The largest database of trusted experimental protocols

17 protocols using roti load 1

1

Pituitary Tissue Protein Extraction

Check if the same lab product or an alternative is used in the 5 most similar protocols
Sample preparation of snap-frozen tissue (human normal anterior pituitary gland and acromegalic pituitary tumors) was performed as follows: tissue samples were homogenized in ice-cold RIPA buffer (50 mM Tris pH 8.0, 150 mM NaCl, 1% NP–40, 0.5% sodium deoxycholate and 0.1% SDS) using an Ultra-Turrax. GH3 cell lysates were in RIPA buffer and disrupted using a 20G insulin needle. Protein concentration was determined with the Bradford assay. Immunoblot was performed using 10–15 µg to total protein in sample buffer (Roti-Load 1, Roth). Signals were detected using ECL Clarity (Biorad).
+ Open protocol
+ Expand
2

Co-IP of Nuclear Proteins in GH3 Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Co-immunoprecipitation experiments in GH3 cells were performed on the nuclear fractions. For fractionation cells were collected by careful scraping and pelleted by centrifugation. The cell pellet was carefully resuspended in hypotonic cell lysis buffer and incubated on ice for 15 min. Following centrifugation, the supernatant was decanted and cells were disrupted again in hypotonic lysis buffer using a 20G insulin syringe and centrifuged. The supernatant containing the cytoplasmic fraction was separated and 75 µl of cell extraction buffer was used to resuspend the pellet. A final centrifugation step was performed and the supernatant containing the nuclear fraction was separated to a clean tube and subjected to preclearing for 30 min at 4 °C using 10 µL Protein G Dynabeads per 106 cells. The immunoprecipitation reaction was performed using Protein G Dynabeads coupled to the primary antibody in a separate reaction. In total, 10 µL of the antibody-bead complexes were given to 30 µL of precleared lysates. Following rotation overnight at 4 °C, immune complexes were washed and suspended in sample buffer (RotiLoad 1, Roth) to be immunoblotted as described above.
+ Open protocol
+ Expand
3

SDS-PAGE Analysis of VLP Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols
VLP samples were analyzed using sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE). In total, 50 μ L sample was mixed with 16 μ L Laemmli buffer (ROTI®Load 1, Carl Roth, Karlruhe, Germany) and incubated for 10 min at 96 °C. Then, 20 μ L of sample and 10 μ L molecular weight size marker (PageRuler™ 10 kDa to 180 kDa, Thermo Scientific™, Schwerte, Germany) were loaded on a precast polyacrylamid gel (12% Mini-PROTEAN® TGX Stain-Free™ Protein Gels, Bio-Rad, Germany). As running buffer, a 1 to 10 dilution of ROTIPHORESE®10x (Carl Roth, Karlsruhe, Germany) and ultrapure water was used. The gel separation was started using a voltage of 60 V for 30 min . The separation was continued at 150 V for a further 60 min . Afterwards, the gel was washed in water for 30 min and stained using ROTI®Blue quick (Carl Roth, Karlsruhe, Germany) until protein bands became visible. For the gel image, the ChemiDoc XRS+ (Bio-Rad, Germany) was used.
+ Open protocol
+ Expand
4

Protein Content Determination and SDS-PAGE Visualization

Check if the same lab product or an alternative is used in the 5 most similar protocols
The protein content of the individual fractions was determined by Bradford assay in a total volume of 1 ml [82 ]. For SDS-PAGE, gradient fractions corresponding to 50 µg of protein were boiled with a loading dye (Roti®-Load 1, Carl Roth, Karlsruhe, Germany) and loaded onto a gel (12 % acrylamide in the resolving gel, 4 % in the stacking gel). The gels were run at 100 V for 1 h and the proteins were visualized by Coomassie and/or silver staining (Table S3).
Individual bands were cut out of the gel and submitted for protein mass fingerprinting at the Proteomics Facility of the University of Konstanz.
+ Open protocol
+ Expand
5

