Journal: International journal of molecular sciences

Article Title: Readdressing the Localization of Apolipoprotein E (APOE) in Mitochondria-Associated Endoplasmic Reticulum (ER) Membranes (MAMs): An Investigation of the Hepatic Protein-Protein Interactions of APOE with the Mitochondrial Proteins Lon Protease (LONP1), Mitochondrial Import Receptor Subunit TOM40 (TOMM40) and Voltage-Dependent Anion-Selective Channel 1 (VDAC1).

doi: 10.3390/ijms251910597

Figure Lengend Snippet: Figure 1. APOE accumulates in the MAMs of cultured hepatocytes, equally evident during APOE3 and APOE4 overexpression: (a) subcellular fractions were isolated from Huh7 cells by Percoll density gradient ultracentrifugation and analyzed by Western blotting. Representative images show the accumulation of the APOE protein in pure MAMs. Respective marker proteins were detected to visualize the purity of mitochondria (COX), MAMs (CANX) and cytosol (TUB); (b) APOE protein levels were quantified in the whole cell sample and crude and pure MAM fractions and normalized to the APOE level in the whole cell sample. In the pure MAM, the APOE protein level was significantly higher compared to the whole cell (p < 0.05, unpaired t-test) as indicated by an asterisk (*). The data are means ± SEM (n = 3); (c) no APOE isoform-dependent difference was observed in the accumulation of APOE in the pure MAM fraction in APOE3- and APOE4-transfected Huh7 cells. Data are means ± SEM (n = 2) and the accumulation of APOE in MAMs is related to the APOE protein level in the whole cell samples; subcellular fractions: c. mito., crude mitochondria; p. mito., pure mitochondria; c. MAM, crude mitochondria ER-membranes (MAMs), p. MAM, pure MAM.

Article Snippet: Then, the cells were incubated with ligase (30 min, 37 ◦C), polymerase (100 min, 37 ◦C) and fluorescent anti-APOE antibody (1:20, 90 min, room temperature; sc-13521 AF546, Santa Cruz, Dallas, TX, USA).

Techniques: Cell Culture, Over Expression, Isolation, Western Blot, Marker, Transfection

Journal: International journal of molecular sciences

Article Title: Readdressing the Localization of Apolipoprotein E (APOE) in Mitochondria-Associated Endoplasmic Reticulum (ER) Membranes (MAMs): An Investigation of the Hepatic Protein-Protein Interactions of APOE with the Mitochondrial Proteins Lon Protease (LONP1), Mitochondrial Import Receptor Subunit TOM40 (TOMM40) and Voltage-Dependent Anion-Selective Channel 1 (VDAC1).

doi: 10.3390/ijms251910597

Figure Lengend Snippet: Figure 2. The number of visualized MERCs in cultured hepatocytes and MAM-assembling protein levels in the mouse liver are similar in presence of APOE3 and APOE4: (a) representative images of MERC-PLA experiments in APOE-transfected Huh7 cells that were incubated with 1 or 5 g/L glucose for six hours. VDAC1-IP3R1 PLA signals are shown in green, APOE was additionally stained in red to identify successfully transfected cells, and cell nuclei appeared blue by staining with DAPI. 400× magnification; scale bar 5 µm; (b) PLA signals from at least 100 cells per sample from three independent experiments were quantified showing a significant reduction of PLA signals per cell in all samples in response to the glucose challenge. No difference was observed comparing APOE3-, APOE4- and mock- transfected cells. Significance was accepted at p < 0.05, indicated with an asterisk (*); a two-way ANOVA was performed followed by the Šídák’s multiple comparisons test; (c) MAM-assembling as well as ER and mitochondrial marker proteins were analyzed in the livers of APOE-targeted replacement mice by Western blotting and representative images are shown; (d) densitometric analysis revealed no significant differences between APOE3 and APOE4 mice (unpaired t-test). Target band intensity was normalized by total protein load and related to the mean of APOE3 mice. Data are means ± SEM (n = 5–6).

Article Snippet: Then, the cells were incubated with ligase (30 min, 37 ◦C), polymerase (100 min, 37 ◦C) and fluorescent anti-APOE antibody (1:20, 90 min, room temperature; sc-13521 AF546, Santa Cruz, Dallas, TX, USA).

