Abstract
We present the whole genome sequence of Haemulon aurolineatum. Illumina paired-end reads were assembled by a de novo method followed by a finishing step. The raw and assembled data are publicly available via GenBank: Sequence Read Archive (SRR28478403) and assembled genome (JBCAUF000000000).
Methods
A single wild-collected specimen was used for sequencing. DNA extraction was performed using the Qiagen DNAeasy genomic extraction kit using the standard process. 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 sequences and low-quality regions with Trimmomatic v0.33 (Bolger, Lohse, and Usadel 2014). The trimmed sequence was assembled by SPAdes v2.5 (Bankevich, Nurk, Antipov, et al. 2012) followed by a finishing step using Zanfona v1.0 (Kieras 2021) to make additional contig joins based on conserved regions in related species.
Funding
Funding was provided by Iridian Genomes, grant# IRGEN_RG_2021-1345.
Data availability
Raw and assembled data are publicly available via GenBank.
Raw genome data: SRR28478403
Assembled genome: JBCAUF000000000
REFERENCES
- Bankevich A, Nurk S, Antipov D, et al. 2012. “SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing.” J Comput Biol 19 (5): 455–77. 10.1089/cmb.2012.0021. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bolger AM, Lohse M, and Usadel B. 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 2021. “Zanfona, a Genome Finishing Process for Use with Paired-End Short Reads.” https://github.com/zanfona734/zanfona.
Associated Data
This section collects any data citations, data availability statements, or supplementary materials included in this article.
Data Availability Statement
Raw and assembled data are publicly available via GenBank.
Raw genome data: SRR28478403
Assembled genome: JBCAUF000000000