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Abstract
Mitogenome of female Ruditapes philippinarum organism was sequenced, and genomic variation and phylogeny were examined in this study. Length of the mitogenome was 22 089 bp showing 94.28% of sequence identity with previously reported sequence. Total 707 single nucleotide polymorphisms, SNPs, were detected and 50 residues were non-synonymous SNPs among the 202 SNPs in protein-coding genes. Deleted genomic fragments with of 265 bp and 322 bp were observed in non-coding regions, ND2 to ND4L and ND4L to tRNAIle, respectively. Phylogenic analysis confirmed that used organisms were female R. philippinarum, and the species has closer evolutionary distance with genus Paphia rather than genus Meretrix. Our finding will be help to set an insight for population and evolutionary genomics of Veneroida clams as well as application to marine industry.
Declaration of interest
The authors declare that there are no conflicts of interest. This research was funded by a grant from the National Fisheries Research and Development Institute (NFRDI; contribution number RF-2015-BT-008). The views expressed herein are those of the authors and do not necessarily reflect the views of NFRDI. And present study was also supported by a grant from Marine Biotechnology Program (PJT200620, Genome Analysis of Marine Organisms and Development of Functional Applications) funded by Ministry of Oceans and Fisheries, and 2013 Research Grant (Project No. C1010348-01-01) from Kangwon National University, Republic of Korea.
Supplementary material available online Supplementary Table 1.