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8 protocols using gfp tag

1

Immunoblotting Analysis of ER Stress Markers

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Mammalian cells were lysed in radioimmunoprecipitation assay buffer (RIPA) buffer with the addition of protease (Roche cOmplete), and phosphatase inhibitors (GB Sciences). Protein levels of lysates were determined using the Bio-Rad DC/RC assay. Equal amounts of protein lysate were boiled with SDS load buffer, and equal amounts of protein were loaded. Immunoblotting was performed with the following antibodies: GAPDH (Cat, no. 60004-1-lg; Proteintech), ATF6 rabbit polyclonal (Cat. no. 24169-1-AP; Proteintech), ATF6 mouse monoclonal (Cat. no. 66563-1-Ig; Proteintech), β-Actin (Cat. no. 20536-1-AP; Proteintech), α-Tubulin (Cat. no. 66031-1-Ig; Proteintech), SEL1L (Cat. no. ab78298; Abcam), ABCD3 (Cat. no. 66697-1-Ig; Proteintech), GFP tag (Cat. no. 66002-1-Ig; Proteintech), BiP (Cat. no. 11587-1-AP; Proteintech), ATF4 (Cat. no. 11815S; Cell Signaling Technology).
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2

Measuring Ras Signaling Pathway

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The following antibodies used to measure Ras signaling were purchased from Cell Signaling Technology (Danvers, MA): pAkt (Ser473) (D9E) XP (Cat#4060), total Akt (pan) (40D4) (Cat#2920), p-p44/42 MAPK (Erk1/2) (Thr202/Tyr204) (D13.14.4E) XP (Cat#4370) and p44/42 MAPK (Erk1/2) (L34F12) (Cat#4696). The following antibodies used to measure housekeeping genes were purchased from Proteintech Group (Rosemont, IL): β-actin (Cat#60008-1-1 g) and GFP-tag (Cat#66002-1-lg; clone #1E10H7). cDNA of human SMPD1 (GenScript, Cat# OHu18710D), SMPD2 (GenScript, Cat# OHu30447D) and SMPD3 (Sino Biological, Cat# HG15755-G) were cloned into GFP-N1 vector. CellLight Lysosomes-RFP (Cat#C10597), Early endosomes-RFP (Cat#C10587), Late Endosomes-RFP (Cat#C10589), Golgi-RFP (Cat#10593), Mitochondria-RFP (Cat#C10601) and ER-tracker (E34250) were purchased from Invitrogen. Altenusin (Cat#SML2193) and GW4869 (Cat#567715) were purchased from MilliporeSigma. Avicin compounds were provided in collaboration with Dr. Jordan Gutterman (MD Anderson Cancer Center; Houston, TX).
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3

Comprehensive Immunoblotting Antibody Panel

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Primary antibodies used against proteins were as follow: SMURF1 (Santa Cruz, sc-100616), SMURF1 (Abcam, ab57573), BiP/GRP78 (ABclonal, A0241); Actin (Sigma, A1978), p62 (MBL, PM045); LC3B (Sigma, L7543); Phospho-IRE1(S724) (ABclonal, AP0878); IRE1(ABclonal, A17940); Phospho-JNK1/2/3 (T183+T183+T221) (Abmart, T55541); JNK (ABclonal, A4867); Phospho-eIF2α (Ser51) (ABclonal, AP0692); eIF2α (ABclonal, A0764); XBP1 (ABclonal, A1731); ATF4 (Santa Cruz, sc-390063); CHOP (ABclonal, A6504); BCL-2 (ABmart, T40056); Flag M2 (Sigma, F3165); GFP-tag (Proteintech, 66002-1-lg); HA-tag (MBL, M180-3); Myc-Tag (Proteintech, 16286-1-AP); NRF2 (Proteintech, 16396-1-AP); KEAP1 (Proteintech, 10503-2-AP); Ubiquitin (MBL, D058-3); alpha Tubulin (Abcam, ab7291), Histone H2B (Santa Cruz, sc-515808); Caspase3 (Santa Cruz, sc-7272); Ki67 (Abcam, ab16667).
Secondary antibodies used were as follow: goat anti-mouse IgG secondary antibody (BOSTER, BA1050); goat anti-rabbit IgG secondary antibody (BOSTER, BA1054); Alexa Fluor® 555 goat anti-mouse IgG (Life Technologies, A21425); ImmPRESSTM HRP anti-Rabbit IgG (VECTOR, MP-7401); ImmPRESSTM HRP anti-Mouse IgG (VECTOR, MP-7402); Rabbit anti-mouse IgG (CST, 58802) and Mouse anti-Rabbit IgG (CST, 93702) were used to avoid interference of the IgG heavy chain.
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4

