Echinostoma caproni
BioProject PRJEB1207 | Data Source Wellcome Sanger Institute | Taxonomy ID 27848
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. \n
Genome Assembly & Annotation
Assembly
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.
Annotation
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.
Downloads
Tools
Key Publications
- International Helminth Genomes Consortium. Comparative genomics of the major parasitic worms. Nat Genet, 2019;51(1):163-174
Assembly Statistics
| Assembly | E_caproni_Egypt_0011_upd, GCA_900618425.1 |
| Strain | Egypt |
| Database Version | WBPS19 |
| Genome Size | 834,556,378 |
| Data Source | Wellcome Sanger Institute |
| Annotation Version | 2014-06-50HGPpatch |
Gene counts
| Coding genes | 18,607 |
| Gene transcripts | 18,607 |
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