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Eurytemora affinis complex (Atlantic clade)

Summary
Resource Type
Organism
Genus
Eurytemora
Species
affinis complex (Atlantic clade)
Common Name
Calanoid copepod
Description

Copepods form the largest biomass of metazoans in the world’s oceans, and dominate zooplankton assemblages in nearshore environments. In particular, the copepod Eurytemora affinis has an enormous biomass (10^4-10^5/m3) in many coastal systems worldwide, including the Gulf of Mexico, St. Lawrence, Chesapeake Bay, Columbia River estuary, Baltic Sea, and estuaries of Europe. This copepod is a dominant grazer of algae and major food source for some of the world's most important fisheries, such as herring, anchovy, salmon, and flounder. Given the numerical dominance of E. affinis in coastal waters, with estimated census sizes in the billions, this copepod has significant impacts on coastal ecosystems.

Moreover, there has been great interest in E. affinis as a waterborne disease vector. Copepods harbor an enormous biomass in their microbiomes. Our sequencing of the E. affinis microbiome has uncovered several putatively pathogenic taxa (not present in the surrounding water), including Vibrio cholerae, Salmonella, Shigella, Campylobacter, Corynebacterium diphtheriae, Yersinia, Aeromonas hydrophila, and Acinetobacter haemolyticus.

E. affinis is an invasive species, which moves readily from coastal habitats into inland waters, such that the composition of its microbial community could have serious implications for disease transmission. E. affinis exhibits rapid physiological evolution during invasions from coastal into inland waters, as well as shifts in its microbiome during invasions. Thus, E. affinis provides a valuable model for studying evolution during biological invasions as well as the transport of pathogens by invasive hosts. Waterborne diseases are poorly understood, and E. affinis provides the opportunity to study pathways and mechanisms of waterborne disease transmission.(1)

Data were generated by the Baylor College of Medicine's i5k pilot project.

 

Publication
Eyun SI, Soh HY, Posavi M, Munro JB, Hughes DST, Murali SC, Qu J, Dugan S, Lee SL, Chao H, Dinh H, Han Y, Doddapaneni H, Worley KC, Muzny DM, Park EO, Silva JC, Gibbs RA, Richards S, Lee CE. Evolutionary History of Chemosensory-Related Gene Families across the Arthropoda.. Molecular biology and evolution. 2017 08 01; 34(8):1838-1862.
Organism Image
Image Credit
Copyright Dr. Carol Eunmi Lee View Source.
Analysis
NameProgramDate Constructed
Whole genome assembly of Eurytemora affinisBaylor College of Medicine genome assembly pipelineNov 17th, 2013
BCM annotation of the Eurytemora affinis assembly using Maker and additional analysesMAKERFeb 6th, 2014
Functional annotation of BCM annotation of the Eurytemora affinis assembly using Maker and additional analysesAgBase functional annotation pipelineSep 30th, 2020
Assembly Stats
Contig N50
5738
Scaffold N50
862645
GC Content
32.48
Other Information
Community Contact
Carol Lee|carollee@wisc.edu
Links