WormBase ParaSite HomeVersion: WBPS13 (WS269)

Schistocephalus solidus

BioProject PRJEB527 | Data Source Wellcome Sanger Institute | Taxonomy ID 70667

About Schistocephalus solidus

The hermaphrodite cestode Schistocephalus solidus is a parasite of fish, fish-eating birds and rodents. S. solidus can be found in areas of western and eastern North America, including Alaska and provinces of Canada, Europe, and Eurasia.

Genome Assembly & Annotation

Assembly

The draft genome assembly was produced by the Parasite Genomic group at the Wellcome Trust Sanger Institute, in collaboration with Martin Kalbe (Max-Planck Institute for Evolutionary Biology) 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.

Key Publications

Assembly Statistics

AssemblyS_solidus_NST_G2_0011_upd, GCA_900618435.1
StrainNST_G2
Database VersionWBPS13
Genome Size539,424,504
Data SourceWellcome Sanger Institute
Annotation Version2014-06-50HGPpatch

Gene counts

Coding genes20,228
Gene transcripts20,228

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About this species