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Prairie view 5

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Prairie View 5.4 is a software package developed by Bruker for the control and data acquisition of microscopy systems. It provides a user-friendly interface for configuring and operating various imaging techniques.

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Lab products found in correlation

Mai tai hp1040, by Spectra-Physics (2 mentions) Bx51 microscope, by Olympus (2 mentions) Bx61wi, by Olympus (2 mentions) Pkh26 linker kits, by Merck Group (2 mentions) 1.4 na oil immersion condenser, by Olympus (1 mentions) Oil immersion condenser, by Olympus (1 mentions) Matlab, by Bruker (1 mentions) Multiclamp 700b amplifier, by Molecular Devices (1 mentions) Labview, by National Instruments (1 mentions)

8 protocols using prairie view 5

1

Two-Photon Imaging and Glutamate Uncaging

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The procedure for two-photon imaging has been described in detail in our previous publications (Yang et al., 2014b (link)). Briefly, a Ti-sapphire laser was tuned to 810 nm (Coherent Chameleon) for morphological visualization with Alexa 594. Epi-fluorescent and trans-fluorescent signals were captured through a 60×, 1.0 N.A. objective and a 1.4 N.A. oil-immersion condenser (Olympus). The fluorescence was split into red and green channels using dichroic mirrors and band-pass filters. Red fluorescence (Alexa 594) signals were captured using R9110 photomultiplier tubes. For glutamate uncaging, another Ti-sapphire laser was tuned to 720 nm (Coherent Chameleon) to release the 4-methoxy-7-nitroindolinyl (MNI) compound from glutamate. MNI-caged-l-glutamate (Tocris) was prepared each day freshly at the final concentration (500 μM) in the physiological solution. The 3 × 3 grid of point stimulation (5 ms laser duration, 10 μm spot spacing, and various interpoint delay, > 0.12 ms) at an average power of 42 mW (ranged from 7.5 to 78.08 mW) was performed using Prairie View 5.4 software (Bruker Corporation); each spot size ranged from a diffraction-limited spot 0.2 to 1 μm (with laser intensity and objective dependency). Cadmium chloride (CdCl2; 0.1 mM) was externally applied to the brain slices to block chemical synaptic transmission at the presynaptic terminals.
Pak S., Choi G., Roy J., Poon C.H., Lee J., Cho D., Lee M., Lim L.W., Bao S., Yang S, & Yang S. (2022). Altered synaptic plasticity of the longitudinal dentate gyrus network in noise-induced anxiety. iScience, 25(6), 104364.
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2

Two-Photon Imaging and Photostimulation

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Brain slices were imaged via two-photon excitation microscopy using an Olympus BX51 microscope with a 60× (1.0 NA) objective. Infrared excitation light was provided via a Ti:sapphire laser system (Mai Tai HP1040; Spectra Physics), and non-de-scanned fluorescence emission was acquired via dual photomultiplier tubes. The microscope was equipped with a dual scanhead; one x–y galvanometer mirror system controlled the imaging laser beam while another x–y galvanometer system independently positioned a photostimulation (405 nm; OBIS FP LX; Coherent) beam for photolysis of PA-Nic (Banala et al., 2018 (link)). For two-photon experiments, all aspects of imaging, photostimulation, and recording were conducted using Prairie View 5.4 software (Bruker Nano).
Yan Y., Peng C., Arvin M.C., Jin X.T., Kim V.J., Ramsey M.D., Wang Y., Banala S., Wokosin D.L., McIntosh J.M., Lavis L.D, & Drenan R.M. (2018). Nicotinic Cholinergic Receptors in VTA Glutamate Neurons Modulate Excitatory Transmission. Cell reports, 23(8), 2236-2244.
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3

Two-Photon Microscopy Configuration

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Timing: 15 min

Configure a two-photon laser microscope (e.g., Bruker Ultima In Vitro two-photon microscope) equipped with two lasers (e.g., Coherent Chameleon Ultra Ti: Sapphire), each of which is tuned to an excitation wavelength of 810 nm (for image acquisition) or 720 nm (for glutamate poststimulation) and modulated by an electro-optic modulator (or Pockel cell, Conotopics, M350).

Note: It may take approx. 10 min for the laser to warm up after turning on the power.

