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
polypeptide-auto778310auto778310polypeptide
polypeptide-auto778311auto778311polypeptide
polypeptide-auto778312auto778312polypeptide
polypeptide-auto778313auto778313polypeptide
polypeptide-auto778314auto778314polypeptide
polypeptide-auto778315auto778315polypeptide
polypeptide-auto778316auto778316polypeptide
polypeptide-auto778317auto778317polypeptide
polypeptide-auto778318auto778318polypeptide
polypeptide-auto778319auto778319polypeptide
polypeptide-auto778320auto778320polypeptide
polypeptide-auto778321auto778321polypeptide
polypeptide-auto778322auto778322polypeptide
polypeptide-auto778323auto778323polypeptide
polypeptide-auto778324auto778324polypeptide
polypeptide-auto778325auto778325polypeptide
polypeptide-auto778326auto778326polypeptide
polypeptide-auto778327auto778327polypeptide
polypeptide-auto778328auto778328polypeptide
polypeptide-auto778329auto778329polypeptide
polypeptide-auto778330auto778330polypeptide
polypeptide-auto778331auto778331polypeptide
polypeptide-auto778332auto778332polypeptide
polypeptide-auto778333auto778333polypeptide
polypeptide-auto778334auto778334polypeptide

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