Transcriptomic profiling of the mussel Mytilus trossulus with a special emphasis on integrin-like genes during development

ABSTRACT

This study is based on the Illumina RNA-sequencing data obtained for a de novo assembly of the transcriptome from early developmental stages and some tissues and cells of the adult mussel Mytilus trossulus (Mytilidae, Mollusca) using the Trinity program. A total of 200,079 contigs were obtained, and compared to the NCBI database using BLAST to search for sequence similarity. The number of annotated contigs under the GO term 3 categories was estimated to reach 19.96%. The BUSCO analysis determined a level of 99.2% completeness for the assembled transcriptome. The main findings include evidence that the mussel β integrin-like protein sequences are very similar to the β integrin-like proteins so far sequenced for all classes of Mollusca, while the highest similarity is observed between mussel and oyster (Crasostrea gigas) β integrin-like proteins. Our transcriptome dataset contributes to the genetic databases of non-model animals such as bivalves and represents the first characterization of expressed sequences during early development of the mollusc M. trossulus from the Sea of Japan including the identification of candidate genes involved in cell adhesion.

KEYWORDS:

• Integrin-like proteins
• cell adhesion
• Mollusca
• next-generation sequencing
• stage-specific expression

Author Contributions

M.M., N.O. and N.S. designed and coordinated the research; M.M. and N.O. took part in the experiments with mussel embryos and larvae; M.M. and K.K. performed the Illumina RNA-sequencing in the Marine Genomics Unit (OIST, Japan); M.M. analyzed the obtained data and conducted a bioinformatics’ analysis. All authors read and approved the final manuscript.

Acknowledgments

The work presented in this paper was carried out during M. Maiorova’s Ph.D. research at the Okinawa Institute Science & Technology (Japan) and in the National Scientific center of Marine Biology, Far Eastern Branch of the Russian Academy of Sciences (Russia). This research was supported through computational resources provided by the Shared Facility Center ‘Data Center of FEB RAS’ (Khabarovsk, Russia). Financial support was partially provided by the Russian Foundation for Basic Research (grant no. 18-34-00064/18). The specimens were sequenced in the Marine Genomics Unit (OIST, Okinawa, Japan). The authors are grateful to the staff of OIST, who helped in sequencing samples for their technical support.

Disclosure statement

No potential conflict of interest was reported by the authors.

Supplementary material

Supplemental data for this article can be accessed here.

Additional information

Funding

This work was supported by the Russian Foundation for Basic Research (RFBR) [18-34-00064\18].