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10 protocols using ff01 525 50

1

Two-Photon Microscopy for Green Imaging

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All imaging was performed on a custom 2-photon microscope built by the authors. Coherent light was provided by a Chameleon Ti-Sapphire laser (Chameleon XR, Coherent Inc.) tuned to 920 nm. All images were acquired with an Olympus water immersion objective (XLUMPlanFLNW 20x, NA 1.0). Collected green light passed through a 750 nm high-pass filter (Semrock, FF01-750/SP-50), a FF552-Di02-50 dichroic (Semrock), and finally through a “green” band-pass filter (Semrock, FF01-525/50). Signals were detected with an R10699 photomultiplier tube (Hamamatsu) and amplified with an SR570 amplifier (Stanford Research Systems). Scanning was conducted using 3 mm Cambridge Technologies galvanometric scan mirrors (part number 8315 KB) and laser power regulated by a Pockels cell (Conoptics). The microscope was controlled by an unmodified version of ScanImage 3.8 [9] . Data acquisition and galvo control were performed using National Instruments PCI-6110 and PCIe-6343 boards.
The test slide was made by painting a green patch on a standard slide using a Sharpie accent highlighter. We used the darker, rather than paler green, pen. A cover slip was placed over the patch and it was sealed with clear nail polish. Pollen grains were imaged from a “mixed pollen grain slide” (carolina.com).
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2

In Vivo Two-Photon Microscopy for Olfactory Imaging

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A custom-built two-photon microscope was used for in vivo imaging. Fluorophores were excited and imaged with a water immersion objective (20×, 0.95 NA, Olympus) at 920 nm using a Ti:Sapphire laser (Mai Tai HP, Spectra-Physics). Images were acquired at 16-bit resolution and 4–8 frames/s. The pixel size was 0.6 μm OSN somata imaging and 1.2–2.4 μm for imaging glomeruli. Fields of view ranged from 180 × 180 μm in the epithelium to 720 × 720 μm in the glomerular layer. The point-spread function of the microscope was measured to be 0.51 × 0.48 × 2.12 μm. Image acquisition and scanning were controlled by custom-written software in LabView (National Instruments). Emitted light was routed through two dichroic mirrors (680dcxr, Chroma and FF555- Di02, Semrock) and collected by a photomultiplier tube (R3896, Hamamatsu) using filters in the 500–550 nm range (FF01–525/50, Semrock).
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Two-Photon Imaging of Granule Cell Odor Responses

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A custom-built two-photon microscope104 was used for in vivo imaging. Fluorophores were excited and imaged with a water immersion objective (20×, 0.95 NA, Olympus) at 950 nm using a Ti:Sapphire laser (Mai Tai HP, Spectra-Physics). Frame rates were typically 4 Hz. Image acquisition and scanning were controlled by custom-written software in Labview. Emitted light was routed through two dichroic mirrors (680dcxr, Chroma and FF555-Di02, Semrock) and collected by 2 photomultiplier tubes (R3896, Hamamatsu) using filters in the 500–550 nm range (green channel, FF01-525/50, Semrock) and 572–642 nm range (red channel, FF01-607/70, Semrock).
To identify sparsely labeled granule cells that allow imaging of both their soma and dendrites the laser was tuned to 1020 nm and the red channel was used to record a detailed z-stack with 1 μm step size. The entire dendritic tree of a given GC was then examined to ensure that it could be clearly separated from processes of neighboring cells and faithfully traced to its corresponding soma. After choosing one imaging plane containing the soma and one imaging plane containing several branches of the same dendrite the laser was tuned back to 950 nm for imaging odor-evoked activity in either plane.
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4

Quantifying Cellular GFP Expression under Mechanical Stimuli

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To monitor the change of cellular GFP expression level under diverse mechanical stimuli, we used an inverted fluorescence microscope (Olympus IX 71) to illuminate the cells with a 488 nm laser (Coherent INC, Sapphire 488-200 CW CDRH) in wide-field epi mode. A bandpass filter (Semrock, FF01-525/50) was used for the detection of green fluorescence from msfGFP. Due to the difference in intrinsic gene expression level, the illumination pulse duration tint, EM gain, and laser local power density varied for the GFP tags on the VxrA promoter and the MurJ promoter to not saturate the EMCDD camera (Andor Technology, DU-897E-CSO-#BV) as listed in Supplementary Table S1. A pi shaper flat top beam shaper (Edmund optics, #12-644) was used to expand the laser beam size in the compression experiments for higher throughput.
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5

Two-Photon Microscopy for Fluorescence Imaging

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Two-photon imaging was carried out using a custom-built two-photon microscope with a 20 × 0.95 N.A. water-dipping objective (Olympus, Tokyo, Japan). Fluorescence excitation was performed using a Chameleon Vision S femtosecond infrared laser including group velocity dispersion compensation (Coherent, CA, USA). Fluorescence emission was measured at 525 ± 25 nm (Semrock FF01–525/50). To measure two-photon excitation spectra, the infrared laser intensity was adjusted to yield a constant value throughout the Ti:Sapphire emission spectrum using an acousto-optic modulator (AA Opto-Electronic, Orsay, France). Image acquisition was performed using custom software in the Labview (RRID:SCR_014325) environment.
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6

