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Pvdf filter

Manufactured by Bio-Rad
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PVDF filters are a type of membrane filter used for the separation and purification of various biomolecules, such as proteins and nucleic acids, in laboratory settings. They are composed of polyvinylidene fluoride, a durable and chemically resistant material. PVDF filters are designed to effectively retain target analytes while allowing the flow of solvents and other components through the membrane.

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8 protocols using pvdf filter

1

Quantitative Western Blot Analysis

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Cells were seeded in T25 flasks and treated when confluence reached approximately 80%. A standard procedure was used to prepare cell homogenates, SDS-PAGE and blotting onto a PVDF filter (cod. 162-0177; BioRad, Hercules, CA, USA), and the saturation of the membrane with non-fat dry milk, as detailed in [28 (link)]. Filters were incubated with the appropriate primary antibodies overnight at 4 °C, followed by incubation with secondary HRP-conjugated antibodies for 1 h at room temperature. The bands were detected with Enhanced Chemiluminescence reagents (ECL, cod. NEL105001EA; Perkin Elmer, Waltham, MA, USA) and imaged with the VersaDOC Imaging System (Universal Hood II—S.N. 76S/04219; Biorad, Hercules, CA, USA). For loading control, the filters were re-probed with β-tubulin, β-actin, or histone H3. Densitometric analysis was performed with the Quantity One software (v. 4.5).
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2

Western Blot Analysis of Protein Samples

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A standard procedure was used for preparing cell homogenates, Western blotting onto a PVDF filter (cod. 162-0177; BioRad, Hercules, CA, USA), and the saturation of the membrane with non-fat dry milk, as detailed in [25 (link)]. Filters were incubated with the appropriate primary antibodies overnight at 4 °C, followed by incubation with secondary HRP-conjugated antibodies (goat anti-mouse (cod. 170-6516) or goat anti-rabbit (cod. 170-6515)) for 1 h at room temperature. The bands were detected with Enhanced Chemiluminescence reagents (ECL, cod. NEL105001EA; Perkin Elmer, Waltham, MA, USA) and imaged with the VersaDOC Imaging System (Universal Hood II—S.N. 76S/04219; Biorad, Milan, Italy). For loading control, the filters were re-probed with β-ACTIN or GAPDH. Densitometric analysis was performed with Quantity One software (v. 4.5). Original Western Blot data is shown in Supplementary Materials (File S1).
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3

Protein Extraction and Western Blot Analysis

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Cells were lysed in a buffer containing 10 mM Tris HCl, pH 7.5, NaCl 150 mM, and Triton 1% supplemented with Protease Inhibitor Cocktails (Sigma Aldrich, Saint Louis, MO, USA) and the protein content was measured by a colourimetric assay (BIO-RAD, Hercules, CA, USA). Protein cell lysates (20 μg) were separated by SDS-PAGE under denaturing conditions, transferred onto a PVDF filter (BIO-RAD, Hercules, CA, USA), blocked with 5% milk and probed with primary antibodies: anti-ERK2, anti-phospho-ERK, anti-ICAM1, anti-PARP1, anti-pan-cathepsin and anti-GAPDH (Santa Cruz Biotechnology, Dallas, TX, USA), and anti-AKT and anti-phospho-AKT (Ser-473) (Cell Signalling Technologies, Danvers, MA, USA). After primary antibody incubation, the blots were washed and incubated with horseradish peroxidase-conjugated secondary antibodies (ThermoFisher Scientific; Waltham, MA, USA). The proteins recognized by Abs were detected by ECL (Amersham biosciences; Little Chalfont, UK). Pre-stained protein markers (ThermoFisher Scientific; Waltham, MA, USA) were used as molecular size standards. All experiments were performed in triplicate.
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4

In vitro analysis of S. solfataricus OGT activity

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The activity of in vitro-expressed SsOGT was analysed incubating 8 μg of pBS-rRNAp-ogt plasmid or 200 ng of recombinant SsOGT OGT with 200 μg of S. solfataricus whole cell extract under the experimental conditions described above for coupled in vitro transcription/translation and in the presence of BG-FL substrate (2.5 μM). The mix reaction was incubated at 70°C for 60 min. Reactions were stopped by denaturation, and samples were subjected to SDS-PAGE, followed by fluorescence imaging analysis using a VersaDoc 4000™ system (Bio-Rad Laboratories Inc.) by applying as excitation/emission parameters a blue LED bandpass filter. For western blot analysis, proteins were transferred onto PVDF filters (Bio-Rad Laboratories Inc.) using the Trans-Blot® Turbo™ Blotting System (Bio-Rad Laboratories Inc.). The presence of SsOGT protein was revealed using polyclonal antibodies raised in rabbit against S. solfataricus OGT as primary antibodies, the goat anti-rabbit IgG-HRP (Pierce) as secondary antibody, and the Amersham Biosciences ECL Plus kit. Filters were incubated, washed, and developed according to the manufacturer's instructions. Chemiluminescent bands were revealed using a VersaDoc apparatus (Bio-Rad Laboratories Inc.).
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5

