FlyBase: introduction of the Drosophila melanogaster Release 6 reference genome assembly and large-scale migration of genome annotations.
Release 6, the latest reference genome assembly of the fruit fly Drosophila melanogaster, was released by the Berkeley Drosophila Genome Project in 2014; it replaces their previous Release 5 genome assembly, which had been the reference genome assembly for over 7 years. With the enormous amount of information now attached to the D. melanogaster genome in public repositories and individual laboratories, the replacement of the previous assembly by the new one is a major event requiring careful migration of annotations and genome-anchored data to the new, improved assembly. In this report, we describe the attributes of the new Release 6 reference genome assembly, the migration of FlyBase genome annotations to this new assembly, how genome features on this new assembly can be viewed in FlyBase (http://flybase.org) and how users can convert coordinates for their own data to the corresponding Release 6 coordinates.
The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA dossantos@morgan.harvard.edu.
Gilberto
G
dos Santos
The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA.
Andrew J
AJ
Schroeder
Department of Biology, Indiana University, Bloomington, IN 47405, USA.
Joshua L
JL
Goodman
Department of Biology, Indiana University, Bloomington, IN 47405, USA.
Victor B
VB
Strelets
The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA.
Madeline A
MA
Crosby
Department of Biology, Indiana University, Bloomington, IN 47405, USA.
Jim
J
Thurmond
The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA.
David B
DB
Emmert
The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA.
William M
WM
Gelbart
D000818:Animals; D030541:Databases, Genetic; D004331:Drosophila melanogaster / Q000235:genetics*; D049750:Genome, Insect; D023281:Genomics / Q000592:standards; D059014:High-Throughput Nucleotide Sequencing; D020407:Internet; D008957:Models, Genetic; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D012015:Reference Standards; D016415:Sequence Alignment; D012984:Software