Bradynema listronoti

Genome Assembly & Annotation

Assembly

Long and short-read sequencing data was trimmed and filtered based on quality using Guppy (v 6.0.6) and Fastp (v 0.20.1). Long-read sequences were assembled using Flye (2.9-b1768). short-reads were assembled using HASLR (v 0.8a1) assisted by long-reads. These assemblies were merged using Quickmerge (v 0.3), and scaffolded with LINKS (v 1.8.7) The final scaffolded assembly was polished and corrected with Pilon (v 1.23).

Annotation

The full annotation process is outlined in Ste-Croix et al., (2022). The genome was annotated using BRAKER.

Downloads

• Genomic Sequence (FASTA)
• Hard-masked Genomic Sequence (FASTA)
• Soft-masked Genomic Sequence (FASTA)
• Annotations (GFF3)
• Proteins (FASTA)
• Full-length transcripts (FASTA)
• CDS transcripts (FASTA)

Tools

• Search for sequences in the genome and proteome using BLAST
• Work with lists of data using the WormBase ParaSite BioMart data-mining tool
• Programatically access WormBase ParaSite data using the REST API
• Predict the effects of variants using the Variant Effect Predictor

Key Publications

• Ste-Croix DT, Gagnon AÈ, Mimee B. Draft Genome of the Insect-Parasitic Nematode <i>Bradynema Listronoti</i>. J Nematol, 2022;54(1):20220047

Navigation

Genome Browser (JBrowse)

Genome Browser (Ensembl)

Example gene page

Example gene tree