Membrane Protein Extraction and Western Blot Analysis

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Membrane proteins were isolated with Mem-PER™ Plus Membrane Protein Extraction Kit (Thermo Fisher Scientific), and cytoplasmic proteins were extracted with NE-PER™ Nuclear and Cytoplasmic Extraction Kit (Thermo Fisher Scientific). We quantified the proteins with the DC Protein Assay kit (Bio-Rad, Hercules CA, USA). Denatured proteins were separated on a 10% SDS-PAGE gel and then transferred to PVDF filters (Bio-Rad). After blocking with 5% non-fat milk-TBST (Bio-Rad), the blots were incubated mouse PD-L1 antibody (Abcam), human PD-L1 antibody (Cell signaling), β-actin antibody (Cell signaling), CD63 polyclonal antibody (Abcam), or Calnexin polyclonal antibody (Abcam) at 4°C overnight, respectively. After washing 3 times with 1×TBST (Bio-Rad), the blots were incubated with peroxidase-linked secondary goat anti-rabbit IgG antibody (Bio-Rad), or goat-anti-mouse IgG antibody (Bio-Rad) were incubated for 1 h at room temperature. Finally, after incubation with SuperSignal West Pico PLUS chemiluminescent substrate (Thermo Scientific, Worcester, MA, USA), visual imaging was performed by VersaDoc™ Imaging System (Bio-Rad). Volume One software (Bio-Rad) was used for the relative quantification of blotted proteins.
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6

Western Blot Analysis of Archaeal OGT and TopR1

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Total and fractionated protein extracts were prepared as previously described [22 (link)]. Samples were run in 4–12% gradient gels in 1x Tris-Glycine SDS Running buffer (25 mM Tris, 192 mM glycine and 0.1% SDS, pH 8.3). After electrophoresis, proteins were transferred onto PVDF filters (Bio-Rad) using the Trans-Blot® Turbo Blotting System (Bio-Rad). Reagents used were: polyclonal antibodies raised in rabbit against S. solfataricus OGT [9 (link)] and TopR1 reverse gyrase [21 (link)] as primary antibodies; the goat anti-rabbit IgG-HRP (Pierce) as secondary antibody and the Amersham Biosciences ECL Plus kit. Filters were incubated, washed and developed according to manufacturer’s instructions. Chemiluminescent bands were revealed using a VersaDoc apparatus (Bio-Rad) and the QuantityOne software (Bio-Rad) was used for quantitation.
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7

Western Blot for PIWI Protein Detection

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Proteins were extracted by homogenizing animals in RIPA buffer supplemented with 10% protease inhibitor cocktail (Sigma-Aldrich). The homogenates were cleared by centrifugation, and the supernatants were subjected to electrophoresis through 10% SDS-polyacrylamide (SDS/PAGE) gels containing pre-stained protein markers and transferred to PVDF filters (Bio-Rad Laboratories, Hercules, CA (Harlow and Lane 1988 ). The filters were incubated with 5% non-fat dry milk in TBST buffer (50 mM Tris-HCl, ph 7.6, 100 mM NaCl, 0.1% Tween-20) to block non-specific binding, washed three times for 5 min in TBST, and incubated overnight in a 1:100 dilution of PIWI polyclonal antibody (ab5207, Abcam, Cambridge, MA) in TBST at 4°C, and finally incubated for 1 hr at room temperature in a 1:25000 dilution of HRP-conjugated anti-rabbit IgG secondary antibody. After three washes for 5min with TBST, the signals were visualized with Chemiluminescence Luminol (Santa Cruz Biotechnology, Santa Cruz, CA) used according to the supplier’s specifications. Images of X-ray films were taken with a digital camera, scanned, and band density was calculated by comparison with a glyceraldehyde-3-phosphate dehydrogenase (GAPDH) gel loading standard (Sigma-Aldrich).
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8

Western Blot Analysis of T. brucei BSF

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For Western blot analysis, total protein lysates of T. brucei BSF were separated by SDS-PAGE (4–20% Mini PROTEAN TGX stain-free precast gradient gels, Bio-Rad) and blotted on PVDF filters (Bio-Rad). The membranes were blocked with PBS 5% milk powder for 1 h at RT. Primary and secondary antibodies were diluted in PBS with 0.05% Tween 20 and 5% milk powder: rabbit anti-LysoPLA 1:1000 mouse anti-TY 1: 500 anti-aldolase 1:10,000 anti-enolase 1:100,000 Rabbit anti-PFR 1:10,000 anti-mouse conjugated to horseradish peroxidase (KPL) 1:5000; or anti-rabbit conjugated to horseradish peroxidase (KPL) 1:10,000. Revelations were done using Clarity Western ECL Substrate (Bio-Rad) according to the manufacturer’s instructions, pictures were acquired using a LAS4000 imager (GE Healthcare).
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