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i5k Workspace@NAL
U.S. Department of Agriculture
  1. Organism
  2. Drosophila Biarmipes

Drosophila biarmipes

Summary
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/103/).
Publication
  • 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.
  • 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.(link is external) View Source.(link is external) View Copyright(link is external)
Assembly Stats
GC Content
39.03
Scaffold N50
23381765
Analyses
Name Program
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. 1.0
Annotation v0.5.3 of the Drosophila biarmipes assembly using MAKER (Baylor College of Medicine) MAKER
Functional annotation of NCBI Drosophila biarmipes Annotation Release 102 AgBase functional annotation pipeline
Drosophila biarmipes genome assembly ASM1814893v1 (GCF_018148935.1) Flye v. 2.6; Racon v. 1.4.12; Medaka v. 0.9.1; Pilon v. 1.23
NCBI Drosophila biarmipes Annotation Release 102 NCBI Eukaryotic Genome Annotation Pipeline
Whole genome assembly of Drosophila biarmipes provided by the Baylor College of Medicine Baylor College of Medicine genome assembly pipeline
Functional annotation of NCBI Drosophila biarmipes Annotation Release 103 AgBase functional annotation pipeline
Drosophila biarmipes genome assembly RU_DBia_V1.1 (GCF_025231255.1) Hifiasm
NCBI Drosophila biarmipes Annotation Release 103 NCBI Eukaryotic Genome Annotation Pipeline