Abstract
We present the complete genome sequences of 12 species of Enteromius. Illumina sequencing was performed on genetic material from museum specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.
Methods
DNA extraction was performed using the Qiagen DNAeasy genomic extraction kit using the standard protocol. A paired-end sequencing library was constructed using the Illumina TruSeq kit according to the manufacturer’s instructions. The library was sequenced on an Illumina Hi-Seq platform in paired-end, 2 × 150 bp format. The resulting fastq files were trimmed of adapter/primer sequence and low-quality regions with Trimmomatic v0.33 (Bolger, Lohse, and Usadel 2014). The trimmed sequence was assembled by SPAdes v2.5 (Bankevich et al. 2012) followed by a finishing step using Zanfona (Kieras, O’Neill, and Pirro 2021).
Results and Data Availability
All data, including raw reads and assembled genome sequence, are available via Genbank.
| Enteromius afrohamiltoni | SAIAB 203872 | JAUYWG000000000 |
| Enteromius anoplus | SAIAB 200353 | JAUMHG000000000 |
| Enteromius argenteus | SAIAB 84963 | JAUCMR000000000 |
| Enteromius fasciolatus | SAIAB 187017 | JAUMHR000000000 |
| Enteromius mattozi | SAIAB 78468 | JAUMHE000000000 |
| Enteromius paludinosus | SAIAB 97062 | JAUMHQ000000000 |
| Enteromius radiatus | SAIAB 190297 | JAUCMS000000000 |
| Enteromius thamalakanensis | SAIAB 187035 | JAUCMT000000000 |
| Enteromius treurensis | SAIAB 194790 | JAUCMU000000000 |
| Enteromius trimaculatus | SAIAB 97060 | JAUMHP000000000 |
| Enteromius unitaeniatus | SAIAB 203025 | JAUMHI000000000 |
| Enteromius viviparus | SAIAB 235471 | JAUCNO000000000 |
Funding
Funding was provided by Iridian Genomes, grant# IRGEN_RG_2021-1345 Genomic Studies of Eukaryotic Taxa.
References
- Bankevich Anton, Nurk Sergey, Antipov Dmitry, Gurevich Alexey A., Dvorkin Mikhail, Kulikov Alexander S., Lesin Valery M., et al. 2012. “SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing.” Journal of Computational Biology 19 (5): 455–77. 10.1089/cmb.2012.0021. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bolger Anthony M., Lohse Marc, and Usadel Bjoern. 2014. “Trimmomatic: A Flexible Trimmer for Illumina Sequence Data.” Bioinformatics 30 (15): 2114–20. 10.1093/bioinformatics/btu170. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kieras M, O’Neill K, and Pirro S. 2021. Zanfona, a genome assembly finishing tool for paired-end Illumina reads. https://github.com/zanfona734/zanfona.