Main Menu (Mobile)- Block

Main Menu - Block

janelia7_blocks-janelia7_fake_breadcrumb | block
Rubin Lab / Publications
custom | custom

Filter

facetapi-Q2b17qCsTdECvJIqZJgYMaGsr8vANl1n | block
facetapi-W9JlIB1X0bjs93n1Alu3wHJQTTgDCBGe | block
facetapi-PV5lg7xuz68EAY8eakJzrcmwtdGEnxR0 | block
facetapi-021SKYQnqXW6ODq5W5dPAFEDBaEJubhN | block
general_search_page-panel_pane_1 | views_panes

149 Publications

Showing 1-10 of 149 results
01/29/26 | A pair of interneurons that assign positive valence to sweet sensation in <I>Drosophila</I>
Christie KW, Dadyala TS, Sinakevitch IT, Chung P, Ito M, Shao L
Curr Bill. 2026 Jan 29:. doi: 10.1016/j.cub.2025.12.058

Assigning valence-appeal or aversion-to gustatory stimuli and relaying it to higher-order brain regions to guide flexible behaviors is crucial to survival. Yet the neural circuits that transform taste into motivationally relevant signals remain poorly defined in any model system. In Drosophila melanogaster, substantial progress has been made in mapping the sensorimotor pathways encoding intrinsic valence for feeding and the architecture of the dopaminergic reinforcement system. However, where and how "effective" (i.e., real-time) valence is first imposed on a taste has long been a mystery. Here, we identified a pair of subesophageal zone interneurons in Drosophila, termed Fox, that impart reinforcing positive valence to sweet taste and convey this signal to the mushroom body, the fly's associative learning center. We show that Fox neuron activity is necessary and sufficient to drive appetitive behaviors and can override a tastant's intrinsic neutral or aversive valence without impairing taste quality discrimination. Furthermore, Fox neurons relay the positive valence to specific dopaminergic neurons that mediate appetitive memory formation. Our findings reveal a circuit mechanism through which effective valence is bestowed upon sweet sensation and transformed into a reinforcing signal that supports learned sugar responses. The Fox neurons form a convergent-divergent "hourglass" circuit motif, acting as a bottleneck for valence assignment and distributing motivational signals to higher-order centers. This architecture confers both robustness and flexibility in reward processing-an organizational principle that may generalize across species.

View Publication Page
01/29/26 | Rethinking insecticide toxicology for the 21st century.
Gándara L, Martelli F, Ravenscroft T, Crocker J, Batterham P
Insect Biochem Mol Biol. 2026 Jan 29:104502. doi: 10.1016/j.ibmb.2026.104502

Insecticides remain indispensable for crop protection and food security, yet their widespread use may contribute to the global decline of beneficial insect populations. Efforts to mitigate these impacts are hampered by a fragmented understanding of how insects metabolise insecticides and how sublethal exposures affect physiology, behaviour, and fitness. Here, we synthesise current understanding of metabolic detoxification and highlight critical gaps: the tissue- and time-dependent dynamics of insecticide entry and processing, the triggers and architecture of xenobiotic transcriptional responses, the role of rapid non-transcriptional regulation, and the population-level consequences of sublethal effects. We also outline emerging experimental strategies for addressing these questions and propose a next-generation research pipeline centred on multi-endpoint phenomics across life stages and sentinel species, integrated with AI-driven predictive toxicology, as a framework for identifying safer chemicals. We propose an integrated framework unifying molecular, physiological, and ecological responses to sublethal exposure to guide the design of insecticides that maintain effective pest control while safeguarding insect biodiversity and the ecosystems it underpins.

View Publication Page
12/16/25 | Parallel neuronal ensembles control behavior across sensorimotor levels in <I>Drosophila<I>
Liessem S, Asinof SK, Nern A, Sumathipala M, Rogers E, Erginkaya M, Dallmann CJ, Card GM, Ache JM
bioRxiv. 2025 Dec 16:. doi: 10.64898/2025.12.13.693955

Nervous systems can process information in serial or in parallel, trading off efficiency for flexibility and speed. How these network architectures are implemented across sensorimotor pathways to control behavior is unclear. We investigate this tradeoff directly in Drosophila by comparing neuronal circuits underlying landing and takeoff, behaviors transforming similar visual cues to whole-body motor output. Using a whole-CNS connectome, electrophysiology, and behavioral analysis, we reconstruct the complete feedforward pathway for landing, including visual feature detectors, a dedicated ensemble of descending neurons (DNs), and a core premotor circuit in the nerve cord. Comparison to the takeoff pathway reveals that, despite encoding the same sensory feature and engaging similar muscle groups, neuronal circuits controlling the two behaviors are separated at every sensorimotor level. Extending this analysis to the complete DN population reveals a blueprint for descending motor control: DNs across the behavioral space utilized by the fly are organized as a set of parallel, loosely-overlapping ensembles that form a continuum from command-like control, with individual DNs determining behavioral output, to population coding, with multiple DNs controlling behavior synergistically. Distinct combinations of sensory feature detectors differentially recruit DN ensembles to enable flexible, context-dependent behavioral control.

