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Physiology software

Manufactured by Zeiss

The Zeiss Physiology software is a powerful tool designed for the analysis and visualization of physiological data. It provides a comprehensive suite of tools for researchers to capture, process, and interpret a wide range of physiological measurements, including neural activity, cardiovascular function, and metabolic processes. The software offers a user-friendly interface and advanced data processing capabilities, enabling researchers to gain deeper insights into the complex workings of biological systems.

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5 protocols using physiology software

1

Nrf2 Nuclear Translocation Quantification

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Nuclear translocation of Nrf2 was assessed by western blotting in vivo and by both western blotting/immunofluorescent staining in vitro. By using a cell lysis buffer system (Santa Cruz Biotechnology), the whole‐cell extract from cultured RAECs and harvested thoracic aorta tissue was prepared. Cytoplasmic protein and nuclear protein were extracted with Cytoplasmic Extraction Reagents (Pierce Biotechnology Inc, Rockford, IL) and Nuclear Extraction Reagents (Pierce), respectively. Protein concentrations were determined by a BCA protein assay kit (Pierce). The protocol of western blotting is described in the below paragraph. Cultured RAECs were fixed and incubated with primary antibody against Nrf2 (1:250; Cell Signaling Technology) at 4°C for 8 hours. Then, the secondary antibody conjugated with Alexa 488 (Invitrogen) and DAPI was used to incubate the cells. Quenching of fluorescence was alleviated with SlowFade Lignt Antifade kit (Molecular Probes). Samples were exited at 519 nm and observed at 442 and 495 nm with an inverse fluorescence microscope (Axio Imager 2; Carl Zeiss, Jena, Germany). Fluorescent intensity was determined by using Zeiss Physiology software (Ver.3.2; Carl Zeiss).
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2

Measuring Intracellular Calcium with Fura-2

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The calcium indicator, Fura-2/AM (Invitrogen, Grand Island, NY, USA), was used in this study. After treatment, cells were incubated with Fura-2/AM at 10 μmol/l at room temperature for 30 minutes. After washing, a fluorescent inverse microscope was used to observe the cells at 510 nm after excited at 340 nm and the images were analyzed by Zeiss Physiology software (v3.2, Zeiss). Mean fluorescent intensity (MFI) was used to analyze intracellular calcium concentrations.
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3

Visualizing Gli1 Nuclear Translocation

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Fluorescent immunohistochemistry was used to assess Gli1 nuclear translocation. Cultured MG63 and MG63R cells were fixed and then incubated with primary antibody against Gli1 (Cell Signaling Technology, 1: 500) at 4°C for 8 h. Then, the secondary antibody conjugated with Alexa 488 (Invitrogen) and DAPI (Invitrogen) were used to incubate the cells. Quenching of fluorescence was alleviated using the SlowFade Light Antifade kit (Molecular Probes). Samples were excited at 519 nm and observed at 442 nm and 49 5nm with an inverse fluorescence microscope (Axio Imager 2, Zeiss). The fluorescent intensity was determined by using Zeiss Physiology software (Ver. 3.2, Zeiss).
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4

Measuring Ca2+ Dynamics in STIM1-Expressing HEK293 Cells

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Ca2+ measurements were carried out as previously described7 (link) with minor modifications. HEK293 cells were cotransfected with plasmids expressing STIM1 and pIRES2-mCherry. Transfection was carried out using X-tremeGENE HP transfection reagent (Roche, Basel, Switzerland). Transfected HEK293 cells were trypsinized and seeded onto poly-l-lysine–coated glass coverslips the next day. Ca2+ imaging was performed 42–48 hours after transfection. HEK293 cells on coverslips were loaded with Fura-2 by incubation in Dulbecco's modified Eagle medium containing 5 μM Fura-2/AM (Dojindo, Kumamoto, Japan) at 37°C for 40 minutes. The coverslips were then placed in a perfusion chamber mounted on the stage of a microscope (Axio-observer Z1; Carl Zeiss, Oberkochen, Germany). Transfected cells were identified by the detection of fluorescence from mCherry. Fura-2 fluorescence images recorded at 10-second intervals were analyzed using Physiology software (Carl Zeiss).
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5

Fura-2 Imaging of Calcium Dynamics in MuSCs

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Fura-2 imaging was performed as previously described with minor modifications (Tsuchiya et al, 2018 (link)). For indicator loading, MuSCs were plated on glass-bottomed dishes (Matsunami) coated with Matrigel and incubated with 5 μM Fura-2 AM (Dojindo) at 37°C for 60 min. Time-lapse images were obtained every 2 s. The base composition of HBS was (in mM) 107 NaCl, 6 KCl, 1.2 MgCl2, 11.5 glucose, and 20 HEPES (pH = 7.4 adjusted with NaOH). HBS with 2 mM Ca2+ (2Ca) in addition contained 2 mM CaCl2, whereas that without Ca2+ (0Ca) in addition contained 0.5 mM EGTA instead of CaCl2. Ratiometric images (F340/F380) were analysed using Physiology software (Zeiss). Yoda1-induced Ca2+ influx was measured as the difference in the Fura-2 ratio between its maximum value and that at 1 min from the initiation of imaging. These experiments were performed using a heat chamber (Zeiss) to maintain the temperature at 37°C throughout the imaging process. The amplitude was calculated using the following formula: Amplitude=([maximum value of the F340/F380 ratio][minimum value of the F340/F380 ratio])/2.
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