Main Menu (Mobile)- Block

Main Menu - Block

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

Filter

facetapi-Q2b17qCsTdECvJIqZJgYMaGsr8vANl1n | block

Associated Lab

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

3908 Publications

Showing 3851-3860 of 3908 results
03/20/17 | Volumetric two-photon imaging of neurons using stereoscopy (vTwINS)
Song A, Charles AS, Koay SA, Gauthier JL, Thiberge SY, Pillow JW, Tank DW
Nature Methods. 03/2017;14(4):420 - 426. doi: 10.1038/nmeth.4226

Two-photon laser scanning microscopy of calcium dynamics using fluorescent indicators is a widely used imaging method for large-scale recording of neural activity in vivo. Here, we introduce volumetric two-photon imaging of neurons using stereoscopy (vTwINS), a volumetric calcium imaging method that uses an elongated, V-shaped point spread function to image a 3D brain volume. Single neurons project to spatially displaced 'image pairs' in the resulting 2D image, and the separation distance between projections is proportional to depth in the volume. To demix the fluorescence time series of individual neurons, we introduce a modified orthogonal matching pursuit algorithm that also infers source locations within the 3D volume. We illustrated vTwINS by imaging neural population activity in the mouse primary visual cortex and hippocampus. Our results demonstrated that vTwINS provides an effective method for volumetric two-photon calcium imaging that increases the number of neurons recorded while maintaining a high frame rate.

View Publication Page
02/20/18 | VPS4 is a dynamic component of the centrosome that regulates centrosome localization of γ-tubulin, centriolar satellite stability and ciliogenesis.
Ott C, Nachmias D, Adar S, Jarnik M, Sherman S, Birnbaum RY, Lippincott-Schwartz J, Elia N
Scientific Reports. 2018 Feb 20;8(1):3353. doi: 10.1038/s41598-018-21491-x

The hexameric AAA ATPase VPS4 facilitates ESCRT III filament disassembly on diverse intracellular membranes. ESCRT III components and VPS4 have been localized to the ciliary transition zone and spindle poles and reported to affect centrosome duplication and spindle pole stability. How the canonical ESCRT pathway could mediate these events is unclear. We studied the association of VPS4 with centrosomes and found that GFP-VPS4 was a dynamic component of both mother and daughter centrioles. A mutant, VPS4, which can't hydrolyze ATP, was less dynamic and accumulated at centrosomes. Centrosome localization of the VPS4mutant, caused reduced γ-tubulin levels at centrosomes and consequently decreased microtubule growth and altered centrosome positioning. In addition, preventing VPS4 ATP hydrolysis nearly eliminated centriolar satellites and paused ciliogensis after formation of the ciliary vesicle. Zebrafish embryos injected with GFP-VPS4mRNA were less viable, exhibited developmental defects and had fewer cilia in Kupffer's vesicle. Surprisingly, ESCRT III proteins seldom localized to centrosomes and their depletion did not lead to these phenotypes. Our data support an ESCRT III-independent function for VPS4 at the centrosome and reveal that this evolutionary conserved AAA ATPase influences diverse centrosome functions and, as a result, global cellular architecture and development.

View Publication Page
08/24/10 | Walking modulates speed sensitivity in Drosophila motion vision.
Chiappe ME, Seelig JD, Reiser MB, Jayaraman V
Current Biology. 2010 Aug 24;20(16):1470-5. doi: 10.1016/j.cub.2010.06.072

Changes in behavioral state modify neural activity in many systems. In some vertebrates such modulation has been observed and interpreted in the context of attention and sensorimotor coordinate transformations. Here we report state-dependent activity modulations during walking in a visual-motor pathway of Drosophila. We used two-photon imaging to monitor intracellular calcium activity in motion-sensitive lobula plate tangential cells (LPTCs) in head-fixed Drosophila walking on an air-supported ball. Cells of the horizontal system (HS)–a subgroup of LPTCs–showed stronger calcium transients in response to visual motion when flies were walking rather than resting. The amplified responses were also correlated with walking speed. Moreover, HS neurons showed a relatively higher gain in response strength at higher temporal frequencies, and their optimum temporal frequency was shifted toward higher motion speeds. Walking-dependent modulation of HS neurons in the Drosophila visual system may constitute a mechanism to facilitate processing of higher image speeds in behavioral contexts where these speeds of visual motion are relevant for course stabilization.