View Publication Page
10/09/25 | Sexual dimorphism in the complete connectome of the <I>Drosophila</I> male central nervous system
Berg S, Beckett IR, Costa M, Schlegel P, Januszewski M, Marin EC, Nern A, Preibisch S, Qiu W, Takemura S, Fragniere AM, Champion AS, Adjavon D, Cook M, Gkantia M, Hayworth KJ, Huang GB, Katz WT, Kämpf F, Lu Z, Ordish C, Paterson T, Stürner T, Trautman ET, Whittle CR, Burnett LE, Hoeller J, Li F, Loesche F, Morris BJ, Pietzsch T, Pleijzier MW, Silva V, Yin Y, Ali I, Badalamente G, Bates AS, Bogovic J, Brooks P, Cachero S, Canino BS, Chaisrisawatsuk B, Clements J, Crowe A, de Haan Vicente I, Dempsey G, Donà E, dos Santos M, Dreher M, Dunne CR, Eichler K, Finley-May S, Flynn MA, Hameed I, Hopkins GP, Hubbard PM, Kiassat L, Kovalyak J, Lauchie SA, Leonard M, Lohff A, Longden KD, Maldonado CA, Mitletton M, Moitra I, Moon SS, Mooney C, Munnelly EJ, Okeoma N, Olbris DJ, Pai A, Patel B, Phillips EM, Plaza SM, Richards A, Rivas Salinas J, Roberts RJ, Rogers EM, Scott AL, Scuderi LA, Seenivasan P, Serratosa Capdevila L, Smith C, Svirskas R, Takemura S, Tastekin I, Thomson A, Umayam L, Walsh JJ, Whittome H, Xu CS, Yakal EA, Yang T, Zhao A, George R, Jain V, Jayaraman V, Korff W, Meissner GW, Romani S, Funke J, Knecht C, Saalfeld S, Scheffer LK, Waddell S, Card GM, Ribeiro C, Reiser MB, Hess HF, Rubin GM, Jefferis GS
bioRxiv. 2025 Oct 09:. doi: 10.1101/2025.10.09.680999

Sex differences in behaviour exist across the animal kingdom, typically under strong genetic regulation. In Drosophila, previous work has shown that fruitless and doublesex transcription factors identify neurons driving sexually dimorphic behaviour. However, the organisation of dimorphic neurons into functional circuits remains unclear.We now present the connectome of the entire Drosophila male central nervous system. This contains 166,691 neurons spanning the brain and ventral nerve cord, fully proofread and comprehensively annotated including fruitless and doublesex expression and 11,691 cell types. By comparison with a previous female brain connectome, we provide the first comprehensive description of the differences between male and female brains to synaptic resolution. Of 7,319 cross-matched cell types in the central brain, 114 are dimorphic with an additional 262 male- and 69 female-specific (totalling 4.8% of neurons in males and 2.4% in females).This resource enables analysis of full sensory-to-motor circuits underlying complex behaviours as well as the impact of dimorphic elements. Sex-specific and dimorphic neurons are concentrated in higher brain centres while the sensory and motor periphery are largely isomorphic. Within higher centres, male-specific connections are organised into hotspots defined by male-specific neurons or the presence of male-specific arbours on neurons that are otherwise similar between sexes. Numerous circuit switches reroute sensory information to form conserved, antagonistic circuits controlling opposing behaviours.

View Publication Page
09/05/25 | Synaptic targets of circadian clock neurons influence core clock parameters.
Scholz-Carlson E, Iyer AR, Nern A, Ewer J, Fernandez MP
Sci Adv. 2025 Sep 05;11(36):eadw4666. doi: 10.1126/sciadv.adw4666

Neuronal connectivity in the circadian clock network is essential for robust endogenous timekeeping. In the circadian clock network, the small ventral lateral neurons (sLNs) serve as critical pacemakers. Peptidergic communication mediated by the neuropeptide (PDF), released by sLNs, has been well characterized. In contrast, little is known about the role of the synaptic connections that sLNs form with downstream neurons. Connectomic analyses revealed that the sLNs form strong synaptic connections with previously uncharacterized neurons called superior lateral protocerebrum 316 (SLP316). Here, we show that silencing the synaptic output from the SLP316 neurons via tetanus toxin expression shortened the free-running period, whereas hyperexciting them by expressing the bacterial voltage-gated sodium channel resulted in period lengthening. Under light-dark cycles, silencing SLP316 neurons caused lower daytime activity and higher daytime sleep. Our results reveal that the main postsynaptic partners of key pacemaker neurons are a nonclock neuronal cell type that regulates the timing of sleep and activity.

