Fig. 6
Comparison of S. tridacnidorum and S. natans genomes. a Mapping rate of filtered read pairs generated for each species against the assembled genomes of itself and of the counterpart: S. tridacnidorum (St) versus S. natans (Sn). b Top ten most abundant protein domains recovered, sorted in decreasing relative abundance (from bottom to top) among proteins of St (left) and those of Sn (right). The abundance for each domain in both genomes is shown in each chart for comparison. Domains common among the top ten most abundant for both species are connected with a line between the charts. ‘MORN’: MORN repeat, ‘RCC1’: Regulator of chromosome condensation repeat, ‘RVT’: reverse transcriptase, ‘DUF’: domain of unknown function, ‘PPR’: pentatricopeptide repeat, ‘EFH’: EF-hand, ‘IonTr’: ion transporter, ‘Pkin’: protein kinase, ‘Ank’: ankyrin repeat, ‘DNAmet’: C-5 cytosine-specific DNA methylase. c Contribution of genomic features to the distinct composition of S. tridacnidorum and S. natans genomes, based on the ratio (Δ) of the total length of the implicated sequence region in S. tridacnidorum to the equivalent length in S. natans, shown in log2 scale. The ratio of the estimated genome sizes is shown as reference (marked with a dashed line). The untransformed Δ for each feature is shown in its corresponding bar. A genome feature with Δ greater than the reference likely contributed to the discrepancy of genome sizes. Bars are coloured based on the genome in which they are more abundant as shown in the legend. Pseudogenes are not included in this plot. d Volcano plot comparing gene-family sizes against Fisher’s exact test significance (p value). The colour of the circles indicates the species in which those gene families are larger according to the top-right legend; families recovered only in one genome but not in the other are not shown. The number of gene families with the same ratio and significance is represented with the circle size following the bottom-right legend. Filled circles represent size differences that are considered statistically significant (adjusted p ≤ 0.05)