Annotation of protein-coding genes in 49 diatom genomes from the Bacillariophyta clade

• Main Authors: Nenasheva, Natalia, Pitzschel, Clara, Webster, Cynthia N, Hart, Alex, Wegrzyn, Jill L, Bengtsson, Mia M, Hoff, Katharina J
• Format: Journal Article
• Language: English
• Published: 07-10-2024
• Subjects: Quantitative Biology - Genomics
• DOI: 10.48550/arxiv.2410.05467

Diatoms, a major group of microalgae, play a critical role in global carbon
cycling and primary production. Despite their ecological significance,
comprehensive genomic resources for diatoms are limited. To address this, we
have annotated previously unannotated genome assemblies of 49 diatom species.
Genome assemblies were obtained from NCBI Datasets and processed for repeat
elements using RepeatModeler2 and RepeatMasker. For gene prediction, BRAKER2
was employed in the absence of transcriptomic data, while BRAKER3 was utilized
when transcriptome short read data were available from the Sequence Read
Archive. The quality of genome assemblies and predicted protein sets was
evaluated using BUSCO, ensuring high-quality genomic resources. Functional
annotation was performed using EnTAP, providing insights into the biological
roles of the predicted proteins. Our study enhances the genomic toolkit
available for diatoms, facilitating future research in diatom biology, ecology,
and evolution.