WormBase ParaSite HomeVersion: WBPS17 (WS282)

Fasciola hepatica

BioProject PRJNA179522 | Data Source The Genome Institute | Taxonomy ID 6192

About Fasciola hepatica

The trematode Fasciola hepatica, or sheep liver fluke or common liver fluke, is a parasite that infects humans, cows and sheep. It causes a disease called fascioliasis, infection arises from ingestion of metacercariae on water plants such as watercress. In the UK, Fasciola is generally common in farmed livestock which graze upon wetland pastures where the parasites intermediate snail host thrives.

There is 1 alternative genome project for Fasciola hepatica available in WormBase ParaSite: PRJEB25283

Genome Assembly & Annotation

Assembly

The genome assembly was produced by the Mitreva laboratory of the Division of Infectious Diseases at theWashington University School of Medicine in St. Louis. The first version of this assembly submitted in late 2013 as part of the 50 Helminth Genomes project. The version presented here is an improved version of the assembly (GCA_002763495.2) submitted in 2019. The assembly uses Illumina HiSeq2000 paired-end sequencing. ALLPATHS-LG was used to assemble the Illumina reads. Pygap, an in-house assembly improvement tool, was used to join and extend contigs using unassembled reads when possible.

Annotation

The gene predictions were made by the Mitreva laboratory of the Division of Infectious Diseases at theWashington University School of Medicine in St. Louis. Protein coding genes were predicted from the masked assembly using a combination of Snap, Fgenesh, Augustus, and the MAKER annotation pipeline using evidence from assembled transcripts, ESTs (GenBank EST database), and protein sequences from F. hepatica and related organisms.

Key Publications

Resources

Assembly Statistics

AssemblyF_hepatica_1.0.allpaths.pg, GCA_002763495.2
Database VersionWBPS17
Genome Size1,138,329,001
Data SourceThe Genome Institute
Annotation Version2021-12-WormBase

Gene counts

Coding genes11,217
Non coding genes1,208
Small non coding genes1,208
Gene transcripts12,425

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