Lepeophtheirus salmonis

Overview
Full NameLepeophtheirus salmonis
GenusLepeophtheirus
Speciessalmonis
Common Namesalmon louse
AbbreviationL. salmonis

 

The salmon louse (Lepeophtheirus salmonis) is an ectoparasitic copepod feeding on skin, mucous and blood from salmonid hosts. Recently it was shown that L. salmonis infections in farmed fish induce epizootics in wild fish [1,2]. The life cycle of L.salmonis consists of 8 developmental stages separated by ecdysis [3,4] and after the final molt, females develop into mature adults that continuously produce eggs for life. The first free-living larvae (naupli I) hatch directly from egg-strings attached to adult females and all three larval stages (naupli I, naupli II and the infectious copepidid stage) can be transported by the ocean currents over large distances depending on hydrographical conditions [5]. After host settlement the infectious copepodids stage molt into chalimus. The two chalimus stages, all separated by molting, are anchored to the host by a frontal filament [6], which restricts the feeding area. However, in the succeeding pre-ad I and -II and adult stages the salmon louse can move unrestricted on the host surface resulting in increased virulence [7].

Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
exon60,033
protein26,409
gene13,135
mRNA13,129
tRNA344
snRNA83
snoRNA22
pseudogenic_tRNA17
miRNA9
rRNA8
Feature Browser
The following browser provides a quick view for new visitors. Use the searching mechanism to find specific features.
Feature NameUnique NameType
EMLSAG00000004601EMLSAG00000004601-687367gene
EMLSAG00000004602EMLSAG00000004602-687368gene
EMLSAG00000004603EMLSAG00000004603-687369gene
EMLSAG00000004604EMLSAG00000004604-687370gene
EMLSAG00000004605EMLSAG00000004605-687371gene
EMLSAG00000004606EMLSAG00000004606-687372gene
EMLSAG00000004607EMLSAG00000004607-687373gene
EMLSAG00000004608EMLSAG00000004608-687374gene
EMLSAG00000004609EMLSAG00000004609-687375gene
EMLSAG00000004610EMLSAG00000004610-687376gene
EMLSAG00000004611EMLSAG00000004611-687377gene
EMLSAG00000004612EMLSAG00000004612-687378gene
EMLSAG00000004613EMLSAG00000004613-687379gene
EMLSAG00000004614EMLSAG00000004614-687380gene
EMLSAG00000004615EMLSAG00000004615-687381gene
EMLSAG00000004616EMLSAG00000004616-687382gene
EMLSAG00000004617EMLSAG00000004617-687383gene
EMLSAG00000004618EMLSAG00000004618-687384gene
EMLSAG00000004619EMLSAG00000004619-687385gene
EMLSAG00000004620EMLSAG00000004620-687386gene
EMLSAG00000004621EMLSAG00000004621-687387gene
EMLSAG00000004622EMLSAG00000004622-687388gene
EMLSAG00000004623EMLSAG00000004623-687389gene
EMLSAG00000004624EMLSAG00000004624-687390gene
EMLSAG00000004625EMLSAG00000004625-687391gene

Pages

Downloads

The following annotation files are available for download:

Structural Annotations

L. salmonis assembly v1.0 scaffolds (FASTA format, zipped) LSalAtl2s.fasta.zip
L. salmonis protein coding gene sequences (FASTA format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.zip
L. salmonis v1.0 protein coding and non-coding gene predictions (GFF3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.final.gff3.zip
L. salmonis v1.0 only protein coding gene predictions (GFF3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.1proteincoding-only.gff3.zip

Functional Annotations

Blast analysis

BlastP of all L. salmonis predicted peptides vs GenBank (NCBI NR) (various formats, gzip) asn1 [702 MB] | tab [39 MB] | xml [287 MB] | blast [368 MB]

[.asn1: blast archive, .tab: tabular text, .xml: XML format, .blast: default blast alignment] 

tab, xml, and blast are limited to 100 hits per query

 
Blastp of all predicted peptide sequences vs. SwissProt (various formats, gzip) asn1 [180 MB] | tab [23 MB] | xml [151 MB] | blast [178 MB]
   
Blastp of all L. salmonis predicted peptides vs GO (XML format, zipped) blastgo.zip

 

InterProScan, GO, and KEGG

   
InterProScan 5 analysis of L. salmonis peptides (XML format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.xml.zip
InterProScan 5 analysis of L. salmonis peptides (tabular format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.tsv.zip
InterProScan 5 analysis of L. salmonis peptides (gff3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.gff3.zip
InterProScan 5 analysis of L. salmonis peptides (HTML pages, zipped) interprohtml.zip
KEGG analysis of L. salmonis peptide (KEGG hier format, tar.gz) hier.tar.gz
KEGG analysis of L. salmonis peptide (all KEGG maps, tar.gz) map.tar.gz
Gene Ontology (GO) assignments of L. salmonis peptides based on InterProScan GO terms (gaf format) Lsal.GO.gaf
GO-slims (generic) assignment of L. salmonis peptides based on InterProScan GO terms (gaf format) Lsal.GO-slim_generic.gaf
All RNA-seq data for each ENSEMBL-transcript as shown in the Genome Browser track. TMM/CPM normalized in CSV format.  cpmall.csv.zip