Figure 1. A photograph of a red P. leopardus (by Qian Zhou).
Figure 2. Genome size estimation and assembly. (a) Graph ofk -mer frequency distribution (k = 17) generated from 127.36 Gb sequencing data of P. leopardus . The highest peak at coverage 66× corresponds to the homozygous peak. The minor peak at coverage 35× corresponds to the heterozygous peak. The minor peak at coverage 138× corresponds to duplications. The illustrations of the lines are marked in the graph. (b) The Hi-C contact map of the P. leopardus genome. The color bar shows the contact density from white (low) to red (high).
Figure 3. Comparisons of the predicted gene models betweenP. leopardus genome and other teleost species. (a) mRNA length. (b) CDS length. (c) Exon length. (d) Intron length. (e) Exon number.
Figure 4. Phylogenetic tree constructed using 4134 single copy orthologues among the selected teleost, with 500 bootstraps. The estimated divergent time (Mya, million years ago) and the 95% confidential intervals were labeled at each branch. The red dots indicate the divergent time used for re-calibrations.
Figure 5. Comparative genomic analyses of P. leopardus with two grouper species, E. lanceolatusand E. akaara) . (a) Chromosomal collinearity betweenP. leopardus and E. lanceolatus. The colorful bars (Chr1-24) and the green bars (I-IIXIV) indicate each of the 24 chromosomes in P. leopardus and E. lanceolatus , respectively. (b) Venn diagram of the genes from the three grouper species. (c) Gene family expansion and contraction. (d) The enrichment of KEGG annotations with the expanded gene families in P. leopardus (p < 0.05).