Techniques: Cell Culture, Transfection, Incubation, Staining, Marker, Western Blot

Journal: International journal of molecular sciences

Article Title: Readdressing the Localization of Apolipoprotein E (APOE) in Mitochondria-Associated Endoplasmic Reticulum (ER) Membranes (MAMs): An Investigation of the Hepatic Protein-Protein Interactions of APOE with the Mitochondrial Proteins Lon Protease (LONP1), Mitochondrial Import Receptor Subunit TOM40 (TOMM40) and Voltage-Dependent Anion-Selective Channel 1 (VDAC1).

doi: 10.3390/ijms251910597

Figure Lengend Snippet: Figure 3. Mitochondrial APOE-interacting proteins are remotely connected to MAMs, with no apparent difference comparing APOE3- and APOE4-transfected cells. (a) Visualization of the eleven higher abundant protein–protein interactions (PPIs) shared by APOE3- and APOE4-transfected cells compared to unmodified Huh7 cells. PPIs were categorized by their main cellular localization identified according to The Human Gene Database GeneCards. Hitherto unknown PPIs (7/11) are highlighted by the greater thickness and blue color of the borderline. (b) Representative Western blot images of the presence of the APOE-interacting proteins LONP1, TOMM40 and VDAC1 in subcellular fractions isolated from Huh7 cells. Respective marker proteins for mitochondrial and ER-related MAM proteins were detected (GRP75, mitochondria, MAM; and PEMT, ER and MAM). (c) Representative Western blot images showing APOE, LONP1, TOMM40 and VDAC1 as well as the ER/MAM marker CANX in subcellular fractions of APOE3- and APOE4-transfected cells. (d) Target band intensities were quantified and normalized by total protein load per lane. The target protein level in the pure MAM fraction was related to the whole cell sample showing similar results in APOE3- and APOE4-transfected cells. Data are means ± SEM (n = 2). Subcellular fractions: c. mito., crude mitochondria; p. mito., pure mitochondria; c. MAM, crude mitochondria ER membranes (MAMs), p. MAM, pure MAM.

Article Snippet: Then, the cells were incubated with ligase (30 min, 37 ◦C), polymerase (100 min, 37 ◦C) and fluorescent anti-APOE antibody (1:20, 90 min, room temperature; sc-13521 AF546, Santa Cruz, Dallas, TX, USA).

Techniques: Transfection, Protein-Protein interactions, Western Blot, Isolation, Marker

Journal: International journal of molecular sciences

Article Title: Readdressing the Localization of Apolipoprotein E (APOE) in Mitochondria-Associated Endoplasmic Reticulum (ER) Membranes (MAMs): An Investigation of the Hepatic Protein-Protein Interactions of APOE with the Mitochondrial Proteins Lon Protease (LONP1), Mitochondrial Import Receptor Subunit TOM40 (TOMM40) and Voltage-Dependent Anion-Selective Channel 1 (VDAC1).

doi: 10.3390/ijms251910597

Figure Lengend Snippet: Figure 4. Presence in MAMs and extent of the PPI of selected candidates and APOE in ER-stressed cultured hepatocytes. (a) Western blot images of LONP1, TOMM40, VDAC1 and APOE detection in subcellular fractions of unmodified Huh7 cells. Thapsigargin treatment (50 µM, 24 h) provoked the accumulation of LONP1 and APOE in MAMs relative to the whole cell sample and compared to untreated control cells. GRP75 served as a marker for MAMs and the positive control for thapsigargin induced MAM protein translocation. c. MAM, crude mitochondria ER membranes (MAMs), p. MAM, pure MAM; (b) representative Western blot images of LONP1, TOMM40 and VADC1 in APOE co-IP samples from unmodified Huh7 cells treated with thapsigargin (50 µM, 24 h). No signals were visible in the IP negative control (no antibody used, no AB). S, IP supernatant, inp., input control; (c) target band intensity was normalized by the corresponding APOE band intensity. Relative target protein levels in thapsigargin-stressed cells were related to the mean of untreated cells (expressed as thapsigargin-induced change). Data are means from three individual cell culture experiments and co-IP (n = 3).

Article Snippet: Then, the cells were incubated with ligase (30 min, 37 ◦C), polymerase (100 min, 37 ◦C) and fluorescent anti-APOE antibody (1:20, 90 min, room temperature; sc-13521 AF546, Santa Cruz, Dallas, TX, USA).

Techniques: Cell Culture, Western Blot, Control, Marker, Positive Control, Translocation Assay, Co-Immunoprecipitation Assay, Negative Control

Journal: bioRxiv

Article Title: Transarterial embolization modulates the immune response within target and non-target hepatocellular carcinomas

doi: 10.1101/2020.11.07.372896

Figure Lengend Snippet: (A) Box and whisker plot showing the percentage of CD4+ and CD8+ cells as a proportion of the CD3+ population in spleen, liver, and tumor specimens from healthy DEN naïve rats that underwent sham embolization (Naïve, N=5 rats), cirrhotic DEN-treated rats that underwent sham embolization (Sham, N=5 rats), and cirrhotic DEN-treated rats that underwent conventional TAE with Embospheres (TAE, N=8 rats). (A) Box and whisker plot showing the percentage of CD25+ cells as a proportion of the CD4+ population. (B) Box and whisker plot showing the percentage of Foxp3+ cells as a proportion of the CD4+ population. * p < 0.05, ** p < 0.01.

