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7 protocols using anti lamp1 h4a3

1

Autophagy Induction during GAS Infection

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Cells were seeded at 6 × 104 in 24-well plates with cover glass for overnight culture and infected with GAS for 30 min. For acid indicator stain, lysotracker (red DND-99; Invitrogen) was added at a final concentration of 75 nM for 1-h incubation before GAS infection. Extracellular bacteria were killed by 100 µg/ml gentamicin. At various time points postinfection, the cells were fixed with 4% paraformaldehyde, permeabilized with 50 µg/ml digitonin, and stained with anti-LC3 (pM036; MBL) and anti-LAMP-1 (H4A3; Santa Cruz) antibodies at room temperature for 1 h. After the cells were washed with PBS, they were stained with Alexa Fluor-conjugated secondary antibodies and DAPI for 40 min, and the samples were then analyzed by confocal microscopy (FV1000; Olympus).
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2

Antibody Selection for Western Blotting and Immunoprecipitation

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Antibodies used for western blotting were as follows: rabbit polyclonal anti-Rer1 (R4407, Sigma-Aldrich, St. Louis, MO, USA), anti-Hrd1 (H7915, Sigma), anti-gp78 (9590, Cell Signaling Technology, Danvers, MA, USA), a rabbit monoclonal anti-Calnexin (C5C7, Cell Signaling), goat polyclonal anti-GFP (RDI, Fitzgerald Industry, Concord, MA, USA), mouse monoclonal anti-α-actin (C4, Millipore, Billerica, MA, USA), anti-FLAG (M2, Sigma-Aldrich), and anti-GSK3β (610201, BD Transduction Laboratories, San Diego, CA, USA) antibodies. Antibodies used for immunoprecipitation were as follows: mouse monoclonal anti-GFP (3E6, Q-Biogene, Carlsbad, CA, USA), anti-α-tubulin (DM1A, Sigma-Aldrich), and anti-FLAG (M2, Sigma-Aldrich) antibodies. Antibodies used for immunocytochemistry were as follows: rabbit polyclonal anti-Rab7 (a gift from Y. Wada, Osaka University)49 (link), anti-ERGIC-53 (E1031, Sigma-Aldrich), mouse monoclonal anti-PDI (1D3, Enzo Life Sciences, Plymouth Meeting, PA, USA), and anti-Lamp1 (H4A3, Santa Cruz Biotechnology, CA, USA) antibodies. Alexa Fluor® 555 or 594-conjugated anti-mouse or anti-rabbit immunoglobulin Gs (IgGs) (Life Technologies) were used as secondary antibodies.
MG132 was purchased from the Peptide Institute (Osaka, Japan). Bafilomycin A1 was purchased from Wako Pure Chemicals (Osaka, Japan). Cycloheximide was purchased from MP Biomedicals (Solon, OH, USA).
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3

Western Blot Analysis of Postmortem Brain Lysates

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Postmortem brain lysates were prepared from slices of individual tissues, extracts were resolved by sodium dodecylsulfate-polyacrylamide gel electrophoresis followed by Western blotting as previously described [33] . The following antibodies were employed: a mouse monoclonal anti-LAMP2 (H4B4) (1:2000, Santa Cruz Biotechnology, sc18822), a mouse monoclonal anti-LAMP1 (H4A3) (1:2000, Santa Cruz Biotechnology, sc20011), a rabbit monoclonal anti-ACTIN (1:400, Sigma-Aldrich, A2066/030M4844), a monoclonal anti-α-Tubulin (clone DM1A, 1:10,000, Sigma-Aldrich T6199), a rabbit polyclonal Anti-Phospho-AKT473 antibody (1:500, Cell Signaling, 9271), a rabbit polyclonal Anti-AKT antibody (1:500, Cell Signaling, 9272), a rabbit polyclonal Anti-Phospho-ERK antibody (1:500, Cell Signaling, 4370) or a rabbit polyclonal anti-ERK antibody (1:500, Cell Signaling, 4695). The final detection was performed as previously described [33] .
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4

