Figure 10. A comparison of scaffolds in the X. bocki genome with other Metazoa.
17 of the 18 large scaffolds in the X. bocki genome are linked via synteny to distinct chromosomal scaffolds in these species.
Figure 10—figure supplement 1. Conservation of metazoan synteny and methylation in X. bocki.
(a) A summary plot of synteny between major scaffolds in the X. bocki genome assembly and early branching highly contiguous metazoan genome assemblies: Euphydatia muelleri, Trichoplax adhearens, Branchiostoma floridae, Saccoglossus kowalevskii, Ciona intestinalis, Nematostella vectensis, Asteria rubens, Pecten maximus, Nemopilema nomurai, and Carcinoscorpius rotundicauda. All but one of the chromosome-sized scaffolds in our assembly have at least one syntenic match in the each of the other species (see the main text for one-to-one plots with key species and a description of the aberrant scaffold). We performed the same analysis with amphioxus as the focal species as a proof of principle (inset). (b) Analysis of methylation on the largest scaffold in the X. bocki genome assembly. One scaffold with a deviant gene age and synteny structure (see the main text) also stands out in terms of methylation. A detailed analysis of methylation patterns across the genome and classes of genes will be published separately.
Figure 10—figure supplement 2. Intergenomic comparison of X. bocki and E. muelleri highlighting synteny connections between the aberrant scaffold c1896 and scaffolds across the sponge genome.
