The paper presents the complete connectome of the Drosophila male central nervous system and compares it to the female connectome, identifying sex-specific and dimorphic neuronal types.

Cell · Sep 1, 2026Peer-reviewedNeuroscience

Connectome-driven neural inventory of a complete visual system

Aljoscha Nern, Frank Loesche, Shin-ya Takemura, Laura E. Burnett, Marisa Dreher, Eyal Gruntman, Judith Hoeller, Gary B. Huang, Michał Januszewski, Nathan C Klapoetke, Sanna Koskela, Kit D. Longden, Zhiyuan Lu, Stephan Preibisch, Wei Qiu, , Michael B. Reiser

A FIB-SEM connectome of the male Drosophila right optic lobe sorts ∼53,000 neurons into 727 types, with neurotransmitter predictions and 577 matched split-GAL4 lines.

Nature · Mar 26, 2025Peer-reviewedNeuroscience✦ In-depth digest

Connectomic Analysis of Mitochondria in the Central Brain of Drosophila

Kit D. Longden, Patricia K. Rivlin, Michał Januszewski, Erika R. Neace, Louis K. Scheffer, Christopher Ordish, Jody Clements, Elliott Phillips, Natalie Laing Smith, Satoko Takemura, Lowell A. Umayam, Claire Walsh, Emily A Yakal, Timothy F. Musial, Michael J. Devine, , Stuart Berg

The paper analyzes mitochondria in the Drosophila connectome, showing variations in size, location, and appearance across cell types and brain regions.

bioRxiv · Apr 21, 2024 · PreprintNeuroscience

A Connectome of the Male Drosophila Ventral Nerve Cord

Shin-ya Takemura, Kenneth J. Hayworth, Gary B. Huang, Michał Januszewski, Zhiyuan Lu, Elizabeth C. Marin, Stephan Preibisch, C. Shan Xu, John Bogovic, Andrew S Champion, Han SJ Cheong, Marta Costa, Katharina Eichler, William T. Katz, Christopher J. Knecht, , Stuart Berg

Roughly 23 thousand traced neurons and 10 million TBars of the male Drosophila nerve cord, reconstructed from electron microscopy, typed, and queryable in neuPrint down to motor neurons.

bioRxiv · Jun 5, 2023 · PreprintNeuroscience✦ In-depth digest

A Connectome and Analysis of the Adult Drosophila Central Brain

Louis K. Scheffer, C. Shan Xu, Michał Januszewski, Zhiyuan Lu, Shin-ya Takemura, Kenneth J. Hayworth, Gary B. Huang, Kazunori Shinomiya, Jeremy Maitin-Shepard, Stuart Berg, Jody Clements, Philip M. Hubbard, William T. Katz, Lowell A. Umayam, Ting Zhao, , Gregory S.X.E. Jefferis

The paper presents a detailed connectome of the adult Drosophila central brain, including new methods for data analysis and biological insights into neural circuit organization.

eLife · Sep 3, 2020Peer-reviewedBioinformatics

A Connectome of the Adult Drosophila Central Brain

C. Shan Xu, Michał Januszewski, Zhiyuan Lu, Shin-ya Takemura, Kenneth J. Hayworth, Gary B. Huang, Kazunori Shinomiya, Jeremy Maitin-Shepard, David Ackerman, Stuart Berg, Tim M. Blakely, John Bogovic, Jody Clements, Tom Dolafi, Philip M. Hubbard, , Ian A. Meinertzhagen

A dense electron-microscopy reconstruction of half the fly central brain, with nearly every cell typed and queryable online, turns months of tracing partners into a database lookup.

bioRxiv · Jan 21, 2020 · PreprintNeuroscience✦ In-depth digest

Accelerated EM Connectome Reconstruction using 3D Visualization and Segmentation Graphs

Philip M. Hubbard, Stuart Berg, Ting Zhao, Donald J. Olbris, Lowell A. Umayam, Jeremy Maitin-Shepard, Michał Januszewski, William T. Katz, Erika R. Neace, Stephen M. Plaza

This paper introduces semi-automated strategies combining 3D visualization and machine guidance to accelerate EM connectome reconstruction, showing improved performance over prior methods.

bioRxiv · Jan 17, 2020 · PreprintNeuroscience

neuPrint: Analysis Tools for EM Connectomics

Jody Clements, Tom Dolafi, Lowell A. Umayam, Nicole L. Neubarth, Stuart Berg, Louis K. Scheffer, Stephen M. Plaza

neo4j-based graph data model, web explorer and HTTP/Python API for EM connectomes; on an unpublished dataset with 10s of millions of synaptic elements, most queries finish under a second.

bioRxiv · Jan 16, 2020 · PreprintNeuroscience✦ In-depth digest