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54 protocols using fluozin 3

1

Zinc Imaging and Cell Cycle Analysis

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1 × 105 cells were grown on 0.17 mm thick coverslips for 5–7 days prior to transfection. Coverslips were fixed and processed as previously described [13 (link)]. For zinc imaging, cells were loaded with 5 μM Fluozin-3 (Invitrogen) for 30 min at 37 °C. For FACS analysis using a Becton–Dickinson FACSVerse, non-adherent cells collected by mitotic shake-off and adherent cells harvested by trypsinisation were loaded with 5 μM Fluozin-3 (Invitrogen) for 30 min followed by 30 min recovery in medium. For cell cycle analysis, cells were fixed in 70% ethanol overnight followed by DNA staining with 20 µg/mL propidium iodide (Sigma-Aldrich) plus 0.2 µg/mL DNase − free RNase A and 0.1% Triton X-100 in PBS at 37 ºC for 20 min before FACS analysis and analysed with FlowJo Software version 10 using Watson pragmatic algorithm. Scale bar is 10 μm.
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2

Determining Zinc Binding Affinity

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The dissociation constant (Kd) of zinc to zinc-attenuating compounds was determined at room temperature using FluoZin-3 (F24194; Thermo Fisher Scientific), which has a Kd (FluoZin-3–Zn2+) of 15 nM (35 (link)). Testing buffer consisted of PBS (pH 7.4) with 200 nM ZnCl2 and 500 nM FluoZin-3. In a microtiter plate, 98 μl of testing buffer was mixed with 2 μl of compound at a range of concentrations to determine the half-maximal inhibitory concentration (IC50). Testing plates were incubated for 2 min before being read at an excitation wavelength of 485 nm and an emission wavelength of 516 nm with a Fluoroskan Ascent microplate fluorometer (Thermo Fisher Scientific). The Kds were calculated using the equation Kd (compound-Zn2+) = IC50/(1 + [FluoZin-3]/Kd, FluoZin-3–Zn2+) (36 (link)).
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3

Cell Culture Media and Fluorescent Probes

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Cell culture media, N,N,N′,N′-tetrakis (2-pyridylmethyl) ethylenediamine (TPEN), and fluorescent probes (Calcium Green-5N, Fluo-5N, FluoZin-1, FluoZin-2, FluoZin-3, fura-2, indo-1, Leadmium Green, mag-fura-2, Newport Green DCF, and Rhod-5N) were purchased from Thermo Fisher Scientific. fura-2FF was purchased from TEF Labs. Fetal bovine serum was purchased from Midwest Scientific. All other reagents were purchased from Sigma-Aldrich unless otherwise noted.
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4

Ferroptosis Induction in Breast Cancer

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All breast tumor cells and 293 T cells were purchased from ATCC and maintained as per standard protocols in an incubator with 95% humidity and 5% CO2 at 37 °C. Cells were cultured in DMEM with 10% heat-inactivated fetal bovine serum (FBS) and 1% penicillin–streptomycin. Cysteine deficient medium was prepared according to the previous report63 (link). MCF10A cells were maintained as per a standard protocol of ATCC and cultured in MEGM supplemented with MEGM bullet kit. Erastin, selective HDAC6 inhibitors tubacin, tubastatin A, and CAY10603, Myriocin, and the metal chelator N, N, N′, N′-tetrakis (2-pyridylmethyl) ethylenediamine (TEPN) were obtained from Cayman Chemicals (Ann Arbor, Michigan, US); Z-VAD-FMK, necrostatin-1, and ferrostatin-1 were purchased from Calbiochem Research Biochemicals (Sigma). The molecular probe FluoZin-3 was purchased from Thermo Fisher Scientific. All antibodies used in this study were listed in supplementary table 1.
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5

Zinc-based Ultrasensitive Barrier Assay

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To carry out the Zinc-based Ultrasensitive Microscopic Barrier Assay (ZnUMBA), 5–10 nl of 1 mM FluoZin3 (Thermo Fisher Scientific), 100 μM CaCl2, and 100 μM EDTA was microinjected into the blastocoel of stage 10–11 (Nieuwkoop and Faber) X. laevis embryos. EDTA was used to reduce baseline levels of FluoZin3 fluorescence from endogenous Zn++, and equimolar Ca++ was added to offset the potential effects of Ca++ chelation by EDTA. Albino embryos were used to better visualize the blastocoel during microinjection. Embryos were allowed to heal from the microinjection wound for a minimum of 5 minutes before being mounted in a slide containing 1–2 mM ZnCl2 in 0.1xMMR. Embryos were imaged with confocal microscopy immediately after mounting. Relative increases in FluoZin3 fluorescence were interpreted as breaches in the barrier.
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6

