FlyBase

New metabolic pathway reports too: the GLUCOSYLCERAMIDE BIOSYNTHESIS flybase.org/reports/FBgg..., the GPI-ANCHOR PROTEIN BIOSYNTHESIS flybase.org/reports/FBgg... and the DOLICHYL PHOSPHATE BIOSYNTHESIS flybase.org/reports/FBgg... pathways.
#MetabolicPathways

And some new family gene groups: SPECTRINS flybase.org/reports/FBgg... and SINGLE VON WILLEBRAND FACTOR TYPE C DOMAIN PROTEINS flybase.org/reports/FBgg...
#GeneGroups

No FlyBase release is complete without new Gene Groups. This release features mitochondrial complexes MITOCHONDRIAL INNER MEMBRANE PEPTIDASE COMPLEX, flybase.org/reports/FBgg..., MITOCHONDRIAL DEGRADOSOME flybase.org/reports/FBgg... and MITOCHONDRIAL PROCESSING PEPTIDASE flybase.org/reports/FBgg...

Also #NewInFlyBase for FB2025_04:
You can now access the @alliancegenome.bsky.social BLAST service directly from the FlyBase toolbar at the top of every FlyBase page. The path is Tools>Genomics Tools>Fly BLAST @ Alliance.

More new bulk files:
Gene relationship comments
InterPro signatures
Representative publications
Chemical Synonyms
Curated Expression

New bulk downloads include:

Aberrations - gene deletion/duplication data
Split system combinations
Human disease model reports
Single Cell RNA-Seq Metadata
Gene model status and annotation comments
Antibody information
Disease-implicated variants
(there's more!)

#FlyBase release FB2025_04 is live. There's a couple of major changes in this release.

First, we've added many new bulk files to the Downloads page. flybase.org/downloads/bu... (you can find descriptions of the contents and format of each file here wiki.flybase.org/wiki/FlyBase...)

Model organism databases face budget cuts and closures Beyond the crucial data they contain, these digital archives have provided an important space for academic communities to exchange ideas and resources.

Nature has published an article on the crisis facing MODs
Model organism databases face budget cuts and closures www.nature.com/articles/d41...
@zfinmod.bsky.social @xenbase.bsky.social @yeastgenome.bsky.social @mousegenome.bsky.social @ratgenome.bsky.social @geneontology.bsky.social @nature.com

FlyBase Update – October 2025 The termination of the NIH/NHGRI FlyBase grant has placed the long-term sustainability of FlyBase at risk. However, thanks to the generous support of several key individuals and institutions, we are pleased to announce that FlyBase will remain operational through the coming year. We extend our deepest gratitude to Yukiko Yamashita, Cassandra Extavour, Hugo Bellen, Thom Kaufman, the Genetics Society of America / Drosophila Board, the Bloomington Drosophila Stock Center, an anonymous donor and the Wellcome Trust. We are especially thankful for a generous gift from Seemay Chou, Jed McCaleb, and The Navigation Fund. We also greatly appreciate the continued support from the broader Drosophila community – your donations and service fees have been vital in helping us stay afloat. Special thanks also go to Jessica Manning for her tireless administrative work at Harvard, to Ruth Lehmann, Hugo Bellen, and Paul Sternberg for advice and efforts, and to the Board of the European Drosophila Society for all their efforts. Sadly, we must also share that several long-standing FlyBase team members have recently moved on. We are immensely grateful to Susan Russo-Gelbart, Lynn Crosby, Gil dos Santos, Kris Broll, Victoria Jenkins, and TyAnna Lovato for their many years of dedicated service and contributions to FlyBase. Looking ahead, ensuring FlyBase’s sustainability beyond the next year – and successfully integrating with the Alliance – will require new funding sources. We kindly ask for your continued support: • European labs: Please consider contributing to the Cambridge, U.K. FlyBase group • U.S. and other non-European labs: Please consider contributing to the U.S. FlyBase groups • Both U.K. and U.S. FlyBase are working diligently to establish an invoicing system. We appreciate your continued patience. For more information on how to support us, please visit: Contribute to FlyBase wiki page https://wiki.flybase.org/wiki/FlyBase:Contribute_to_FlyBase

There's an update on the state of FlyBase on the FlyBase.org front page. You can contribute to FlyBase at this link wiki.flybase.org/wiki/FlyBase...
We express enormous gratitude to the people, labs, groups, and foundations who have already helped us.
#FlyBase #Drosophila

It's #TechnicalAdvances update time; the papers added in September are here wiki.flybase.org/wiki/FlyBase.... Want your paper with with a new technique, reagent, or resource featured next month? Flag it when you #FTYP!

It's #TechnicalAdvances update time; the papers added in September are here wiki.flybase.org/wiki/FlyBase.... Want your paper with with a new technique, reagent, or resource featured next month? Flag it when you #FTYP!

#Drosophila folks 📣
#FlyCROSS update: We had 80 mentees sign ups for this cycle and the committee has finished the matching processes ✅👩🏽‍🔬🥳🪰

Keep an eye out for emails from us starting next week. 👀

And please keep supporting @flybase.bsky.social and continue to donate generously !

Now the #EDB @flybase.bsky.social representative Katja Röper @katjaroeper.bsky.social is presenting #Flybase future plans

FlyBase will present posters 333 'Modeling the Mitochondrion: Building an Integrated Causal Model for Mitochondrial Processes using the Gene Ontology' and 335 'Building high-quality Genome-Scale Metabolic Models for Drosophila using the Gene Ontology' today at #EDRC2025

A graphical overview of the results of searching D. melanogaster protein databases with the Dll-RB transcript sequence.