View Publication Page
07/25/25 | Cell type-specific contributions to a persistent aggressive internal state in female <I>Drosophila</I>
Chiu H, Robie AA, Branson K, Vippa T, Epstein S, Rubin GM, Anderson DJ, Schretter CE
Elife. 2025 Jul 25;12:. doi: 10.7554/eLife.88598

Persistent internal states are important for maintaining survival-promoting behaviors, such as aggression. In female Drosophila melanogaster, we have previously shown that individually activating either aIPg or pC1d cell types can induce aggression. Here we investigate further the individual roles of these cholinergic, sexually dimorphic cell types, and the reciprocal connections between them, in generating a persistent aggressive internal state. We find that a brief 30-second optogenetic stimulation of aIPg neurons was sufficient to promote an aggressive internal state lasting at least 10 minutes, whereas similar stimulation of pC1d neurons did not. While we previously showed that stimulation of pC1e alone does not evoke aggression, persistent behavior could be promoted through simultaneous stimulation of pC1d and pC1e, suggesting an unexpected synergy of these cell types in establishing a persistent aggressive state. Neither aIPg nor pC1d show persistent neuronal activity themselves, implying that the persistent internal state is maintained by other mechanisms. Moreover, inactivation of pC1d did not significantly reduce aIPg-evoked persistent aggression, arguing that the aggressive state did not depend on pC1d-aIPg recurrent connectivity. Our results suggest the need for alternative models to explain persistent female aggression.

 

Preprint: https://www.biorxiv.org/content/10.1101/2023.06.07.543722v2

View Publication Page
03/26/25 | 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 , Michal Januszewski , Nathan C Klapoetke , Sanna Koskela , Kit D Longden , Zhiyuan Lu , Stephan Preibisch , Wei Qiu , Edward M Rogers , Pavithraa Seenivasan , Arthur Zhao , John Bogovic , Brandon S Canino , Jody Clements , Michael Cook , Samantha Finley-May , Miriam A Flynn , Imran Hameed , Kenneth J Hayworth , Gary Patrick Hopkins , Philip M Hubbard , William T Katz , Julie Kovalyak , Shirley A Lauchie , Meghan Leonard , Alanna Lohff , Charli A Maldonado , Caroline Mooney , Nneoma Okeoma , Donald J Olbris , Christopher Ordish , Tyler Paterson , Emily M Phillips , Tobias Pietzsch , Jennifer Rivas Salinas , Patricia K Rivlin , Ashley L Scott , Louis A Scuderi , Satoko Takemura , Iris Talebi , Alexander Thomson , Eric T Trautman , Lowell Umayam , Claire Walsh , John J Walsh , C Shan Xu , Emily A Yakal , Tansy Yang , Ting Zhao , Jan Funke , Reed George , Harald F Hess , Gregory S X E Jefferis , Christopher Knecht , Wyatt Korff , Stephen M Plaza , Sandro Romani , Stephan Saalfeld , Louis K Scheffer , Stuart Berg , Gerald M Rubin , Michael B Reiser
Nature. 2025 Mar 26:. doi: 10.1038/s41586-025-08746-0

Vision provides animals with detailed information about their surroundings, conveying diverse features such as color, form, and movement across the visual scene. Computing these parallel spatial features requires a large and diverse network of neurons, such that in animals as distant as flies and humans, visual regions comprise half the brain’s volume. These visual brain regions often reveal remarkable structure-function relationships, with neurons organized along spatial maps with shapes that directly relate to their roles in visual processing. To unravel the stunning diversity of a complex visual system, a careful mapping of the neural architecture matched to tools for targeted exploration of that circuitry is essential. Here, we report a new connectome of the right optic lobe from a male Drosophila central nervous system FIB-SEM volume and a comprehensive inventory of the fly’s visual neurons. We developed a computational framework to quantify the anatomy of visual neurons, establishing a basis for interpreting how their shapes relate to spatial vision. By integrating this analysis with connectivity information, neurotransmitter identity, and expert curation, we classified the 53,000 neurons into 727 types, about half of which are systematically described and named for the first time. Finally, we share an extensive collection of split-GAL4 lines matched to our neuron type catalog. Together, this comprehensive set of tools and data unlock new possibilities for systematic investigations of vision in Drosophila, a foundation for a deeper understanding of sensory processing.

