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7 protocols using lsr 2 hts flow cytometer

1

M2e Epitope Mapping in HEK293T Cells

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HEK293T cells were transiently transfected with Flag-tagged M2 wild type (WT) and M2e Ala scan mutants. 24 h after infection the cells were detached, washed and blocked. Cells were stained with 20 μg/ml M2e VHH-23m or 20 μg/ml F-VHH-4 and subsequently fixed with 2% paraformaldehyde. After permeabilization (10 × permeabilization buffer diluted in double-distilled water; eBioscience), cells were stained with mouse anti-Histidine tag antibody (MCA1396, Abd Serotec) and rabbit anti-Flag tag antibody (F7425, Sigma-Aldrich). Binding of the primary antibodies was revealed with donkey anti-mouse IgG coupled to Alexa Fluor 647 (1/600; Invitrogen) and donkey anti-rabbit IgG coupled to Alexa Fluor 488 (1/600; Invitrogen). The median fluorescence intensity (MFI) of the cells was determined with an LSRII HTS flow cytometer (BD) and was calculated by subtracting the median fluorescence of binding of M2e-VHH-23m or F-VHH-4 to transfected cells from the median fluorescence of untransfected cells bound by M2e-VHH-23m or F-VHH-4.
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2

Flow Cytometry Analysis of RFP Induction

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Cells were analyzed using BD LSR II HTS flow cytometer using PE-TexasRed-YG-A filter (ex:561 nm, em:610 nm, BW: 20 nm) with a FITC reference (ex:488 nm, em:530 nm, BW:30 nm). The mean RFP fluorescence of the positive population was divided by that of the uninduced population and was termed as the normalized fold RFP induction (SI Methods and SI Figure 2).
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3

Measuring Microbial Population Dynamics

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The optical density of each culture at 620nm was measured with a Thermo Scientific Multiskan FC microplate spectrophotometer, following the end of each growth period27 (link). To measure the fractions of each population, at the end of each growth period a portion of cells from each well (typically 5 μL, unless the low density conditions made it necessary to transfer larger volumes) was transferred to a new plate containing 200μL sterile Cellgro PBS buffer (Mediatech, VA). These samples were then analyzed at a BD LSRIIHTS flow cytometer operating in high throughput (HT) mode, where we determined the ratio between the producer and freeloader strains, distinguished by their fluorescence emissions 36 (link). Given the total density and the strain ratio, the densities of the producer and freeloader populations were readily calculated.
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4

Isolation and Functional Analysis of Mouse CD4+ T Cells

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Mouse CD4+ T cells were isolated from spleens of WT and Ctr1+/- mice using the mouse CD4+ T-cell isolation kit from Miltenyi Biotec (Bergisch Gladbach, Germany) according to the manufacturer’s protocol. We routinely obtained > 95% CD4+ T cells as assessed by FACS. Whole-cell patch clamping was then performed following stimulation with anti-CD3 (5 µg/ml) and anti-CD28 (2 µg/ml) antibodies for 48 hr, as described (Srivastava et al., 2008 (link)). For intracellular cytokine staining, cells were rested overnight and then re-stimulated with anti-CD3 and -CD28 antibodies for 4 hr in the presence of brefeldin-A (1 µg/ml, Sigma-Aldrich). Intracellular staining was performed using the Fixation/Permeabilization kit (BD Biosciences, Franklin Lakes, NJ, Cat # 554714) and antibodies to: IL-2 (Cat # JES6-5H4), IFN-γ (Cat # XMG1.2) or TNFα (Cat # MP6-XT22), according to the manufacturer’s (eBioscience, San Diego, CA) instructions. Cells were analyzed on a LSRII HTS flow cytometer (BD Biosciences), and the results were analyzed with Treestar (FlowJo, Ashland, OR).
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5

Cell Cycle Analysis by Flow Cytometry

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72 h and 120 h post-transfection medium was collected and adherent U87R cells in monolayer culture harvested, washed twice with sample buffer (100 mg glucose; 100 mL PBS without Ca2+ or Mg2+) and fixed in 70% (v/v) cold ethanol. Cells were pelleted, washed once with sample buffer and resuspended in propidium iodide (PI) solution (50 μg mL−1 PI, 0.5 mg mL−1 RNase in sample buffer, pH 7.4) for 30 min in the dark. The data from 10,000 cells per sample were collected and analysed using the BD FACSDiva program on a LSR II HTS flow cytometer (BD Bioscience, Franklin Lakes, NJ, USA).
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6

Measuring Microbial Population Dynamics

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The optical density of each culture at 620nm was measured with a Thermo Scientific Multiskan FC microplate spectrophotometer, following the end of each growth period27 (link). To measure the fractions of each population, at the end of each growth period a portion of cells from each well (typically 5 μL, unless the low density conditions made it necessary to transfer larger volumes) was transferred to a new plate containing 200μL sterile Cellgro PBS buffer (Mediatech, VA). These samples were then analyzed at a BD LSRIIHTS flow cytometer operating in high throughput (HT) mode, where we determined the ratio between the producer and freeloader strains, distinguished by their fluorescence emissions 36 (link). Given the total density and the strain ratio, the densities of the producer and freeloader populations were readily calculated.
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7

Assessing Plasma Membrane KCa3.1 Expression

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KCa3.1 containing a hemagglutinin (HA) epitope tag inserted into the extracellular loops between transmembrane helices S3 and S4 was transfected into Ctr1-/- and WT MEFs. To assess the plasma membrane levels of KCa3.1, cells were fixed with 4% paraformaldehyde for 10 min on ice and washed three times with PBS. The non-permeabilized fixed cells were incubated with anti-HA antibody (1:200 dilution) for 1 hr on ice, washed three times with PBS, and stained with secondary anti-mouse FITC-conjugated antibody (1:500 dilution) for 30 min on ice. Cells were then washed three times with PBS prior to analysis by flow cytometry. Cells incubated with only the secondary antibody served as the negative control. Flow cytometry was performed using LSR II HTS flow cytometer (BD Biosciences), and the results were analyzed using Treestar (FlowJo).
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