The top hit resulting from searching D. melanogaster protein databases with the Dll-RB transcript sequence.

The results page, here shown for a BLASTX search shows a graphical overview at the top of the page.

The hit list beneath looks like the BLAST output you know and love.

Screenshot of the Alliance Fly BLAST, showing the options to search D. melanogaster nucleotide and protein databases.

If you search a nucleotide database with a nucleotide sequence, you'll be offered TBLASTX and BLASTN options.

If you search a protein database with a nucleotide sequence, you'll be offered the BLASTX option.

or a search can be restricted to only Drosophila melanogaster databases.

Once you enter a DNA or protein sequence in the search box, you'll be offered appropriate options for the nucleotide or protein databases you wish to search.

Screenshot of the Alliance of Genome Resources BLAST page. BLAST Service Welcome to the BLAST Service for the Alliance of Genome Resources! This BLAST service allows researchers to search genomic sequences using the Basic Local Alignment Search Tool (BLAST). By entering a sequence or query, users can find regions of similarity to various genomes within the Alliance. This service supports separate environments for each of the Model Organism Databases (MODs) as well as a unified environment for the Alliance. Results provide detailed alignments and annotations to aid in your research. Explore the various BLAST environments through the links below to find the one that best suits your research needs: Fly BLAST Worm BLAST

Screenshot of the Alliance of Genome Resources FlyBase BLAST server, with the Alliance logo and Fly hexagon at the top, a search box where one can paste in a sequence, and a clickable list of nucleotide and protein databases one can search against.

You can now search FlyBase and WormBase sequence data using the Alliance of Genome Resources BLAST server:
www.alliancegenome.org/blastservice
The Fly interface allows searching against many arthopods,

#FlyBaseSkeetorial #AllianceGenomeSkeetorial #BLAST

📢 The GSA Board of Directors is seeking a graduate student & a postdoc to serve as early career representatives! Serve a 2-year term, share the early career scientist perspective at Board meetings, and help shape GSA’s future. Apply by Oct 17: buff.ly/e7eaq6b

In the apple eye of evolution: Camera-type eye regeneration - the Node Behind the paper stories from "A genetically tractable non-vertebrate system to study complete camera-type eye regeneration" We are all stepping into a

#ICYMI
Check out my new article at @the-node.bsky.social where Alice and Alejandro share #behindthepaper stories !

Come for the science, stay for learning about curiosity, philosophy, mentorship & joy of discovery!

#devbio #regeneration #stemcells #scicomm
#pax6 #cellbio #eye #organogenesis

YouTube video by Alliance Of Genome Resources Model organism data and rare diseases

In case you missed it (or want to review or share it), today's Alliance webinar is now up on our YouTube channel youtu.be/mtqlMEEqQKc

If you'd like to get a jump on registering for future webinars, you can do that here tinyurl.com/4f9ycybt

This month's Alliance webinar is TOMORROW (9/25) at noon EDT, on the use of model organism data in rare disease diagnostics and disease-gene association discovery, presented by guest speaker Damian Smedley.
Register by midnight EDT TONIGHT (9/25) to get the Zoom link: tinyurl.com/4f9ycybt

The @fly-eds.bsky.social is having its general assembly this saturday at 13:30 at #EDRC2025 , please join us to discuss our society and to find out more about @flybase.bsky.social and the current funding crisis

#Drosophila community - look at this amazing lineup for #InDRC2025

Registration for #InDRC2025 is now open! Visit indrc2025.in to register and submit your abstract.

#genetics #devbio
@flybase.bsky.social

Trump's Harvard cuts threaten a giant in biomedical research: A database about the tiny fruit fly This spring, the Trump administration rescinded a grant that maintained FlyBase, a pillar of global basic research, as part of its broader $2.2 billion funding cuts at Harvard.

The FlyBase situation has made the national news www.nbcnews.com/science/scie...

Alliance Of Genome Resources Event Registration Webinar recordings are posted at https://www.youtube.com/@AllianceOfGenomeResources A schedule of future events is on the Alliance Events Calendar https://www.alliancegenome.org/event-calendar

The next Alliance webinar is Thurs. Sept. 25, noon EDT, on the use of model organism data in rare disease diagnostics and disease-gene association discovery, presented by guest speaker Damian Smedley, Professor of Computational Genomics, Queen Mary Univ of London. Register here tinyurl.com/4f9ycybt

Die wichtigste Datenbank über die Fruchtfliege steht vor dem Aus. Forscher weltweit sind auf eine zentrale Datenbank mit Erkenntnissen zu Drosophila angewiesen. Deren Finanzierung steht vor dem Aus. Wegen Donald Trump. Warum uns das nicht gleichgültig sein sollte.

Thanks to journalist @felixschmidtner.bsky.social for bringing the plight of the key scientific database @flybase.bsky.social to a German/European audience
www.faz.net/aktuell/wiss...

We’re currently undergoing a rather large bot attack.

www.thecrimson.com/article/2025...
Harvard Funding Cuts Endanger the Massive Fruit Fly Database That Powers Genetic Research

Hey #Drosophila community: who has already some experience with these new procedures which may also affect normal mail? Please, be so kind to share your knowledge, tips & tricks! @bdsc.bsky.social @fly-eds.bsky.social @flybase.bsky.social - urldefense.com/v3/__https:/...

There are only 10 days left to register for EDRC 2025! More information at edrc2025alicante.com
@edrc2025.bsky.social @fly-eds.bsky.social @neuroalc.bsky.social @umh.es @drosospain.bsky.social @flybase.bsky.social