Western Blot Analysis of SAMSN1 Protein

Check if the same lab product or an alternative is used in the 5 most similar protocols
Splenocytes were either directly subjected to protein lysis in whole‐cell lysis buffer or further processed by CD19‐MACS to isolate a pure fraction of CD19+ B cells. Subsequently, CD19+ cells were lysed US or after 24 h of in vitro stimulation with 10 ng/ml IL‐4. All protein lysates were diluted in Roti® Load1 (Roth) 4:1 and boiled at 95°C for 5 min before the performance of sodium dodecyl sulfate‐polyacrylamide gel electrophoresis. Ten percent of gels were prepared and loaded with 1 × 106 cells per sample. For band definition, Precision Plus Protein™ Dual Color Standard Marker (Bio‐Rad) was used. After electrophoresis, the proteins were transferred from the gel onto a nitrocellulose membrane by wet blotting. Membranes were blocked in 5% BSA for 1 h at RT and subsequently incubated with rabbit anti‐SAMSN1 antibody (Novus Biologicals) or mouse anti‐GAPDH antibody (HyTest), followed by secondary incubation with HRP‐conjugated anti‐rabbit IgG light chain (Abcam) or Easy Blot anti‐mouse IgG (GeneTex), respectively. Band detection was performed by adding Westar Supernova Luminol‐enhancer solution (7BioScience) and readout in the VersaDoc (Bio‐Rad).
+ Open protocol
+ Expand
6

Western Blot Analysis of Protein Signaling

Check if the same lab product or an alternative is used in the 5 most similar protocols
Whole cell extracts and nuclear cell extracts were prepared as described [25 (link)]. Proteins were separated by SDS-PAGE and transferred onto a nitrocellulose membrane (Amersham) by semi-dry blotting. For immuno-detection, the antibodies against Δ-Actin (C4, Santa Cruz), BIM (B7929, Sigma), FasL (G247-4, BD Pharmingen), ERK2 (sc-154, Santa Cruz), γH2AX (#05-164, Upstate), XPF (Ab-5, NeoMarkers), c-Fos (sc-52, Santa Cruz) were diluted 1:1000 in 5% non-fat dry milk/Tween-TBS. For western blot analysis with phospho-specific antibodies, cells were directly lyzed in 1 x SDS-PAGE sample buffer (Roti®-Load 1, Carl Roth GmbH) and subsequently sonified. Rabbit phospho-specific antibodies (anti-p-cJun: #3270, anti-p-JNK: #4668P; anti-p-p38K: #4511P; anti-p-ERK1/2: #4370P) as well as non- phospho-specific antibodies (anti-cJun: #9165; anti-JNK: #9258P; anti-p38K: #9212P and anti-ERK1/2: #4695P) were purchased from Cell Signaling Technology (Boston, MA, USA) and diluted 1:1000 in 5% BSA/Tween-TBS. The secondary anti-rabbit or anti-mouse antibodies (Rockland) were diluted 1:2000 in 5% non-fat dry milk/Tween-TBS.
+ Open protocol
+ Expand
7

Cell Surface Biotinylation Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cell surface biotinylation experiments were performed as described (Resch et al., 2011 (link)). Briefly, 24 h after transfection, cells were washed with ice cold PBS pH 8.0 and incubated with 0.5 mg ml−1 EZ-Link Sulfo-NHS-LC-Biotin (Thermo Scientific, Darmstadt, Germany) diluted in PBS pH 8.0 on ice for 1 h. Cells were washed twice with ice cold PBS pH 8.0 and once with ice cold 25 mM Tris-HCl, pH 8.0, lysed with 200 µl RIPA buffer (150 mM NaCl, 50 mM Tris-HCl, pH 7.5, 0.5% sodium deoxycholate, 1% Nonidet P-40, 0.1% SDS) containing proteinase inhibitor cocktail Complete (Roche Diagnostics GmbH, Mannheim, Germany). Cleared cell lysates with a total protein amount of 150 µg adjusted to a concentration of 1 µg µl−1 were incubated under rotation with 100 µl of a 50:50 slurry of NeutrAvidin agarose resins (Thermo Scientific, Darmstadt, Germany; resuspended in RIPA buffer) overnight. The supernatants were collected and the resins were washed three times with RIPA buffer, supplemented with protein sample buffer (Roti-Load 1, Carl Roth, Karlsruhe, Germany) and subjected to SDS-PAGE and immunoblotting.
+ Open protocol
+ Expand
8

