Ascaris lumbricoides
BioProject PRJEB4950 | Data Source Wellcome Sanger Institute | Taxonomy ID 6252
About Ascaris lumbricoides
The nematode Ascaris lumbricoides, or human large roundworm, infects the small intestine of humans. Transmitted through ingestion of faecally-contaminated soil and water, it is most prevalent in areas where sanitation is poor and has a worldwide distribution. A. lumbricoides is the most common human parasitic infection, responsible for an estimated billion infections. Infections with A. lumbricoides is often asymptomatic and pathology is related to parasite burden. Heavily infected children may suffer poor appetite, growth stunting, and non-specific abdominal symptoms. Ascariasis is a common cause of acute surgical emergencies when obstruction of the intestine is caused by boluses of parasites or of the biliary system by the the aberrant migration of parasites. \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 Philip Cooper (Liverpool School of Tropical Medicine, UK) 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.
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Tools
Key Publications
- International Helminth Genomes Consortium. Comparative genomics of the major parasitic worms. Nat Genet, 2019;51(1):163-174
Assembly Statistics
| Assembly | A_lumbricoides_Ecuador_v1_5_4, GCA_000951055.1 |
| Strain | Republic of Ecuador |
| Database Version | WBPS18 |
| Genome Size | 316,975,410 |
| Data Source | Wellcome Sanger Institute |
| Annotation Version | 2014-06-50HGPpatch |
Gene counts
| Coding genes | 23,604 |
| Gene transcripts | 23,604 |
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This widget has been derived from the assembly-stats code developed by the Lepbase project at the University of Edinburgh