Note: The microscope is set up so that the epi-fluorescent and trans-fluorescent signals are captured through a 60×, 1.0 N.A. objective and a 1.4 N.A. oil-immersion condenser (Olympus). The fluorescence is split into red and green channels using dichroic mirrors and band-pass filters (ET545/30× and ET620/60 m, dichroic T570LP; ET470/40× and ET525/50 m dichroic T495LPXR). Red fluorescence (Alexa Fluor 594) signals are captured using R9110 photomultiplier tubes. Prairie View 5.4 software (Bruker) is used for image acquisition and photostimulation.

Kwon Y.J., Pak S., Yang S, & Yang S. (2023). Electrophysiological measurements of synaptic connectivity and plasticity in the longitudinal dentate gyrus network from mouse hippocampal slices. STAR Protocols, 4(1), 102030.
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4

Two-Photon Imaging and Photostimulation

Cited 1 time
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Brain slices were imaged via two-photon excitation microscopy using an Olympus BX51 microscope with a 60× (1.0 NA) objective. Infrared excitation light was provided via a Ti:sapphire laser system (Mai Tai HP1040; Spectra Physics), and non-de-scanned fluorescence emission was acquired via dual photomultiplier tubes. The microscope was equipped with a dual scanhead; one x–y galvanometer mirror system controlled the imaging laser beam while another x–y galvanometer system independently positioned a photostimulation (405 nm; OBIS FP LX; Coherent) beam for photolysis of PA-Nic (Banala et al., 2018 (link)). For two-photon experiments, all aspects of imaging, photostimulation, and recording were conducted using Prairie View 5.4 software (Bruker Nano).
Yan Y., Peng C., Arvin M.C., Jin X.T., Kim V.J., Ramsey M.D., Wang Y., Banala S., Wokosin D.L., McIntosh J.M., Lavis L.D, & Drenan R.M. (2018). Nicotinic Cholinergic Receptors in VTA Glutamate Neurons Modulate Excitatory Transmission. Cell reports, 23(8), 2236-2244.
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5

In Vivo Nanoparticle and EV Tracking

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Mice (BALB/c-nu or C57BL/6, 6–8 weeks old, male) were anesthetized by the intraperitoneal injection of 3% chloral hydrate and immobilized in the custom-made stereotactic apparatus under the objective. Saline, nanoparticles (NPs) and EVs were mixed with PKH26 linker kits (Sigma-Aldrich) in a ratio of 1:1, and the mixture was immediately injected intravenously into the four different groups: PBS, NPs (Turbo for BALB/c-nu mice and Liposome for C57BL/6 mice), exosomes and Exo-Ts; (n=3 per group). The upright laser scanning microscope (BX61WI, Olympus) attached to a Ti: sapphire pulsed laser system (80 MHz repetition rate, <100 fs pulse width, Spectra Physics) and software (Prairie view 5.4, Bruker) was used to track and measure the distribution of saline, NPs and EVs within the tumour area at different times after injection: 1h, 4h, 8h, and 24h. 20x water immersion (NA, 1.00; WD, 2 mm, Olympus), and 40x water-immersion objectives (NA 0.80, WD; 3.3 mm, Olympus) were chosen for fluorescence imaging in vivo., 890-nm irradiation wavelength was used to excite U87-Luc (or Gl261-Luc) and PKH26 red fluorescence, and emission light was differentiated and collected with 525/50 and 595/500 filters, respectively. The average laser power for imaging was less than 50 mW.
Yang Z., Shi J., Xie J., Wang Y., Sun J., Liu T., Zhao Y., Zhao X., Wang X., Ma Y., Malkoc V., Chiang C., Deng W., Chen Y., Fu Y., Kwak K.J., Fan Y., Kang C., Yin C., Rhee J., Bertani P., Otero J., Lu W., Yun K., Lee A.S., Jiang W., Teng L., Kim B.Y, & Lee L.J. (2019). Large-scale generation of functional mRNA-encapsulating exosomes via cellular nanoporation. Nature biomedical engineering, 4(1), 69-83.
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6