O-Glycosidic Linkage Removal from Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
To remove O-linked glycans from proteins, whole cell lysates in RIPA buffer were treated with Neuraminidase (New England Biolabs GmbH, Frankfurt am Main, Germany; Cat. No. P0720S) and Endo-α-N-acetylgalactosaminidase, also known as O-glycanase (New England Biolabs; Cat. No. P0733S), according to the manufacturer's instructions. Therefore, a total protein amount of 90 μg was adjusted with RIPA buffer to a final volume of 45 μl, followed by the addition of 5 μl of 10× Glycoprotein Denaturing Buffer (5% SDS, 0.4 M DTT). Proteins were denatured by heating at 95°C for 10 min. The chilled reaction was supplemented with 7 μl G7 Buffer (0.5 M sodium phosphate, pH 7.5) and 7 μl of 10% NP-40. The reaction was divided in to three equal parts. One third was supplemented with 2 μl ddH2O giving the negative control. The second third was supplemented with 1 μl ddH2O and 1 μl Neuraminidase (50 U/μl). The last third was supplemented with 1 μl Neuraminidase and 1 μl O-glycanase (40,000 U/μl-1). All reactions were incubated at 37°C for 3.5 h. The reactions were stopped by addition of protein sample buffer (Roti-Load 1; Carl Roth, Karlsruhe, Germany, K929.1).
+ Open protocol
+ Expand
9

SDS-PAGE Analysis of Protein Oligomerization

Check if the same lab product or an alternative is used in the 5 most similar protocols
Sodium Dodecyl Sulfate-Polyacrylamide Gel Electrophoresis (SDS-PAGE) was performed with a 7% (w/v) resolving polyacrylamide/urea gel and a 4% (w/v) stacking gel (Farci et al., 2015 (link), 2016b (link)). DR_2577 samples were denatured with SDS in the presence of β-mercaptoethanol by using Roti-Load 1 (Carl Roth, pH 6.6–7.2). However, samples were not boiled in order to 1) avoid any interference with the oligomerization process and 2) not induce monomerization. After the electrophoretic separation, the gels were fixed and stained with Coomassie Brilliant Blue G250 (Serva, Germany) for 2 h and destained for 1 h with a destaining solution (7% acetic acid, 10% ethanol).
+ Open protocol
+ Expand
10

Monoclonal Antibody Production and Brg1 Quantification

Check if the same lab product or an alternative is used in the 5 most similar protocols
For the production of xBrg1 specific monoclonal antibodies, N-terminal domain (amino acid 202–282) was cloned into pGEX4T3 expression vector (Amersham), expressed in E. Coli and purified to immunize rats. For quantitative measurement of Brg1 knockdown 15 embryos or eggs of each condition were collected and lysed in 75 μl NOP buffer [68 (link)] and centrifuged for 20 min at 14000 rpm to remove yolk plates. The supernatant was mixed with Roti®-Load 1 (Roth) and loaded onto an 8% SDS-PAGE. The separated proteins were blotted on nitrocellulose membrane and blocked for minimum 1 h at RT in 5% milk in PBSw. The membrane was incubated over night at 4°C with anti-Brg1 mab 3F1 (1:3) and as loading control anti α-tubulin (1:8000, Sigma). As secondary antibody the LiCor α-rat 800 and α-mouse 700 (1:10000, respectively) was used. The membrane was developed using the LiCOR system and the intensities were measured and quantified against the loading control.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!