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Mitochondrial DNA B Resour
2021 Apr 22;64:1406-1408. doi: 10.1080/23802359.2021.1911706.
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The first complete mitochondrial genome of the Northern Pacific deep-sea goniasterid sea star Ceramaster japonicus (Sladen, 1889) determined using NGS-based shotgun sequencing.
Yamamoto M
,
Hiruta SF
,
Arai M
,
Shimizu M
,
Mah CL
,
Fujita T
,
Setiamarga DHE
.
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The full mitogenome of an ethanol-preserved museum specimen of Ceramaster japonicus was determined using the NGS Illumina MiSeq platform. The specimen was collected from Tosa Bay, Japan, facing the Pacific Ocean (33.0781 N 134.0601 E), at 700 m depth in 2011. The mitogenome shows a typical metazoan genomic structure, with all of the 37 genes included in its 16,370 base-long mitogenome. We conducted phylogenetic analyses using a data set including 18 publicly available asteroids rooted against five ophiuroids as outgroups. The result confirms the position of C. japonicus in the order Valvatida. The complete mitogenome of C. japonicus reported here is the first reported for the family Goniasteridae Forbes, 1841.
Figure 1. The maximum likelihood (ML) phylogenetic tree showing the position of Ceramaster japonicus with bootstrap supports (%) shown as ML/neighbor joining (NJ). Obtained NJ tree showed a congruent topology (not shown). Phylogenetic analyses were conducted on the data matrix (10,911 positions) including all concatenated nucleotide sequences of the mitogenomes except the third codon positions. Gene sequences were aligned individually using the online version of MAFFT under default settings (Katoh and Standley 2013). Aligned sequences were individually edited using the online version of GBlocks using the least stringent settings (Castresana 2000). Partitioned ML analyses (four partitions: 1st codon, 2nd codon, rRNA, tRNA) were performed with RAxML-GUI ver. 1-5b1 (Silvestro and Michalak 2012; Stamatakis 2014), with the GTR + Γ nucleotide substitution model (Yang 1994). The rapid bootstrap analyses were conducted with 1000 replications, with four threads running in parallel. NJ analyses were conducted using MEGA X (Kumar et al. 2018), under the Maximum Composite Likelihood substitution model, GTR nucleotide substitution rate, and 50% cutoff for each site with 1000 bootstrap replications.
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