Western Blotting Technique for Protein Detection

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First, we used Radioimmunoprecipitation assay (RIPA) lysis buffer (Beyotime, Jiangsu, China) to lyse cells to obtain proteins, which were quantified using the Bradford method. The proteins were separated using SDS-polyacrylamide gel electrophoresis (SDS-PAGE, Beyotime) and transferred to polyvinylidene fluoride (PVDF) membranes (Millipore, Billerica, MA, USA). After blocking the membranes for 1 h at room temperature with 5% skim milk, the membranes were incubated with the corresponding primary antibodies at 4 °C overnight. The primary antibodies recognized MFSD4A (Genetex, Irvine, CA, USA), EPHA2 (CST, Danvers, MA, USA), green fluorescent protein (GFP)-tag (Proteintech, USA), HA-tag (Proteintech, Rosemont, IL, USA), Flag-tag (Proteintech), Vimentin (CST), E-cadherin (CST), N-cadherin (CST), Slug (CST), Snail (CST), AKT (CST), phosphorylated (p)-AKT (CST), ERK1/2 (Abcam, Cambridge, MA, USA), p-ERK1/2 (CST), PI3K (Abcam), p-PI3K (CST) and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) (Proteintech). The next day, the corresponding secondary antibodies were added and incubated with the membranes for 1 h at room temperature. Finally, enhanced chemiluminescence was used to observe the results.
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5

Measuring Ras Signaling with Validated Antibodies

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The following antibodies to measure Ras signaling were purchased from Cell Signaling Technology: pAkt (Ser473) (Cat# 4060), total Akt (Cat# 2920), ppERK (Thr202/Tyr204) (Cat# 4370), total ERK (Cat# 4696), p-p90RSK (Cat #9344), and total RSK (Cat #9355). The following antibodies used to measure housekeeping genes were purchased from Proteintech: β-actin (Cat# 66009-1-Ig), GFP-tag (Cat# 60002-1-Ig), α-tubulin (Cat# 11224-1-AP), BACH1 (Cat# 66762-1-IG), H-Ras (Cat# 18295-1-AP), K-Ras2B (Cat# 16155-1-AP), and K-Ras2A (Cat #16156-1). N-Ras antibody (F155) (Cat #sc-31) was purchased from Santa Cruz Biotechnology. The RFP-tagged organelle markers were purchased from Invitrogen: CellLight Golgi-RFP BacMam 2.0 (Cat# C10593), CellLight Lysosomes-RFP BacMam 2.0 (Cat #C10597), CellLight Mitochondria-RFP BacMam 2.0 (Cat #C10601), CellLight Late Endosome-RFP BacMam 2.0 (Cat #C10589), CellLight Early Endosome-RFP BacMam 2.0 (Cat #C10587), and ER-Tracker Red (Cat #E34250; BODIPY TR Glibenclamide). Mitomycin C was purchased from Alfa Aesar Co. (Cat #J63193). Carmustine was purchased from MedChemExpres (Cat # HY-13585/CS-2935). N-acetylcysteine was purchased from Sigma-Aldrich (Cat # A7250-10G). Hydrogen peroxide (H2O2) was purchased from Sigma-Aldrich (Cat #H1009).
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6

Immunoprecipitation and Western Blotting Protocol

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For western blotting, the detailed protocol was previously described.63 (link) For IP, podocytes were lysed in IP lysis buffer before being briefly sonicated, and the supernatants were incubated with antibodies and protein A/G-Sepharose beads after centrifugation. Finally, the immunocomplexes were washed and immunoblotted with antibodies. The following antibodies were used: ZO-1 (Invitrogen, Calrsbad, CA, USA), Desmin, podocin, Sox4, p21cip1/waf1 (Abcam, Cambridge, MA, USA), β-actin, synaptopodin, cdc2, CyclinB, p53, GFP-tag, hemagglutinin (HA)-tag, Myc-tag, FLAG tag, and HRP-conjugated goat anti-rabbit/mouse IgG (Proteintech, Rosemont, IL, USA).
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7

Immunoblotting of Cellular Proteins

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Total protein was isolated from cells using lysis buffer (Beyotime, China). Immunoblotting was performed with primary antibodies against FBXW7 (Proteintech, China), MAP4 (Proteintech, China), MMP3 (Proteintech, China), VEGFA (Proteintech, China), ERK (CST, USA), phosphorylated ERK (Thr202/Tyr204) (CST, USA), GAPDH (Proteintech, China), His-tag (Proteintech, China), and GFP-tag (Proteintech, China). Secondary antibodies were purchased from CWbiotech (China). The signal was visualized using super enhanced chemiluminescence (ECL) detection reagent (Tanon, China).
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8

Immunoblotting Assay for Cellular Stress Markers

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Mammalian cells were lysed in Radioimmunoprecipitation assay buffer (RIPA) buffer with the addition of protease (Roche cOmplete), and phosphatase inhibitors (GB Sciences). Protein levels of lysates were determined using the BioRad DC/RC assay. Equal amounts of protein lysate were boiled with SDS load buffer, and equal amounts of protein were loaded. Immunoblotting was performed with the following antibodies: GAPDH (Proteintech, Cat: 60004-1-lg), ATF6 (Proteintech, Cat: 60004-1-lg), beta-Actin (Proteintech, Cat: 20536-1-AP), alpha-Tubulin (Proteintech, Cat: 66031-1-Ig), Sel1L (Abcam, Cat: ab78298), GFP tag (Proteintech, Cat: 66002-1-Ig), BiP (Proteintech, Cat: 11587-1-AP), ATF4 (Cell Signaling Technology, Cat: 11815S) .
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