Drosophila bipectinata | i5k Workspace@NAL

i5k Workspace@NAL

U.S. Department of Agriculture

Summary

Type	organism
Genus	Drosophila
Species	bipectinata
Genome Browser	JBrowse Viewer for Drosophila bipectinata
Description	Drosophila bipectinata is a species of flies in the family vinegar flies. They are diurnal. Source: https://eol.org/pages/768951 The Drosophila bipectinata genome assembly DbipHiC1v2 is available for manual annotation via the Genomics Education Partnership (https://gander.wustl.edu/).
Publication	Kim BY, Wang JR, Miller DE, Barmina O, Delaney E, Thompson A, Comeault AA, Peede D, D'Agostino ER, Pelaez J, Aguilar JM, Haji D, Matsunaga T, Armstrong EE, Zych M, Ogawa Y, Stamenković-Radak M, Jelić M, Veselinović MS, Tanasković M, Erić P, Gao JJ, Katoh TK, Toda MJ, Watabe H, Watada M, Davis JS, Moyle LC, Manoli G, Bertolini E, Košťál V, Hawley RS, Takahashi A, Jones CD, Price DK, Whiteman N, Kopp A, Matute DR, Petrov DA. Highly contiguous assemblies of 101 drosophilid genomes. . eLife. 2021 07 19; 10. Leung W, Torosin N, Cao W, Reed LK, Arrigo C, Elgin SCR, Ellison CE. Long-read genome assemblies for the study of chromosome expansion: Drosophila kikkawai, Drosophila takahashii, Drosophila bipectinata, and Drosophila ananassae. G3 (Bethesda, Md.). 2023 Sep 30; 13(10).
Organism Image
Image Credit	Nicolas Gompel. View Source. CC BY-NC-SA 3.0

Assembly Stats

Contig N50	18.7 Mb
GC Content	41.5%
Scaffold N50	26.1 Mb

Other Information

Other Information Table
Community Contact	Wilson Leung, Washington University in St. Louis
Links	Genomics Education Partnership (GEP) genome browser NCBI Bioproject Download Data

Analyses

Name	Program	Status
Drosophila bipectinata genome assembly DbipHiC1v2 (GCF_030179905.1)	Canu v. 2.1; Flye v. 2.8.1; quickmerge v. 0.3; 3D-DNA v. 180419	Current
NCBI Drosophila bipectinata Annotation Release GCF_030179905.1-RS_2024_12	NCBI Eukaryotic Genome Annotation Pipeline	Current
Functional annotation of NCBI Drosophila bipectinata Annotation Release GCF_030179905.1-RS_2024_12	AgBase functional annotation pipeline	Current
Functional annotation of NCBI Drosophila bipectinata Annotation Release 102	AgBase functional annotation pipeline	Supressed
Drosophila bipectinata genome assembly Dbip_2.0 (GCF_000236285.1)	Celera Assembler v. 6.1; BWA v. 0.6.0; Samtools v. 0.1.14; GATK v. 1.1-9; Indel_calland_upgrade.pl v. 1.0	Supressed
Annotation v0.5.3 of the Drosophila bipectinata assembly using Maker (Baylor College of Medicine)	Maker	Supressed
NCBI Drosophila bipectinata Annotation Release 101	NCBI Eukaryotic Genome Annotation Pipeline	Supressed
Whole Genome Assembly of Drosophila bipectinata provided by the Baylor College of Medicine	Baylor College of Medicine genome assembly pipeline	Supressed
NCBI Drosophila bipectinata Annotation Release 102	NCBI Eukaryotic Genome Annotation Pipeline	Supressed
Drosophila bipectinata genome assembly ASM1815384v1 (GCF_018153845.1)	Flye v. 2.6; Racon v. 1.4.12; Medaka v. 0.9.1; Pilon v. 1.23	Supressed