Total Internal Reflection Fluorescence Microscopy

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A custom-built TIRF microscope was used, as described previously.19 (link) Briefly, the beam from a 100 mW, 488 nm laser or 150 mW, 561 nm laser (Light HUB-6, Omicron, Germany) was expanded using a Galilean beam expander and focused at the back focal-plane of a high numerical aperture, oil-immersion, objective lens (PlanApo, 100×, NA 1.45, Olympus, Japan) using a small, aluminium-coated mirror (3 mm diameter, Comar Optics, UK) placed at the edge of the back-aperture of the objective lens. The average laser power at the specimen plane was adjusted to ∼0.5 μW μm−2 and the incident laser beam angle was adjusted to ∼63° to create the evanescent field at the glass–aqueous medium interface. A second small mirror was placed at the opposite edge of the objective lens back-aperture to remove the returning (internally-reflected) laser beam from the microscope and a narrow band-pass emission filter FF01-525/50 or FF01-593/40 (Semrock, Rochester, NY) was used to block the scattered 488/561 nm laser light and other unwanted light. An EMCCD camera (iXon897BV, Andor, UK) captured video sequences at a rate of 20–50 fps, and the data were stored on a computer hard drive for analysis.
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7

Intravital Imaging of Kaede Photoconversion

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Intravital imaging was performed by using a custom-built laser scanning confocal microscope (59 (link), 67 (link)). Three continuous-wave lasers with 488 nm (Cobolt, MLD), 561 nm (Cobolt, Jive) and 640 nm (Cobolt, MLD) were used as excitation lights for fluorescence imaging. Fluorescence signals were simultaneously detected by three bandpass filters (FF01-525/50, FF01-600/37, FF01-685/40; Semrock) and three photomultiplier tubes (R9110; Hamamatsu). For photoconversion of Kaede proteins, HEV in a field of view (170 × 170 μm) was irradiated by 405 nm laser (∼10 mW/mm2; Coherent; OBIS) for 5 min. Z-axis resolution of about 3 μm per section was acquired with 100 μm pinhole and 60× objective lens (LUMFLN, water immersion, NA 1.1; Olympus).
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8

In Vivo Two-Photon Imaging of Olfactory System

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A custom-built two-photon microscope was used for in vivo imaging. Fluorophores were excited and imaged with a water immersion objective (20X, 0.95 NA, Olympus) at 920 nm using a Ti:Sapphire laser with dispersion compensation (Mai Tai HP, Spectra-Physics). Images were acquired at 16-bit resolution and 4–8 frames/s. The pixel size was 0.6 μm for OSN somata and axon imaging. Fields of view ranged from 180 × 180 μm in the epithelium to 720 × 720 μm in the OB. The point-spread function of the microscope was measured to be 0.51 × 0.48 × 2.12 μm. Image acquisition and scanning were controlled by custom-written software in LabView (National Instruments). Emitted light was routed through two dichroic mirrors (680dcxr, Chroma, and FF555- Di02, Semrock) and collected by a photomultiplier tube (R3896, Hamamatsu) using filters in the 500–550 nm range (FF01–525/50, Semrock).
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9

Two-Photon Microscopy for In Vivo Imaging

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A custom-built two-photon microscope was used for in vivo imaging. Fluorophores were excited and imaged with a water immersion objective (20× , 0.95 NA, Olympus) at 920 nm using a Ti:Sapphire laser (Mai Tai HP, Spectra-Physics). Images were acquired at 16-bit resolution and 4 frames/s. The pixel size was 1.218 μm, and fields of view were typically 365 × 365 μm. The point-spread function of the microscope was measured to be 0.51 × 0.48 × 2.12 μm. Image acquisition and scanning were controlled by custom-written software in Labview. Emitted light was routed through two dichroic mirrors (680dcxr, Chroma and FF555- Di02, Semrock) and collected by a photomultiplier tube (R3896, Hamamatsu) using filters in the 500–550 nm range (FF01–525/50, Semrock).
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10

In Vivo Two-Photon Microscopy Imaging

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A custom-built two-photon microscope (Wienisch et al., 2011 (link)) was used for in vivo imaging. Fluorophores were excited and imaged with a water immersion objective (20x, 0.95 NA, Olympus) at 950 nm using a Ti:Sapphire laser (Mai Tai HP, Spectra-Physics). The point spread function of the microscope was measured to be 0.66 × 0.66×2.26 µm. Image acquisition and scanning were controlled by custom-written software in Labview. Emitted light was routed through two dichroic mirrors (680dcxr, Chroma and FF555- Di02, Semrock) and collected by two photomultiplier tubes (R3896, Hamamatsu) using filters in the 500–550 nm range (green channel, FF01-525/50, Semrock) and 572–642 nm range (red channel, FF01-607/70, Semrock). Fields of view were 75 × 75 µm square spanning 800 × 800 pixels. Z-stacks of approximately 30 µm depth with a 1 µm z step for both channels (16 bit) were taken every 3 min (0.5 Hz frame rate with 3x averaging during acquisition) for periods of 30–90 min. Two or three fields of view were imaged in each mouse.
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