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i5k Workspace@NAL
U.S. Department of Agriculture

Drosophila biarmipes

Summary
Analysis
Assembly Stats
Other Information
Summary
Resource Type
Organism
Genus
Drosophila
Species
biarmipes
Description

Drosophila biarmipes is a species of flies in the family vinegar flies. They are diurnal.

Source: https://eol.org/pages/768956 (link is external)

Genome update. Previously, the i5k Workspace@NAL hosted Drosophila biarmipes genome assembly ASM1814893v1 (GCF_018148935.1), NCBI Drosophila biarmipes Annotation Release 102, and Functional annotation of NCBI Drosophila biarmipes Annotation Release 102. The assembly and annotations have been updated to the most recent assembly, Drosophila biarmipes genome assembly RU_DBia_V1.1 (GCF_025231255.1) (https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_025231255.1/), and annotations, NCBI Drosophila biarmipes Annotation Release 103 (https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Drosophila_biarmipes/...).
Publication
  1. Chen ZX, Sturgill D, Qu J, Jiang H, Park S, Boley N, Suzuki AM, Fletcher AR, Plachetzki DC, FitzGerald PC, Artieri CG, Atallah J, Barmina O, Brown JB, Blankenburg KP, Clough E, Dasgupta A, Gubbala S, Han Y, Jayaseelan JC, Kalra D, Kim YA, Kovar CL, Lee SL, Li M, Malley JD, Malone JH, Mathew T, Mattiuzzo NR, Munidasa M, Muzny DM, Ongeri F, Perales L, Przytycka TM, Pu LL, Robinson G, Thornton RL, Saada N, Scherer SE, Smith HE, Vinson C, Warner CB, Worley KC, Wu YQ, Zou X, Cherbas P, Kellis M, Eisen MB, Piano F, Kionte K, Fitch DH, Sternberg PW, Cutter AD, Duff MO, Hoskins RA, Graveley BR, Gibbs RA, Bickel PJ, Kopp A, Carninci P, Celniker SE, Oliver B, Richards S. Comparative validation of the D. melanogaster modENCODE transcriptome annotation.. Genome research. 2014 Jul; 24(7):1209-23.
  2. 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.
Organism Image
Image Credit
Obbardlab. View Source. View Copyright
Analysis
NameProgramDate Constructed
Whole genome assembly of Drosophila biarmipes provided by the Baylor College of MedicineBaylor College of Medicine genome assembly pipelineJul 30th, 2013
Annotation v0.5.3 of the Drosophila biarmipes assembly using MAKER (Baylor College of Medicine)MAKERJul 30th, 2013
Drosophila biarmipes genome assembly Dbia_2.0 (GCF_000233415.1)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. 1.0Mar 4th, 2013
Functional annotation of NCBI Drosophila biarmipes Annotation Release 102AgBase functional annotation pipelineMar 11th, 2022
Drosophila biarmipes genome assembly ASM1814893v1 (GCF_018148935.1)Flye v. 2.6; Racon v. 1.4.12; Medaka v. 0.9.1; Pilon v. 1.23Apr 28th, 2021
NCBI Drosophila biarmipes Annotation Release 102NCBI Eukaryotic Genome Annotation PipelineOct 5th, 2021
Drosophila biarmipes genome assembly RU_DBia_V1.1 (GCF_025231255.1)HifiasmSep 16th, 2022
NCBI Drosophila biarmipes Annotation Release 103NCBI Eukaryotic Genome Annotation PipelineOct 7th, 2022
Functional annotation of NCBI Drosophila biarmipes Annotation Release 103AgBase functional annotation pipelineMar 12th, 2024
Assembly Stats
Scaffold N50
23381765
GC Content
39.03
Other Information