WormBase ParaSite HomeVersion: WBPS9 (WS258)

Nippostrongylus brasiliensis

BioProject PRJEB511 | Data Source Wellcome Trust Sanger Institute | Taxonomy ID 27835

About Nippostrongylus brasiliensis

The nematode Nippostrongylus brasiliensis, rat hookworm, is a gastrointestinal parasite of rats. It is one of the most widely studied helminth models: it is relatively easy to maintain in the lab and is a close relative of human hookworms.

Genome Assembly & Annotation

Assembly

The draft genome assembly was produced by the Parasite Genomic group at the Wellcome Trust Sanger Institute, in collaboration with Rick Maizels (Edinburgh University), using Illumina paired-end sequencing followed by an in-house genome assembly pipeline comprising various steps, including contig assembly, scaffolding, gap-filling and error-correction (Helminth Genomes Consortium, unpublished).

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Trust Sanger Institute and WormBase, as part of the 50 Helminth Genomes Initiative (Helminth Genomes Consortium, unpublished). 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.

Assembly Statistics

AssemblyN_brasiliensis_RM07_v1_5_4, GCA_000951335.1
Database VersionWBPS9
Genome Size294,400,206
Data SourceWellcome Trust Sanger Institute
Annotation Version2014-06-50HGPpatch

Gene counts

Coding genes22,796
Gene transcripts22,796

Learn more about this widget in our help section

This widget has been derived from the assembly-stats code developed by the Lepbase project at the University of Edinburgh

About this species