Filter
Associated Lab
- Aguilera Castrejon Lab (1) Apply Aguilera Castrejon Lab filter
- Ahrens Lab (4) Apply Ahrens Lab filter
- Aso Lab (3) Apply Aso Lab filter
- Betzig Lab (1) Apply Betzig Lab filter
- Beyene Lab (1) Apply Beyene Lab filter
- Branson Lab (3) Apply Branson Lab filter
- Card Lab (3) Apply Card Lab filter
- Dudman Lab (1) Apply Dudman Lab filter
- Espinosa Medina Lab (1) Apply Espinosa Medina Lab filter
- Fitzgerald Lab (1) Apply Fitzgerald Lab filter
- Funke Lab (2) Apply Funke Lab filter
- Harris Lab (2) Apply Harris Lab filter
- Hermundstad Lab (1) Apply Hermundstad Lab filter
- Hess Lab (1) Apply Hess Lab filter
- Ilanges Lab (1) Apply Ilanges Lab filter
- Jayaraman Lab (1) Apply Jayaraman Lab filter
- Ji Lab (1) Apply Ji Lab filter
- Keller Lab (1) Apply Keller Lab filter
- Lavis Lab (9) Apply Lavis Lab filter
- Lippincott-Schwartz Lab (7) Apply Lippincott-Schwartz Lab filter
- Liu (Zhe) Lab (5) Apply Liu (Zhe) Lab filter
- Looger Lab (1) Apply Looger Lab filter
- Otopalik Lab (1) Apply Otopalik Lab filter
- Pachitariu Lab (4) Apply Pachitariu Lab filter
- Pedram Lab (2) Apply Pedram Lab filter
- Reiser Lab (3) Apply Reiser Lab filter
- Rubin Lab (3) Apply Rubin Lab filter
- Saalfeld Lab (2) Apply Saalfeld Lab filter
- Satou Lab (1) Apply Satou Lab filter
- Schreiter Lab (2) Apply Schreiter Lab filter
- Shroff Lab (9) Apply Shroff Lab filter
- Singer Lab (1) Apply Singer Lab filter
- Stern Lab (7) Apply Stern Lab filter
- Stringer Lab (6) Apply Stringer Lab filter
- Tebo Lab (3) Apply Tebo Lab filter
- Tillberg Lab (2) Apply Tillberg Lab filter
- Turaga Lab (2) Apply Turaga Lab filter
- Vale Lab (3) Apply Vale Lab filter
- Voigts Lab (1) Apply Voigts Lab filter
- Wang (Meng) Lab (5) Apply Wang (Meng) Lab filter
- Wang (Shaohe) Lab (3) Apply Wang (Shaohe) Lab filter
Associated Project Team
- Fly Descending Interneuron (1) Apply Fly Descending Interneuron filter
- FlyEM (5) Apply FlyEM filter
- FlyLight (4) Apply FlyLight filter
- GENIE (3) Apply GENIE filter
- Integrative Imaging (1) Apply Integrative Imaging filter
- MouseLight (1) Apply MouseLight filter
- Tool Translation Team (T3) (8) Apply Tool Translation Team (T3) filter
Associated Support Team
- Cryo-Electron Microscopy (3) Apply Cryo-Electron Microscopy filter
- Electron Microscopy (1) Apply Electron Microscopy filter
- Fly Facility (1) Apply Fly Facility filter
- Janelia Experimental Technology (1) Apply Janelia Experimental Technology filter
- Project Technical Resources (8) Apply Project Technical Resources filter
- Scientific Computing Software (5) Apply Scientific Computing Software filter
121 Janelia Publications
Showing 31-40 of 121 resultsThe sense of direction is critical for survival in changing environments and relies on flexibly integrating self-motion signals with external sensory cues. While the anatomical substrates involved in head direction (HD) coding are well known, the mechanisms by which visual information updates HD representations remain poorly understood. Retrosplenial cortex (RSC) plays a key role in forming coherent representations of space in mammals and it encodes a variety of navigational variables, including HD. Here, we use simultaneous two-area tetrode recording to show that RSC HD representation is nearly synchronous with that of the anterodorsal nucleus of thalamus (ADn), the obligatory thalamic relay of HD to cortex, during rotation of a prominent visual cue. Moreover, coordination of HD representations in the two regions is maintained during darkness. We further show that anatomical and functional connectivity are consistent with a strong feedforward drive of HD information from ADn to RSC, with anatomically restricted corticothalamic feedback. Together, our results indicate a concerted global HD reference update across cortex and thalamus.