Intracellular Signaling Dynamics in Bladder Epithelial Cells

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Intracellular calcium was measured by Fluo4 NW (Molecular Probes), intracellular potassium was measured by FluxOR (Molecular Probes) according to manufacturer’s instructions in human bladder epithelial cells grown in 96-well plates (60,000 cells/well) after exposure to FimCH (5 μg). Extracellular Zn2+ was measured by FluoZin-3 (Thermo Fischer Scientific) by addition of 1 μg/ml of indicator salt for 60 minutes prior to FimCH treatment. Fluorescent intensity was measured by Infinite F200 (Tecan) microplate reader at 20 seconds intervals for indicated times.
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7

Cell Culture Media and Fluorescent Probes

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Cell culture media, N,N,N′,N′-tetrakis (2-pyridylmethyl) ethylenediamine (TPEN), and fluorescent probes (Calcium Green-5N, Fluo-5N, FluoZin-1, FluoZin-2, FluoZin-3, fura-2, indo-1, Leadmium Green, mag-fura-2, Newport Green DCF, and Rhod-5N) were purchased from Thermo Fisher Scientific. fura-2FF was purchased from TEF Labs. Fetal bovine serum was purchased from Midwest Scientific. All other reagents were purchased from Sigma-Aldrich unless otherwise noted.
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8

TRPM6/TRPM7 Zinc Influx Monitoring

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We adapted a protocol from the one employed by Inoue and colleagues to monitor Zn2+-influx by TRPM722 . Briefly, TRPM7−/− HEK293T cells were transiently transfected with pcDNA3.1D/V5-His-TOPO-XTRPM6, pcDNA3.1D/V5-His-TOPO-XTRPM7, pcDNA5/FRT/TO-mTRPM7, or pcDNA5/FRT/TO-hTRPM6 and allowed to express for 24–48 hours. The cells were labeled with the zinc indicator Fluo-Zin-3 following manufacturer’s orders (Thermo Fisher Scientific). The cells were then incubated with HBSS containing 30 μM ZnCl2 in the presence or absence of 250 μM 2-APB for 5 minutes, and then images were acquired on an inverted Olympus IX70 fluorescence microscope. The fluorescence intensity of the cells was analyzed using the Fiji software package with ROI analysis32 (link).
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9

Measurement of Cytosolic Zinc Levels

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FluoZin-3 is a selective indicator of cZn2+ concentration, although N,N,N'N'-tetrakis(-)(2-pyridylmethyl)-ethylenediamine (TPEN) is a cZn2+ chelator. The ARPE19 cells in the dishes were stained with 1 µM FluoZin-3 (Catalog no: # F24194, ThermoFisher Sci.) and (Catalog no: # 4309, Tocris, Istanbul, Turkey) for 30–45 min [35 (link)]. After washing the dyes by using the extracellular solution, the green and 2.5 images of cells were recorded in the LSM-800 after the laser excitation (488 nm) (Objective: 20x). The laser wavelengths of FluoZin-3 fluorescence were kept at 493 nm (excitation) and 513 nm (emission) in the cells. The changes of fluorescence intensity were recorded in the LSM-800 and Axio Observer 7 microscope by using the ZEN program, and the mean data of cZn2+ were shown a.u.
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10

Zn2+ Influx Assay for TRPM7 Characterization

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The Zn2+ influx assay used to characterize TRPM7 channel function has been previously described in detail (Bai et al., 2021 (link)). Briefly, cells were plated into 24-well dishes coated with polylysine to aid comparison between individual samples by fluorescence microscopy. Before labeling, cells were washed with Hanks’ balanced salt solution (HBSS) containing 0.137 M NaCl, 5.4 mM KCl, 0.25 mM Na2HPO4, 6 mM glucose, 0.44 mM KH2PO4, 1.3 mM CaCl2, 1.0 mM MgSO4, and 4.2 mM NaHCO3. Cells were then labeled with the Zn2+ indicator FluoZin-3 (2.5 μM) in HBSS following manufacturer instructions (Thermo Fisher Scientific). The cells were then washed once with HBSS and then placed back into HBSS before images were quickly acquired on an inverted Olympus IX70 fluorescence microscope with a 10X phase contrast objective (Olympus Neoplan 10/0.25 Ph, Olympus, Tokyo, Japan). Cells were visually inspected for uneven dye loading prior to imaging. To stimulate Zn2+ influx, 30 μM ZnCl2 in HBSS was introduced to cells. For static measurements, images of cells from the different samples were taken at a specific time point 5 to 10 minutes after the addition of 30 μM ZnCl2.
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