Three Rounds of Read Correction Significantly Improve Eukaryotic Protein Detection in ONT Reads.

ABSTRACT:

Background

Eukaryotes' whole-genome sequencing is crucial for species identification, gene detection, and protein annotation. Oxford Nanopore Technology (ONT) is an affordable and rapid platform for sequencing eukaryotes; however, the relatively higher error rates require computational and bioinformatic efforts to produce more accurate genome assemblies. Here, we evaluated the effect of read correction tools on eukaryote genome completeness, gene detection and protein annotation.

Methods

Reads generated by ONT of four eukaryotes, C. albicans, C. gattii, S. cerevisiae, and P. falciparum, were assembled using minimap2 and underwent three rounds of read correction using flye, medaka and racon. The generates consensus FASTA files were compared for tot

SUBMITTER: Safar HA 

PROVIDER: S-EPMC10893331 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature