noncoding. All positions with less than 95% site coverage were eliminated. That is, fewer than 5% alignment gaps, missing data, and ambiguous bases were allowed at any position. There were a total of 1384 positions in the final dataset. Evolutionary analyses were conducted in MEGA 7.0.21 [28]. The replication of confidence values was 1000 bootstrap (percentage of 1000 replication). Bar, 0.01 substitutions per nucleotide position. Micrococcus luteus DSM 20030T (AJ536198.1) was designated and used as outgroup in the analyses; other related sequences were obtained from EzTaxon-e server