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4 protocols using cy5 labeled secondary antibody

1

Disulfide Crosslinking Reveals Oligomeric States

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Cells were grown to OD600 ~0.5 and a 1.5-mL aliquot was withdrawn, washed twice with 1 mL of PBS (50 mM NaH2PO4, pH 7.4). At each washing step, cells were centrifuged at 6,000 × g for 5 min at room temperature. After incubating 1 mL of washed cells at 35°C for 10 min, disulfide formation was promoted by the addition of 5 μL of a 60 mM Cu2+-phenanthroline solution (60 mM CuSO4, 200 mM 1,10-phenanthroline, 50 mM NaH2PO4, pH 7.4) to yield a final concentration of 300 μM Cu2+. Samples were kept at 35°C for 10 min, after which the reaction was stopped by adding EDTA to a final concentration of 10 mM. Cells were pelleted by centrifugation at 21,000 × g for 5 min, and then lysed by resuspension in 100 μL of 1X TruPAGE™ LDS Sample Buffer (Sigma-Aldrich). Protein lysates were separated in an 8-12% TruPAGE™ gradient gel (Sigma-Aldrich) using TruPAGE™ Tris-MOPS SDS Express Running Buffer (Sigma-Aldrich). CheW-oligomers were detected by western blot using a polyclonal anti-HA antibody (ThermoFisher, catalog no. PA1-985) and a Cy5-labeled secondary antibody (ThermoFisher, catalog no. A10523). CheA and Tsr proteins were detected in similar fashion with appropriate polyclonal rabbit antibodies. Immunoblots were imaged under fluorescence mode in a Typhoon FLA 9500 scanner (GE Healthcare) and bands were quantified with ImageQuant software (GE Healthcare).
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2

Immunofluorescence Cell Staining Protocol

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Immunofluorescence cell staining was performed as previously described (Izumi et al. 2014 (link)). Briefly, cells were fixed with 4% formaldehyde in PBS, permeabilized with 0.2% TritonX-100 in PBS, and blocked with 2% bovine serum albumin in PBS. The cells were incubated with the primary antibodies, followed by incubation in the presence of Alexa488-, Alexa568-, or Cy5-labeled secondary antibody (Thermo Fisher Scientific). The antibodies used in this study are described in Supplemental Table S1.
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3

Immunofluorescence Staining of Sarcomeric α-Actinin

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Cells grown on glass coverslips (Thermo Scientific) were fixed with −20 °C methanol (JT Baker) for 5 min, permeabilized for 2 h with 10% normal goat serum (Thermo Fisher) and 0.3% Triton X-100 in PBS. After treatment with blocking buffer (1% BSA in PBS/0.3% Triton X-100), immunofluorescence staining of the cells was performed by incubation with primary anti-sarcomeric α-actinin antibody (Abcam, ab68167) diluted in 1% BSA in PBS/0.3% Triton X-100, washing in PBS, and incubation for 1 h with Cy5-labeled secondary antibody (Invitrogen A10523). Images were obtained with an inverted confocal laser-scanning microscope (Zeiss).
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4

CheA Disulfide Formation Assay

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Strain UU2806 co-transformed with cysteine-reporter derivatives of pPA114 and pGP32 (or pGP34) was grown at 30°C with aeration in tryptone broth supplemented with 12.5 µg/ml chloramphenicol, 50 µg/ml ampicillin, 0.6 µM sodium salicylate and 75 µM IPTG. At OD600nm ~0.5, a 1.5-ml aliquot of the culture was withdrawn, washed twice with 1 ml of PBS, finally resuspended in 1 ml of PBS and treated with 300 µM Cu2+-phenanthroline for 10 min at 35°C to induce disulfide formation, as previously described [21 (link)]. Whole cell lysates were separated by SDS/PAGE and CheA-containing species were detected by immunoblotting with a polyclonal anti-HA antibody (Pierce) and a Cy5-labeled secondary antibody (Invitrogen). Western blots were imaged under fluorescence mode in a Typhoon 9500 scanner (GE Healthcare), and bands were quantified with ImageQuant software (GE Healthcare).
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