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29 protocols using ultima 4

1

Two-Photon Microscopy with Fura-2

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The two-photon microscope (Ultima IV, Bruker) was illuminated by a Ti:Sa laser (Mai Tai Deep See HP, Spectra-Physics). The laser was tuned to 780 nm for fura-2 excitation. All images were acquired with a water immersion objective (10×, NA 0.3, Olympus).
Fluorescence was collected in epi-configuration, selected by a dichroic mirror, filtered with a band-pass filter centred at 525 nm and with a 70 nm bandwidth (Chroma Technology), and detected by a photomultiplier tube (Hamamatsu Photonics). The laser power was limited to about 10 mW to reduce photodamage on the specimen, maintaining a good signal-to-noise (SNR) ratio.
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2

Multiphoton Imaging of NADH and FAD

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All imaging was done at the Laboratory for Optical and Computational Instrumentation (LOCI) at the University of Wisconsin-Madison. Upright intensity Multiphoton Microscopy was conducted on the Ultima IV (Bruker Nano Surfaces, Middleton, WI40 (link)). Laser excitation on the Ultima IV was provided by the Insight (Spectra Physics, Palo Alto, CA). Detection was provided by Hamamatsu multi-alkali photomultiplier detectors. Data acquisition and scanning control was provided by PrairieView (Bruker Nano Surfaces, Middleton, WI). Images were gathered with Zeiss 20x 1.0 NA objective lens. NADH images were collected at 780 nm excitation and emission collected with 445/35 BP filter (Semrock). NADHHI cells were defined as the upper 30% of pixel values in NADH image. FAD were collected at 890 nm excitation using 562/30 BP filter (Semrock). FAD HI cells were defined as the top 20% pixel intensities. All NADHHI and FADHI images were subsequently thresholded using FIJI threshold and display only pixels in these regions.
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3

Imaging Neuronal Activity via LFP

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Mice prepared for the imaging experiments were implanted with a perforated glass window on the right hemisphere. The LFP was recorded by a glass electrode inserted through the coverslip perforation. LFP traces were sampled at 2 kHz. Imaging was performed with a 2-photon microscope (Ultima IV; Bruker, Billerica, MA, USA) with a 20–30 mW power on the sample.
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4

Two-Photon Imaging of Microglial Dynamics

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A two-photon scanning laser microscope (Ultima IV; Bruker) was utilized to image CX3CR1-GFP transgenic mice expressing GFP in microglia. The components of the microscope included a scan head, OPO laser, non-descanned photomultiplier tubes (Insight DS+; Spectra-Physics), and 16X, 0.8 numerical aperture water immersion objective lens (Nikon). Mice were injected i.p. with sulforhodamine 101 (SR101) as a vascular contrast agent. The microscope laser was tuned to 920 nm to excite both GFP and SR101, and the resulting fluorescence was captured in green and red channels, respectively. ZT-stack images were taken every minute for the first 80 min following implantation for acute mice. In addition, Z-stack images were taken at 2, 3, 4, 5, and 6 h post-implantation for acute mice and 6, 12, 24, 48, and 72 h post-insertion for sub-chronic mice. Mice were stereotaxically secured while anesthetized with 1%–1.5% isoflurane during all imaging sessions. Stacks covered a span of 412.8 by 412.8 μm (1024 by 1024 pixels) in the horizontal plane with depths of around 300 μm. Images were taken above the top shank and/or below the bottom shank depending on variable visibility due to blood vessels or pial surface bleeding. Only microglia outside the outer shanks and in plane with the probes were included for analysis.
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In Vivo Calcium Imaging of Freely Behaving Mice

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For time-lapse imaging in freely behaving mice using an integrated miniature fluorescence microscope (nVistaHD, Inscopix), we followed a previously established protocol18 (link),38 (link). Briefly, at least 3 weeks after the surgical implantation procedure, we examined the expression of a Ca2+ indicator and tissue health by imaging mice under isoflurane anesthesia using a two-photon microscope (Ultima IV, Bruker, Germany) equipped with a tunable Ti:Sapphire laser (Insight, Spectra Physics, Santa Clara, CA). For the CA1-implanted mice, we inserted into the guide tube a ‘microendoscope’ consisting of a single gradient refractive index lens (0.44 pitch length, 0.47 NA, GRINtech GmbH, Germany). We selected for further imaging only those mice that exhibited homogenous GCaMP6 expression and appeared to have healthy tissue. For the selected CA1-implanted mice, we affixed the microendoscope within the guide tube using an ultraviolet-curing adhesive (Norland, NOA81, Edmund Optics, Barrington, NJ). Next, we attached the microscope’s base plate to the dental acrylic cap using light cured acrylic (Flow-It ALC, Pentron, Orange, CA). All mice were returned to their home cages for several days following the aforementioned procedure.
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6

