Tracing Homopolymers in <i>Oikopleura dioica</i>'s Mitogenome
Oikopleura dioica is a planktonic tunicate (Appendicularia class) found extensively across the marine waters of the globe. The genome of a single male individual collected from Okinawa, Japan was sequenced using the single-molecule PacBio Hi-Fi method and assembled with NOVOLoci. The mitogenome is 39,268 bp long, featuring a large control region of around 22,000 bp. We annotated the proteins atp6, cob, cox1, cox2, cox3, nad1, nad4, and nad5, and found one more open reading frame that did not match any known gene. This study marks the first complete mitogenome assembly for an appendicularian, and reveals that A and T homopolymers cumulatively account for nearly half of its length. This reference sequence will be an asset for environmental DNA and phylogenetic studies.
Authors
- Michael J. Mansfield (ORCID: https://orcid.org/0000-0003-4717-4721)
- Nicolas Dierckxsens (ORCID: https://orcid.org/0000-0001-8051-6602)
- Nicholas M. Luscombe (ORCID: https://orcid.org/0000-0001-5293-4778)
- Yongkai Tan (ORCID: https://orcid.org/0000-0002-1413-3424)
- Aki Masunaga (ORCID: https://orcid.org/0000-0002-6913-8417)
- Jiashun Miao (ORCID: https://orcid.org/0000-0002-5227-5431)
- Charles Plessy (ORCID: https://orcid.org/0000-0001-7410-6295)
- Kosei Watanabe
Institutions
- Okinawa Institute of Science and Technology Graduate University (JP)
- Keio University (JP)
Publication Details
- Journal
- Genome Biology and Evolution
- Published
- 2024-08-20
- DOI
- https://doi.org/10.1093/gbe/evae182
- Citations
- 5
- Primary Topic
- Protist diversity and phylogeny
- Type
- article
- Field-Weighted Citation Impact
- 1.17
Funders
- Keio University
- Okinawa Institute of Science and Technology Graduate University
- Japan Society for the Promotion of Science