In Vivo Nanoparticle and EV Tracking

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Mice (BALB/c-nu or C57BL/6, 6–8 weeks old, male) were anesthetized by the intraperitoneal injection of 3% chloral hydrate and immobilized in the custom-made stereotactic apparatus under the objective. Saline, nanoparticles (NPs) and EVs were mixed with PKH26 linker kits (Sigma-Aldrich) in a ratio of 1:1, and the mixture was immediately injected intravenously into the four different groups: PBS, NPs (Turbo for BALB/c-nu mice and Liposome for C57BL/6 mice), exosomes and Exo-Ts; (n=3 per group). The upright laser scanning microscope (BX61WI, Olympus) attached to a Ti: sapphire pulsed laser system (80 MHz repetition rate, <100 fs pulse width, Spectra Physics) and software (Prairie view 5.4, Bruker) was used to track and measure the distribution of saline, NPs and EVs within the tumour area at different times after injection: 1h, 4h, 8h, and 24h. 20x water immersion (NA, 1.00; WD, 2 mm, Olympus), and 40x water-immersion objectives (NA 0.80, WD; 3.3 mm, Olympus) were chosen for fluorescence imaging in vivo., 890-nm irradiation wavelength was used to excite U87-Luc (or Gl261-Luc) and PKH26 red fluorescence, and emission light was differentiated and collected with 525/50 and 595/500 filters, respectively. The average laser power for imaging was less than 50 mW.
Yang Z., Shi J., Xie J., Wang Y., Sun J., Liu T., Zhao Y., Zhao X., Wang X., Ma Y., Malkoc V., Chiang C., Deng W., Chen Y., Fu Y., Kwak K.J., Fan Y., Kang C., Yin C., Rhee J., Bertani P., Otero J., Lu W., Yun K., Lee A.S., Jiang W., Teng L., Kim B.Y, & Lee L.J. (2019). Large-scale generation of functional mRNA-encapsulating exosomes via cellular nanoporation. Nature biomedical engineering, 4(1), 69-83.
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7

Visual Stimulus Protocol for Imaging Mice

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Visual stimuli were generated using the Psychophysics Toolbox in MATLAB (MathWorks) and displayed on a liquid crystal display monitor (19-inch diameter, 60-Hz refresh rate) positioned 15 cm from the right eye, roughly at 45° to the long axis of the animal. Stimuli were full-field squarewave gratings (100% contrast, 0.04 cycles per degree, 2 cycles per second) drifting in twelve different directions in random order presented for 3 s, followed by an interstimulus interval of 7–8 s of mean luminescence gray screen (Figure S2E). In each session, mice saw a total of 15 presentations of each stimulus. The timing and identity of gratings played in MATLAB were synchronized with image acquisition by outputting an analogue voltage trigger synchronized with stimulus onset and offset and recorded with the imaging computer using Prairie View 5.2 software (Bruker; Billerica, MA). The timing between actual stimulus onset and recorded voltage traces in Prairie View was confirmed beforehand using a photodiode sensor with a reverse biased voltage output recorded by the software in tandem with the MATLAB output triggers.
Hamm J.P., Peterka D.S., Gogos J.A, & Yuste R. (2017). Altered cortical ensembles in mouse models of schizophrenia. Neuron, 94(1), 153-167.e8.
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8

Patch-Clamp Electrophysiological Recordings

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Patch-clamp recordings (pipette resistance ~4–8 MΩ) were obtained using pipettes pulled from borosilicate glass (1.5 mm and 1 mm OD, 0.86 mm and 0.5 mm ID—Sutter Instruments, Novato, CA, USA) using a DMZ puller (Zeitz-Instrumente GmbH, Munich, Germany) and established using a Multiclamp 700B amplifier (Molecular Devices, Union City, CA, USA). Electrical signals were acquired at 10 kHz (NI-DAQ BNC-2090, National Instruments, TX, USA) and Bessel-filtered at 4 kHz using a PC equipped with custom software (PackIO55, National Instruments, TX, USA) written in LabView (National Instruments, TX, USA) or, in case of the in vivo experiments, Prairie View 5.2 (Bruker, MA, USA). All electrophysiological slice recordings shown in this paper were obtained with a resting membrane potential between −65 mV and −75mV. For the slices, the external bath was continuously perfused with ACSF.
de Boer W.D., Hirtz J.J., Capretti A., Gregorkiewicz T., Izquierdo-Serra M., Han S., Dupre C., Shymkiv Y, & Yuste R. (2018). Neuronal photoactivation through second-harmonic near-infrared absorption by gold nanoparticles. Light, Science & Applications, 7, 100.
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