View Publication Page
05/05/17 | What can tiny mushrooms in fruit flies tell us about learning and memory?
Hige T
Neuroscience Research. 2017 May 05;129:8-16. doi: 10.1016/j.neures.2017.05.002

Nervous systems have evolved to translate external stimuli into appropriate behavioral responses. In an ever-changing environment, flexible adjustment of behavioral choice by experience-dependent learning is essential for the animal's survival. Associative learning is a simple form of learning that is widely observed from worms to humans. To understand the whole process of learning, we need to know how sensory information is represented and transformed in the brain, how it is changed by experience, and how the changes are reflected on motor output. To tackle these questions, studying numerically simple invertebrate nervous systems has a great advantage. In this review, I will feature the Pavlovian olfactory learning in the fruit fly, Drosophila melanogaster. The mushroom body is a key brain area for the olfactory learning in this organism. Recently, comprehensive anatomical information and the genetic tool sets were made available for the mushroom body circuit. This greatly accelerated the physiological understanding of the learning process. One of the key findings was dopamine-induced long-term synaptic plasticity that can alter the representations of stimulus valence. I will mostly focus on the new studies within these few years and discuss what we can possibly learn about the vertebrate systems from this model organism.

View Publication Page
12/01/03 | What you didn't know about evo-devo
David L Stern
Development. 12/2003;130(23):5560-5561. doi: 10.1242/dev.00767

As most of us are aware, today's primary school, high school and undergraduate biology programs are struggling to incorporate even a fraction of the 'molecular revolution'of biological knowledge and technologies that surround us. In the first term alone, life science and biology classes of the new millennia routinely cover condensed versions of the year-long classes taught in the 60s, 70s and 80s. Teachers no longer have the luxury of spending half a year presenting Mendel and his peas.

View Publication Page
02/06/17 | When complex neuronal structures may not matter
Otopalik AG, Sutton AC, Banghart M, Marder E, Raman IM
eLife. 2017 Feb 6;6:e23508. doi: 10.7554/eLife.23508

Much work has explored animal-to-animal variability and compensation in ion channel expression. Yet, little is known regarding the physiological consequences of morphological variability. We quantify animal-to-animal variability in cable lengths (CV = 0.4) and branching patterns in the Gastric Mill (GM) neuron, an identified neuron type with highly-conserved physiological properties in the crustacean stomatogastric ganglion (STG) of \textitCancer borealis. We examined passive GM electrotonic structure by measuring the amplitudes and apparent reversal potentials (E\textsubscriptrevs) of inhibitory responses evoked with focal glutamate photo-uncaging in the presence of TTX. Apparent E\textsubscriptrevs were relatively invariant across sites (mean CV ± SD = 0.04 ± 0.01; 7–20 sites in each of 10 neurons), which ranged between 100–800 µm from the somatic recording site. Thus, GM neurons are remarkably electrotonically compact (estimated λ > 1.5 mm). Electrotonically compact structures, in consort with graded transmission, provide an elegant solution to observed morphological variability in the STG.

View Publication Page
01/13/20 | When does midbrain dopamine activity exert its effects on behavior?
Coddington LT
Nature Neuroscience. 2020 Jan 13;23(2):154-6. doi: 10.1038/s41593-019-0577-y
08/03/06 | When good enough is best.
Kay LM, Beshel J, Martin C
Neuron. 2006 Aug 3;51:277-8. doi: 10.1523/JNEUROSCI.3613-08.2008

In this issue of Neuron, Rinberg et al. show that mice use a speed-accuracy tradeoff in odor discrimination. Shorter sampling results in high performance for easy problems, and enforced longer sampling results in higher accuracy for difficult problems, but mice freely choose intermediate sampling durations and accuracy varies with difficulty. Reward value and task requirements may determine sampling time choice and performance levels.

View Publication Page
Riddiford Lab
05/15/11 | When is weight critical?
Riddiford LM
The Journal of Experimental Biology. 2011 May 15;214(Pt 10):1613-5. doi: 10.1242/jeb.049098
03/15/22 | When light meets biology - how the specimen affects quantitative microscopy.
Reiche MA, Aaron JS, Boehm U, DeSantis MC, Hobson CM, Khuon S, Lee RM, Chew T
Journal of Cell Science. 2022 Mar 15;135(6):. doi: 10.1242/jcs.259656

Fluorescence microscopy images should not be treated as perfect representations of biology. Many factors within the biospecimen itself can drastically affect quantitative microscopy data. Whereas some sample-specific considerations, such as photobleaching and autofluorescence, are more commonly discussed, a holistic discussion of sample-related issues (which includes less-routine topics such as quenching, scattering and biological anisotropy) is required to appropriately guide life scientists through the subtleties inherent to bioimaging. Here, we consider how the interplay between light and a sample can cause common experimental pitfalls and unanticipated errors when drawing biological conclusions. Although some of these discrepancies can be minimized or controlled for, others require more pragmatic considerations when interpreting image data. Ultimately, the power lies in the hands of the experimenter. The goal of this Review is therefore to survey how biological samples can skew quantification and interpretation of microscopy data. Furthermore, we offer a perspective on how to manage many of these potential pitfalls.

View Publication Page