Endoplasmic reticulum exit sites (ERESs) are tubular outgrowths of endoplasmic reticulum that serve as the earliest station for protein sorting and export into the secretory pathway. How these structures respond to different cellular conditions remains unclear. Here, we report that ERESs undergo lysosome-dependent microautophagy when Ca is released by lysosomes in response to nutrient stressors such as mTOR inhibition or amino acid starvation in mammalian cells. Targeting and uptake of ERESs into lysosomes were observed by super-resolution live-cell imaging and focus ion beam scanning electron microscopy (FIB-SEM). The mechanism was ESCRT dependent and required ubiquitinated SEC31, ALG2, and ALIX, with a knockout of ALG2 or function-blocking mutations of ALIX preventing engulfment of ERESs by lysosomes. In vitro, reconstitution of the pathway was possible using lysosomal lipid-mimicking giant unilamellar vesicles and purified recombinant components. Together, these findings demonstrate a pathway of lysosome-dependent ERES microautophagy mediated by COPII, ALG2, and ESCRTS induced by nutrient stress.
In the nucleus, biological processes are driven by proteins that diffuse through and bind to a meshwork of nucleic acid polymers. To better understand this interplay, we present an imaging platform to simultaneously visualize single protein dynamics together with the local chromatin environment in live cells. Together with super-resolution imaging, new fluorescent probes, and biophysical modeling, we demonstrate that nucleosomes display differential diffusion and packing arrangements as chromatin density increases whereas the viscoelastic properties and accessibility of the interchromatin space remain constant. Perturbing nuclear functions impacts nucleosome diffusive properties in a manner that is dependent both on local chromatin density and on relative location within the nucleus. Our results support a model wherein transcription locally stabilizes nucleosomes while simultaneously allowing for the free exchange of nuclear proteins. Additionally, they reveal that nuclear heterogeneity arises from both active and passive processes and highlight the need to account for different organizational principles when modeling different chromatin environments.
Single-molecule localization microscopy (SMLM) uses activatable or switchable fluorophores to create non-diffraction limited maps of molecular location in biological samples. Despite the utility of this imaging technique, the portfolio of appropriate labels for SMLM remains limited. Here, we describe a general strategy for the construction of “glitter bomb” labels by simply combining rhodamine and coumarin dyes though an amide bond. Condensation of the ortho-carboxyl group on the pendant phenyl ring of rhodamine dyes with a 7-aminocoumarin yields photochromic or spontaneously blinking fluorophores depending on the parent rhodamine structure. We apply this strategy to prepare labels useful super-resolution experiments in fixed cells using different attachment techniques. This general glitter bomb strategy should lead to improved labels for SMLM, ultimately enabling the creation of detailed molecular maps in biological samples.
The courtship song of Drosophila melanogaster has long served as excellent model system for studies of animal communication and differences in courtship song have been demonstrated among populations and between species. Here, we report that flies of African and European origin, which diverged approximately 13,000 years ago, show significant genetic differentiation in the use of slow versus fast pulse song. Using a combination of quantitative trait mapping and population genetic analysis we detected a single strong QTL underlying this trait and we identified candidate genes that may contribute to the evolution of this trait. Song trait variation between parental strains of our recombinant inbred panel enabled detection of genomic intervals associated with six additional song traits, some of which include known courtship-related genes. These findings improve the prospects for further genetic insights into the evolution of reproductive behavior and the biology underlying courtship song.