Immunofluorescence Imaging of Organelle Markers

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The following primary antibodies were used for immunofluorescence: rabbit anti‐Rab7 (Cell Signalling #D95F2), anti‐MHC‐II (Neefjes et al, 1990), anti‐VPS11 (Abcam #ab125083), anti‐VPS18 (Abcam #ab178416) and anti‐TBC1D15 (Sigma # HPA013388), as well as mouse anti‐CD63 NKI‐C3 (Vennegoor & Rumke, 1986), anti‐LAMP1 (H4A3, Santa Cruz), anti‐TOM20 (Abcam #ab56783), anti‐Myc (9E10, Sigma) and anti‐FLAG M2 (Sigma #1804), as well as rat anti‐HA (3F10, Roche). Secondary donkey anti‐rabbit/anti‐mouse (Invitrogen) or anti‐rat (Biotium) Alexa‐coupled antibodies were subsequently used for fluorescence detection, as applicable. Mitotracker Red CMXRos (Invitrogen) and SiR‐Lysosome (Spirochrome #CY‐SC012) were used to visualize mitochondria (100 nM, for 30 min) and late endosomes/lysosomes (2 μM, for 30–60 min), respectively. 4‐OH‐Tamoxifen (used at 0.1 μM final concentration) was a gift from W. Zwart (NKI).
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5

Postmortem Brain Protein Analysis

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Postmortem brain lysates were prepared from slices of individual
tissues, extracts were resolved by sodium dodecylsulfate-polyacrylamide gel
electrophoresis followed by Western blotting as previously described [33 (link)]. The following antibodies were
employed: a mouse monoclonal anti-LAMP2 (H4B4) (1:2000, Santa Cruz
Biotechnology, sc18822), a mouse monoclonal anti-LAMP1 (H4A3) (1:2000, Santa
Cruz Biotechnology, sc20011), a rabbit monoclonal anti-ACTIN (1:400,
Sigma-Aldrich, A2066/030M4844), a monoclonal anti-α-Tubulin (clone DM1A,
1:10,000, Sigma-Aldrich T6199), a rabbit polyclonal Anti-Phospho-AKT473 antibody
(1:500, Cell Signaling, 9271), a rabbit polyclonal Anti-AKT antibody (1:500,
Cell Signaling, 9272), a rabbit polyclonal Anti-Phospho-ERK antibody (1:500,
Cell Signaling, 4370) or a rabbit polyclonal anti-ERK antibody (1:500, Cell
Signaling, 4695). The final detection was performed as previously described
[33 (link)].
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6

GAS Infection and Cellular Responses

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Cells seeded at 6 × 104/well in 24-well plates with cover glasses were cultured overnight and infected with GAS according to the infection protocol. Cover glasses were coated with cellular matrix (Cellmatrix type I-C, 100 μg/ml, 37°C, 30 min) in advance. At various time points post-infection, the cells were fixed with 4% paraformaldehyde (PFA), permeabilized with 50 μg/ml digitonin, and stained with anti-GAS (gift from Dr. J. J. Wu), anti-galectin-3 (M3/38, Santa Cruz Biotechnology), anti-LC3 (PM036, MBL), anti-FK2 (BML-PW8810, ENZO), anti-LAMP-1 (H4A3, Santa Cruz Biotechnology), or anti-8-nitro-cGMP (1G6) antibodies (gift from Dr. T. Akaike), followed by staining with secondary antibodies conjugated with Alexa Fluor 488 or 568 and imaging on a confocal microscope (FV1000; Olympus).
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7

GAS Infection and Autophagy Dynamics

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Cells seeded at 4 × 104 per well in 24-well plates with cover glasses were cultured for 2 d with or without VEGF treatment and infected with GAS according to the bacterial infection protocol. Cover glasses were coated in advance with cellular matrix (Cellmatrix type I-C, 100 μg/mL, 37°C, 30 min). At various time points postinfection, the cells were fixed with 4% paraformaldehyde (PFA), permeabilized with 50 μg/mL digitonin, blocked with 0.2% gelatin in PBS, and stained with anti-Gal-3 (M3/38, Santa Cruz), anti-LC3 (PM036, MBL), anti-LAMP-1 (H4A3, Santa Cruz), anti-FIP200 (17250-1-AP, Proteintech), or anti-Rab7 (EPR7589, Abcam) antibodies, followed by staining with secondary antibodies conjugated with Alexa Fluor 488, 568, or 647. LysoTracker (Red DND-99, Invitrogen) at 100 nM was used to stain cells for 30 min before fixation. Hoechst (33342, #639, ImmunoChemistry Technologies) at 1 μg/mL was used for cell nucleus and bacterial DNA staining. Images were obtained using a confocal microscope (TCS SP8, Leica).
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