About Echinostoma caproni
The trematode Echinostoma caproni, is a parasitic intestinal fluke that is widely used as a laboratory model. Members of the genus Echinostoma are cosmopolitan, however human infections mainly occurs in South East Asia and the Far East, in countries including China, Korea, Taiwan, Philippines, Malaysia, Indonesia and India. Humans can become infected with Echinostoma by eating infected raw or undercooked food, particularly fish, molluscs, crustaceans and amphibians and symptoms can include abdominal pain, diarrhoea, tiredness and weight loss.
Genome Assembly & Annotation
The draft genome assembly was produced by the Parasite Genomic group at the Wellcome Trust Sanger Institute, in collaboration with Rafael Toledo (Universidad de Valencia) as part of the 50 Helminth Genomes project. The assembly uses Illumina paired-end sequencing followed by an in-house genome assembly pipeline comprising various steps, including contig assembly, scaffolding, gap-filling and error-correction.
The gene predictions were made by the Parasite Genomics group at the Wellcome Trust Sanger Institute and WormBase, as part of the 50 Helminth Genomes project. An in-house pipeline was developed that used MAKER to generate high-quality annotations by integrating evidence from multiple sources: ab initio gene predictions from AUGUSTUS, GeneMark-ES, and SNAP; projected annotation from C. elegans (using GenBlastG) and the taxonomically nearest reference helminth genome (using RATT); and ESTs, mRNAs and proteins from related organisms aligned to the genome using BLAST, with refinement of alignments using Exonerate.
- International Helminth Genomes Consortium. Comparative genomics of the major parasitic worms. Nat Genet, 2019;51(1):163-174
|Data Source||Wellcome Sanger Institute|
This widget has been derived from the assembly-stats code developed by the Lepbase project at the University of Edinburgh