Chemical synapses are the major sites of communication between neurons in the nervous system and mediate either excitatory or inhibitory signaling. At excitatory synapses, glutamate is the primary neurotransmitter and upon release from presynaptic vesicles, is detected by postsynaptic glutamate receptors, which include ionotropic AMPA and NMDA receptors. Here we have developed methods to identify glutamatergic synapses in brain tissue slices, label AMPA receptors with small gold nanoparticles (AuNPs), and prepare lamella for cryo-electron tomography studies. The targeted imaging of glutamatergic synapses in the lamella is facilitated by fluorescent pre- and postsynaptic signatures, and the subsequent tomograms allow for identification of key features of chemical synapses, including synaptic vesicles, the synaptic cleft and AuNP-labeled AMPA receptors. These methods pave the way for imaging natively derived brain regions at high resolution, using unstained, unfixed samples preserved under near-native conditions.
Although the dynamic instability of microtubules (MTs) is fundamental to many cellular functions, quiescent MTs with unattached free distal ends are commonly present and play important roles in various events to power cellular dynamics. However, how these free MT tips are stabilized remains poorly understood. Here, we report that centrosome and spindle pole protein 1 (CSPP1) caps and stabilizes both plus and minus ends of static MTs. Real-time imaging of laser-ablated MTs in live cells showed deposition of CSPP1 at the newly generated MT ends, whose dynamic instability was concomitantly suppressed. Consistently, MT ends in CSPP1-overexpressing cells were hyper-stabilized, while those in CSPP1-depleted cells were much more dynamic. This CSPP1-elicited stabilization of MTs was demonstrated to be achieved by suppressing intrinsic MT catastrophe and restricting the polymerization. Importantly, CSPP1-bound MTs were resistant to MCAK-mediated depolymerization. These findings delineate a previously uncharacterized CSPP1 activity that integrates MT end capping to orchestrate quiescent MTs.
The inherent limitations of fluorescence microscopy, notably the restricted number of color channels, have long constrained comprehensive spatial analysis in biological specimens. Here, we introduce cycleHCR technology that leverages multicycle DNA barcoding and Hybridization Chain Reaction (HCR) to surpass the conventional color barrier. cycleHCR facilitates high-specificity, single-shot imaging per target for RNA and protein species within thick specimens, mitigating the molecular crowding issues encountered with other imaging-based spatial omics techniques. We demonstrate whole-mount transcriptomics imaging of 254 genes within an E6.5\~7.0 mouse embryo, achieving precise three-dimensional gene expression and cell fate mapping across a specimen depth of \~ 310 µm. Utilizing expansion microscopy alongside protein cycleHCR, we unveil the complex network of 10 subcellular structures in primary mouse embryonic fibroblasts. Furthermore, in mouse hippocampal slice, we image 8 protein targets and profile the transcriptome of 120 genes, uncovering complex gene expression gradients and cell-type specific nuclear structural variances. cycleHCR provides a unifying framework for multiplex RNA and protein imaging, offering a quantitative solution for elucidating spatial regulations in deep tissue contexts for research and potentially diagnostic applications.
Dendrites on neurons support nonlinear electrical excitations, but the computational significance of these events is not well understood. We developed molecular, optical, and analytical tools to map sub-millisecond voltage dynamics throughout the dendritic trees of CA1 pyramidal neurons under diverse optogenetic and synaptic stimulus patterns, in acute brain slices. We observed history-dependent spike back-propagation in distal dendrites, driven by locally generated Na+ spikes (dSpikes). Dendritic depolarization created a transient window for dSpike propagation, opened by A-type KV channel inactivation, and closed by slow NaV inactivation. Collisions of dSpikes with synaptic inputs triggered calcium channel and N-methyl-D-aspartate receptor (NMDAR)-dependent plateau potentials, with accompanying complex spikes at the soma. This hierarchical ion channel network acts as a spike-rate accelerometer, providing an intuitive picture of how dendritic excitations shape associative plasticity rules.