Ephemera danica

Overview

The mayfly Ephemera danica occurs in Central Europe in creeks and rivers with a high water quality. Its larvae feed on detritus. Its adults do not ingest any more and only live 2-4 days. During this time, the adult mayflies have to find a mating partner, mate, and deposit eggs.

Ephemeroptera are considered as one of the earliest lineages of flying insects. As such, mayflies play an important role for understanding the evolutionary roots of flight, one of the most important and dramatic steps in the evolutionary history of insects. Despite their highly interesting systematic position, genomic data of mayflies are scarce. The i5K initiative therefore decided to sequence the genome of a mayfly.

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

View the Baylor College of Medicine's data sharing policy.

Community contact:

Organism Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
CDS113,894
mRNA19,557
Gene19,557
Contig N50
12200
Scaffold N50
527117
Number Of Genes
19557
Community Contact
Community Contact: 
Panagiotis Provataris|panosprov@gmail.com
Image Credit
<a href="https://commons.wikimedia.org/wiki/User:Jeffdelonge">Jeffdelonge.</a> <a href="https://commons.wikimedia.org/wiki/File:Ephemera_danica01.jpg">View Source.</a> <a href="https://creativecommons.org/licenses/by-sa/3.0/deed.en">CC-BY-SA-3.0</a>

Assembly Information

Analysis Name Whole genome assembly of Ephemera danica
Software Baylor College of Medicine genome assembly pipeline (NA)
Source Ephemera danica genome assembly Edan07162013.scaffolds
Date performed 2013-07-16
Materials & Methods

Sequence generation for assembly. For this project we are generating fairly high coverage in a number of different insert sized libraries. The assembly strategy is based around a seed allpaths assembly (the Broad Allpaths assembler) followed by seed assembly improvement using homegrown tools, Atlas-link and Atlas-GapFill, which can significantly improve the results. Thus we generate sequence data to enable the Allpaths assembly. As of Nov 2011 this is: - 40X genome coverage in 180bp insert library (100bp reads forward and reverse); and 40X 3kb insert data. To enable better scaffolding and local gap filling we additionally generate 500bp, 1kb, 2kb, and 8kb insert sizes at > 20X coverage.


Source: Baylor College of Medicine i5K Project Summary

Statistics

Assembly Metrics
Contig N50 12200
Scaffold N50 527117
GC Content 38.00
Manual Annotations