Contact: Carol Lee
Researchers involved: ~200 or 300
Size (or size of nearest relative): 294 MBp
Keywords (and why important): Waterborne disease vector, invasive species, dominant estuarine species supporting many fisheries, phylogenetic positioning, physiological adaptation, evolution of development (arthropod segmentation).
Image source: Carol Lee
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)
For the most current version of the assembly, please use 'NCBI BioProject' (find link below). If the assembly is unavailable in the BioProject page (it is still being worked on), you can look under the 'BCM-HGSC data' (find link below) for intermediate versions of the assembly.
Web Apollo: A web-based sequence annotation editor for community annotation
For information about Web Apollo, please contact Monica Poelchau.
Web Apollo annotation tool (requires log in)
Web Apollo Jbrowse viewing of the automated annotation tracks (no log in required)
(1) Eurytemora affinis. arthropodgenomes.org. 7 June 2012.