Two-Photon Imaging of Calcium Dynamics

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Imaging was performed via a two-photon fluorescence microscope (Ultima IV, Bruker) combined with an ultra-short pulsed laser (Mai Tai Deep See HP, Spectra-Physics-Newport), tuned to 800 nm for fura-2 excitation28 (link). The beam was focussed by a water-immersion objective (20x, NA 1.0, Olympus). The fluorescence was collected in epi-configuration, selected by a dichroic mirror, and filtered with a band-pass filter centred at 525 nm with 70 nm bandwidth (Chroma Technology Corp). Finally, it was detected by photomultiplier tube (Hamamatsu Photonics). An optimal signal-to-noise ratio was achieved with a laser power ≈10 mW, without any sign of photobleaching. The AL was repeatedly scanned by a set of galvanometric mirrors along a spiral line of interest crossing all glomeruli within a selected focal plane. The frame rate was ≈30 Hz. Changes in the intracellular calcium concentration manifested themselves as temporal variations of the fura-2 fluorescence intensity.
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7

Two-Photon Imaging of Neuronal Activity

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After recovering from the microprism implantation surgery, the animal was subject to weekly head-fix two-photon imaging on a treadmill. Two-photon fluorescence images were acquired using a two-photon microscopy system (Ultima IV, Bruker Nano, Inc.) with a 16 x 0.8 NA objective lens (Nikon, Inc.). The ultra-fast tunable laser (Insight X3, Newport Spectra-Physics, Inc.) was set to 1025 nm for simultaneous imaging of Thy1-jRGECO1a and CX3CR1-GFP, and 800 nm for imaging the Cascade Blue blood vessel dye (Dextran, 3000 MW, Invitrogen.). Cascade Blue Dextran was used as vascular dye and it was injected IP immediately prior to imaging. Time-series imaging was conducted over a field-of-view spanning 815 x 815 μm and matrix size of 512 x 512 pixels at 1 Hz for a total of 20 min. The first 30 s of every acquisition was used for further quantifications. The laser power was kept below 40 mW to prevent potential tissue thermal damage.
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8

In vivo Calcium Imaging of Vagal Neurons

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In vivo vagal nodose imaging was performed in Neurod1Cre_Salsa6f (N = 4) mice where GCaMP6f is expressed in vagal neurons. Nodose imaging was performed as previously described17 . Mice were initially anesthetized with urethane (2 mg g–1) and maintained with 0–0.5% isoflurane as needed throughout the procedure. The right nodose ganglion was partially excised and placed on a metal platform, stabilized with silicone elastomer (Kwik-Sil) and covered with a 5-mm coverslip. A 20-gauge gavage needle attached to a gravity perfusion system was surgically inserted through the stomach wall into the duodenum. A perfusion exit incision was made at the ligament of Treitz. PBS was constantly perfused at <1 ml min–1 for the duration of the recording as a within-subject baseline and volume pressure control. Calcium transients were imaged using a multiphoton microscope (Bruker Ultima IV) using a ×16 objective. Laser wavelength was set to 920 nm, and frames were captured at a rate of 683 ms per frame. Baseline activity was imaged while perfusing PBS. Sucrose (300 mM) and sucralose (15 mM) stimuli were perfused back to back and in reverse order to determine whether the same cell or different cells responded to both sugars. In addition, mannitol (300 mM) was used as an osmolarity control. Stimuli were delivered for 60 s with 2 min of baseline before and after application.
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9

Vagal Nodose Calcium Imaging in Mice

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In vivo vagal nodose imaging was performed in Neurod1Cre_Salsa6f (N = 4) mice where GCaMP6f is expressed in vagal neurons. Nodose imaging was performed as previously described18 (link). Mice were initially anesthetized with urethane (2 mg/g) and maintained with 0-0.5% isoflurane as needed throughout the procedure. The right nodose ganglion was partially excised and placed on a metal platform, stabilized with silicone elastomer (Kwik-Sil), and covered with a 5mm coverslip. A 20-gauge gavage needle attached to a gravity perfusion system was surgically inserted through the stomach wall into the duodenum. A perfusion exit incision was made at the ligament of Treitz. PBS was constantly perfused at <1ml/min for the duration of the recording as a within subject baseline and volume pressure control. Calcium transients were imaged using a multiphoton microscope (Bruker Ultima IV) using a 16X objective. Laser wavelength was set to 920nm, and frames were captured at a rate of 683-ms per frame. Baseline activity was imaged while perfusing PBS. Sucrose [300 mM] and sucralose [15 mM] stimuli were perfused back-to-back and in reverse order to determine whether the same cell or different cells responded to both sugars. In addition, mannitol [300 mM] was used as an osmolarity control. Stimuli were delivered for 60 seconds with 2 minutes of baseline before and after application.
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10

Miniaturized Microscopy for Freely Behaving Birds

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Head-mounted miniaturized fluorescent microscopy in freely behaving singing birds was conducted with an nVista system (Inscopix). Two-photon microscopy was conducted with a commercial microscope (Ultima IV, Bruker) running Prairie View software using a 20x (1.0 NA) objective (Zeiss) with excitation at 920 nm (Mai Tai HP DS, Newport). Two-photon and initial single photon imaging was conducted in lightly anesthetized head-fixed animals. Two-photon and single-photon images of HVC were acquired through the cranial window using a sCMOS camera (QImaging, optiMOS) and these images were used to guide placement of the baseplate for the miniaturized single-photon microscope (Inscopix). CAD files for head holders and stereotaxic devices are available upon request.
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