Dirofilaria immitis

Genome Assembly & Annotation

Assembly

This assembly was generated from an adult D. immitis worm sampled from the right heart and pulmonary artery of a dog that died from an unrelated cause in the municipality of Caminha, northern Portugal, November 2020.

Oxford nanopore long-reads were used to perform a complete genome assembly using Flye software (version 2.8.3). Contigs potentially belonging to D. immitis were corrected by mapping the raw reads against the assembled contigs through the Pilon software (version 1.24). For full details read Gomes-de-Sa S., et al. (2022).

Annotation

The genome was annotated using Genemark-ES software (version 4.65) with self-training and default parameters. Non-coding regions belonging to rRNAs and tRNAs were also located with RNAmmer software (version 1.2) and tRNAscan-SE (version 2.0), respectively. For full details read Gomes-de-Sa S., et al. (2022).

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

• Gomes-de-Sá S, Barradas P, Queirós-Reis L, Matas IM, Amorim I, Cardoso L, Muñoz-Mérida A, Mesquita JR. De Novo Assembly of the <i>Dirofilaria immitis</i> Genome by Long-Read Nanopore-Based Sequencing Technology on an Adult Worm from a Canine Cardiopulmonary Dirofilariosis Case. Animals (Basel), 2022;12(11):1342

Navigation

Genome Browser (JBrowse)

Genome Browser (Ensembl)

Example gene page

Example gene tree

Gene Expression