The FlyBase Papers with Technical Advances page has updated with papers submitted in February. FlyBase:Papers with technical advances - FlyBase Wiki
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Strong bias in long-read sequencing prevents assembly of Drosophila melanogaster Y-linked genes. (Genome Res.)
The paper describes strong sequencing bias of Nanopore and PacBio against some simple satellite sequences such as (AAGAG)n . Genes that are closely associated with these sequences are also affected, and may be absent from the assemblies based on these technologies
https://pubmed.ncbi.nlm.nih.gov/41034047
Selective autophagy fine-tunes Stat92E activity by degrading Su(var)2-10/PIAS in Drosophila glia. (Life Sci Alliance)
Tool to monitor drpr transcription: drpr-Gal4
https://pubmed.ncbi.nlm.nih.gov/41500791
A computational framework to study EGFR signaling distribution in egg chambers during dynamic interactions between soma and germline. (PLoS Comput. Biol.)
Mathematical model for EGFR signaling activation in Drosophila oogenesis
https://pubmed.ncbi.nlm.nih.gov/41460945
PoseR: a deep learning toolbox for classifying animal behaviour. (Open Biol.)
This paper describes an AI tool that we developed that reads animal movement from video and turns it into clear, human-readable descriptions, making behavioural analysis faster, cheaper, and scalable across species.
https://pubmed.ncbi.nlm.nih.gov/41558809
Cleared tissue dual-view oblique plane microscopy. (Biomed. Opt. Express)
A novel light-sheet fluorescence microscope development, a dual-view oblique plane microscope, for imaging cleared tissue with a higher refractive index with subcellular resolution. Used for imaging a fly brain with R23E10-GAL4+ neurons expressing mitochondria-localized GFP.
https://pubmed.ncbi.nlm.nih.gov/41368084
Detection of Nora virus in infected Drosophila melanogaster heads without evidence of ubiquitous brain infection by smRNA FISH. (Fly)
We used smRNA FISH to detect Nora virus in flies
https://pubmed.ncbi.nlm.nih.gov/41572818
A wavelet-based approach generates quantitative, scale-free and hierarchical descriptions of 3D genome structures and new biological insights. (PLoS Comput. Biol.)
New methodology and program to identify 3D nuclear structures based on Hi-C data.
https://pubmed.ncbi.nlm.nih.gov/41557727
Comprehensive annotation of the enzymes of Drosophila melanogaster. (G3 (Bethesda))
We have completed a systematic survey of Drosophila enzymes, improving the coverage and accuracy of their GO annotations. FlyBase gene reports have also been enhanced with EC & RHEA information, and a FlyBase ‘gene group’ page has been curated for each class of enzyme.
https://pubmed.ncbi.nlm.nih.gov/41359515
Girdin controls the pace of 3D tracheal cell intercalation by coupling adherens junctions to the actin cytoskeleton in Drosophila. (Development)
The expression of the mono-ADP-ribosyltransferase domain of S. enterica SpvB (DeAct-SpvB) is controlled by the UAS/GAL4 system. SpvB ribosylates actin monomers at a conserved arginine residue, preventing their incorporation into newly formed actin filaments.
https://pubmed.ncbi.nlm.nih.gov/41537258
Optogenetic control of transition to metamorphosis. (Proc. Natl. Acad. Sci. U.S.A.)
Somatic optogenetic stimulation of the ERK pathway
https://pubmed.ncbi.nlm.nih.gov/41671186
Inferring chromatin architecture at a single locus through probabilistic in situ DNA localization. (Nat. Commun.)
PLOTTED (Probabilistic Localization of Oligopaint Tagged Target Element Distances), an integrated imaging and computational framework that infers chromatin architecture from targeted high-resolution imaging of cis-regulatory modules (CRMs).
https://pubmed.ncbi.nlm.nih.gov/41540049
Inhibitory circuits control leg movements during Drosophila grooming. (eLife)
This study provides new Split-GAL4 lines targeting GABAergic 13A and 13B premotor interneurons, enabling precise manipulation of inhibitory VNC circuits. It includes a quantitative grooming behavior analysis pipeline and a computational model linking connectivity to motor output.
https://pubmed.ncbi.nlm.nih.gov/41591902
Transposable elements as drivers of genome evolution in Drosophila virilis. (Nucleic Acids Res.)
We re-annotated all transposable elements (TEs) in Drosophila virilis, generating a refined consensus library comprising 100 TE sequences. Among these, 44 represent intact TE families, 26 are partially reconstructed, and 30 correspond to remnants of ancient invasions.