Fig 1.
Morphological characteristics of U. flexuosa.
Fig 2.
Evolutionary relationships of taxa from Ulva based on the rbcL gene.
Fig 3.
Evolutionary relationships of taxa from Ulva based on the tufA gene.
Fig 4.
Schematic representation of the U. flexuosa chloroplast genome using OGDRAW.
The predicted genes are shown and colors represent functional classifications, which are shown at the left bottom. The genes drawn outside the circle are transcribed counterclockwise. The inner circle shows the GC content. IR regions are not found according to Gepard-1.40 analysis.
Table 1.
Genes predicted in the chloroplast genome of U. flexuosa.
Table 2.
Distribution of tri-, tetra-, penta- and sex- nucleotide SSR loci in the chloroplast genome of U. flexuosa.
Table 3.
Distributions of SSRs in the 11 chloroplast genomes belonging to Ulvophyceae.
Table 4.
Repeat sequences identified in the chloroplast genome of U. flexuosa.
Fig 5.
Bayesian 50% majority rule consensus tree based on 24 nucleotide sequences of 68 strains representing the Chlorophyta.
The 24 genes were atpA, atpB, atpE, atpF, petB, petD, petG, psaB, psbB, psbD, psbE, psbF, psbH, psbJ, psbK, psbL, psbN, rbcL, rpl2, rpl20, rpl36, rpoA, rps8 and ycf3. The main parameters were: ngen = 2000000, samplefreq = 100, nchains = 4, nst = 6, rates = gamma. The Bayesian posterior probabilities were given at the nodes. The tree was rooted to Pyropia yezoensis.
Fig 6.
Mauve alignments of U. flexuosa cpDNA (top of alignment) with those of 9 chlorophytes.
Fig 7.
Comparative genomic analyses of 12 chloroplast genomes.
The chloroplast genome of U. flexuosa was aligned with those of 12 species. Each horizontal black line represents a genome. The species names are shown next to the corresponding line. The conserved regions are bridged by lines.
Fig 8.
Molecular phylogenetic analysis of Ulva genus.
The tree was constructed with the sequences of 67 coding genes present in all five species (U. flexuosa, U. fasciata, U. linza, Ulva sp. and Monomastix sp.) using the Maximum Likelihood method. Monomastix sp. was used as outgroup. Bootstrap supports were calculated from 1000 replicates.
Fig 9.
Comparison of selection forces (Ka/Ks) of the 67 common protein-coding genes in three-species matrix.