 

View Publication Page
01/31/25 | Targets of Circadian Clock Neurons Influence Core Clock Parameters
Scholz-Carson E, Iyer AR, Ewer J, Fernandez MP
bioRxiv. 2025 Jan 31:. doi: https://doi.org/10.1101/2025.01.30.635801v1

Neuronal connectivity in the circadian clock network is essential for robust endogenous timekeeping. In the Drosophila circadian clock network, the four pairs of small ventral lateral neurons (sLNvs) serve as main pacemakers. Peptidergic communication via sLNv, which release the key output neuropeptide, Pigment Dispersing Factor (PDF), has been well characterized. In the absence of PDF, flies become largely arrhythmic, similar to the phenotype associated with the loss of the mammalian circadian peptide, VIP. In contrast, little is known about the role of the synaptic connections that sLNvs form with downstream neurons. Connectomic analyses revealed that despite their role as key pacemaker neurons within the clock network, the sLNvs form few connections with other clock neurons. However, they form strong synaptic connections with a small group of previously uncharacterized neurons, SLP316, which in turn synapse onto dorsal clock neurons. Here, we show that silencing SLP316 neurons via tetanus toxin (TNT) expression shortens the free-running period, whereas hyper-exciting them by expressing the constitutively open Na[+] channel, NaChBac, results in period lengthening. Under light-dark cycles, silencing SLP316 neurons also causes lower daytime activity and higher daytime sleep. Our results revealed that the main postsynaptic partners of the Drosophila pacemaker neurons are a non-clock neuronal cell type that regulates the timing of sleep and activity.

View Publication Page
01/21/25 | Cell type-specific driver lines targeting the Drosophila central complex and their use to investigate neuropeptide expression and sleep regulation
Wolff T, Eddison M, Chen N, Nern A, Sundaramurthi P, Sitaraman D, Rubin GM
elife. 2025 Jan 21:. doi: 10.7554/elife.104764.2

The central complex (CX) plays a key role in many higher-order functions of the insect brain including navigation and activity regulation. Genetic tools for manipulating individual cell types, and knowledge of what neurotransmitters and neuromodulators they express, will be required to gain mechanistic understanding of how these functions are implemented. We generated and characterized split-GAL4 driver lines that express in individual or small subsets of about half of CX cell types. We surveyed neuropeptide and neuropeptide receptor expression in the central brain using fluorescent in situ hybridization. About half of the neuropeptides we examined were expressed in only a few cells, while the rest were expressed in dozens to hundreds of cells. Neuropeptide receptors were expressed more broadly and at lower levels. Using our GAL4 drivers to mark individual cell types, we found that 51 of the 85 CX cell types we examined expressed at least one neuropeptide and 21 expressed multiple neuropeptides. Surprisingly, all co-expressed a small neurotransmitter. Finally, we used our driver lines to identify CX cell types whose activation affects sleep, and identified other central brain cell types that link the circadian clock to the CX. The well-characterized genetic tools and information on neuropeptide and neurotransmitter expression we provide should enhance studies of the CX.

View Publication Page
01/06/25 | A split-GAL4 driver line resource for Drosophila neuron types
Meissner GW, Vannan A, Jeter J, Close K, Depasquale GM, Dorman Z, Forster K, Beringer JA, Gibney TV, Hausenfluck JH, He Y, Henderson K, Johnson L, Johnston RM, Ihrke G, Iyer N, Lazarus R, Lee K, Li H, Liaw H, Melton B, Miller S, Motaher R, Novak A, Ogundeyi O, Petruncio A, Price J, Protopapas S, Tae S, Taylor J, Vorimo R, Yarbrough B, Zeng KX, Zugates CT, Dionne H, Angstadt C, Ashley K, Cavallaro A, Dang T, Gonzalez GA, Hibbard KL, Huang C, Kao J, Laverty T, Mercer M, Perez B, Pitts S, Ruiz D, Vallanadu V, Zheng GZ, Goina C, Otsuna H, Rokicki K, Svirskas RR, Cheong HS, Dolan M, Ehrhardt E, Feng K, El Galfi B, Goldammer J, Huston SJ, Hu N, Ito M, McKellar C, minegishi r, Namiki S, Nern A, Schretter CE, Sterne GR, Venkatasubramanian L, Wang K, Wolff T, Wu M, George R, Malkesman O, Aso Y, Card GM, Dickson BJ, Korff W, Ito K, Truman JW, Zlatic M, Rubin GM