Drosophila ficusphila

Overview

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. ficusphila 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: Masayoshi WATADA. View Source. Copyright Masayoshi Watada
Organism Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
CDS57,818
mRNA14,089
Gene14,089
Contig N50
275834
Scaffold N50
1050437
Number Of Genes
14089
Image Credit
<a href="mailto:watada@mserv.sci.ehime-u.ac.jp">Masayoshi WATADA.</a> <a href="https://kyotofly.kit.jp/cgi-bin/ehime/photo_data.cgi?SPID=590">View Source.</a> Copyright Masayoshi Watada

Assembly Information

Analysis Name Whole Genome Assembly of Drosophila ficusphila provided by the Baylor College of Medicine
Software Baylor College of Medicine genome assembly pipeline
Source Drosophila ficusphila Deug05112011 assembly Dfic02082011
Date performed 2013-07-30
Materials & Methods

From http://www.ncbi.nlm.nih.gov/nuccore/AFFG00000000/:

This is an upgrade of the Dfic_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: Dfic_2.0

Genome Coverage: 208.7x

Sequencing Technology: 454; Illumina

Statistics

Assembly Metrics
Contig N50 275834
Scaffold N50 1050437
GC Content 42.61