Drosophila rhopaloa


As part of the Drosophila modENCODE project, the Baylor College of Medicine is studying the comparative genomics of eight additional species of Drosophila: biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii.

Please cite the following publication when using the D. rhopaloa genome and annotations:
Chen, Z. X., Sturgill, D., Qu, J., et al. Comparative validation of the D. melanogaster modENCODE transcriptome annotation. Genome research, 2014, 24(7), 1209-1223. doi: 10.1101/gr.159384.113

Image Credit: Nicolas Gompel. View Source. CC BY-NC-SA 3.0
Organism Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
Contig N50
Scaffold N50
Number Of Genes
Image Credit
Nicolas Gompel. <a href="http://gompel.org/wp-content/gallery/drosophilidae/Drosophila-rhopaloa-KB866-male-1x10-dorsal-enhanced.jpg">View Source.</a> <a href="https://creativecommons.org/licenses/by-nc-sa/3.0/">CC BY-NC-SA 3.0</a>

Assembly Information

Analysis Name Whole Genome Assembly of Drosophila rhopaloa provided by the Baylor College of Medicine
Software Baylor College of Medicine genome assembly pipeline
Source Drosophila rhopaloa Drho05162011 assembly
Date performed 2013-07-30
Materials & Methods

From http://www.ncbi.nlm.nih.gov/nuccore/AFPP00000000/:

This is an upgrade of the Drho_1.0 assembly using illumina reads to fix indels and other improvements using BWA, samtools etc. Not a traditional assembler.

Assembly Method:

Celera Assembler v. 6.1; BWA v. 0.6.0; Samtools v. 0.1.14; GATK v. 1.1-9; Indel_call_and_upgrade.pl v. 1.0

Assembly Name: Drho_2.0

Genome Coverage: 214.5x

Sequencing Technology: 454; Illumina GAIIx


Assembly Metrics
Contig N50 19300
Scaffold N50 44904
GC Content 39.21