Nippostrongylus brasiliensis
BioProject PRJEB511 | Data Source Wellcome Sanger Institute | Taxonomy ID 27835
About Nippostrongylus brasiliensis
Strongylid nematode parasites infect the gastrointestinal tracts of both humans and other mammals, causing permanent growth deficits (e.g., for hookworm infections of humans) or outright death (e.g., for Haemonchus contortus infections of sheep). Hookworms infect 170-440 million humans and other strongylids infect farm animals worldwide, making these among the most important parasites. The stronglyid parasite Nippostrongylus brasiliensis naturally infects rats and easily infects laboratory mice, and has an infectious life cycle similar to that of human hookworms, making it an important laboratory model for hookworm disease; accordingly, N. brasiliensis is often called "rat hookworm" or "rodent hookworm".
There is 1 alternative genome project for Nippostrongylus brasiliensis available in WormBase ParaSite: PRJNA994163
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) 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
Navigation
Assembly Statistics
| Assembly | N_brasiliensis_RM07_v1_5_4_0011_upd, GCA_900618405.1 |
| Database Version | WBPS19 |
| Genome Size | 294,400,206 |
| Data Source | Wellcome Sanger Institute |
| Annotation Version | 2014-06-50HGPpatch |
Gene counts
| Coding genes | 22,796 |
| Gene transcripts | 22,796 |
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