Article Snippet: Cells were then spun down at 500 × g for 5 min at 4°C and resuspended with the following antibody-conjugated fluorophores for 20 minutes at room temperature: anti-CD3-BV421 (BD, 1F4, 1:100), anti-CD4-PE-Cy7 (BD, OX-35, 1:100), anti-CD8-BV510 (BD, OX8, 1:100), anti-CD25-APC (Thermo Fisher, OX39, 1:100), and anti-CD45-PE-Cy5 (BD, OX1, 1:100).

Techniques: Whisker Assay

Journal: bioRxiv

Article Title: Transarterial embolization modulates the immune response within target and non-target hepatocellular carcinomas

doi: 10.1101/2020.11.07.372896

Figure Lengend Snippet: (A) Box and whisker plot showing the average number of CD3+, CD8+, Foxp3+, and CD4+ cells at 2 days, 7 days, and 12 days post-embolization relative to control tumors that did not undergo embolization. (B) Box and whisker plot showing the average number of cells within the intratumoral compartment of embolized tumors at 2 days, 7 days, and 12 days post-embolization relative to control tumors that did not undergo embolization. (C) Bar chart showing the average percentage of cells found within the intratumoral compartment as a function of total number of cells (intrastromal + intratumoral cells) of embolized tumors at 2 days, 7 days, and 12 days post-embolization relative to control tumors that did not undergo embolization. (D) Representative images of histological staining of CD3, CD8, Foxp3, and CD4 cell markers in embolized and non-embolized tumors. (E) Low magnification image showing CD3+ cell infiltration into an HCC tumor 12 days post-embolization. (F) Example image demonstrating counting method used to quantify intrastromal cells (pink markers) from intratumoral cells (green markers) within HCC specimens. * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001.

Article Snippet: Cells were then spun down at 500 × g for 5 min at 4°C and resuspended with the following antibody-conjugated fluorophores for 20 minutes at room temperature: anti-CD3-BV421 (BD, 1F4, 1:100), anti-CD4-PE-Cy7 (BD, OX-35, 1:100), anti-CD8-BV510 (BD, OX8, 1:100), anti-CD25-APC (Thermo Fisher, OX39, 1:100), and anti-CD45-PE-Cy5 (BD, OX1, 1:100).

Techniques: Whisker Assay, Staining

Journal: bioRxiv

Article Title: Transarterial embolization modulates the immune response within target and non-target hepatocellular carcinomas

doi: 10.1101/2020.11.07.372896

Figure Lengend Snippet: (A) Box and whisker plot showing the average number of CD3+, CD8+, Foxp3+, and CD4+ cells at 2 days, 7 days, and 12 days post-embolization in non-target tumors relative to control tumors from rats that did not undergo embolization. (B) Box and whisker plot showing the average number of cells within the intratumoral compartment of non-target tumors at 2 days, 7 days, and 12 days post-embolization relative to control tumors. (C) Bar chart showing the average percentage of cells found within the intratumoral compartment as a function of total number of cells (intrastromal + intratumoral cells) in non-target tumors at 2 days, 7 days, and 12 days post-embolization relative to control tumors. * p < 0.05, ** p < 0.01.

Article Snippet: Cells were then spun down at 500 × g for 5 min at 4°C and resuspended with the following antibody-conjugated fluorophores for 20 minutes at room temperature: anti-CD3-BV421 (BD, 1F4, 1:100), anti-CD4-PE-Cy7 (BD, OX-35, 1:100), anti-CD8-BV510 (BD, OX8, 1:100), anti-CD25-APC (Thermo Fisher, OX39, 1:100), and anti-CD45-PE-Cy5 (BD, OX1, 1:100).

Techniques: Whisker Assay

Journal: bioRxiv

Article Title: Transarterial embolization modulates the immune response within target and non-target hepatocellular carcinomas

doi: 10.1101/2020.11.07.372896

Figure Lengend Snippet: (A). Representative images of hematoxylin and eosin staining demonstrating differences in foreign body reactions induced within HCC tumors embolized with LUMI Beads or embospheres. (B). Bar chart showing the average number of CD3+, CD4+, CD8+, and Foxp3+ cells per embolic by embolic type. (C). Bar chart showing the average number of CD68+ and CD163+ macrophages per embolic by embolic type. (D). Bar chart showing the average number of cells surrounding Embospheres at 2 days and 12 days post-embolization. * p < 0.05, ** p < 0.01, **** p 0.0001.

Article Snippet: Cells were then spun down at 500 × g for 5 min at 4°C and resuspended with the following antibody-conjugated fluorophores for 20 minutes at room temperature: anti-CD3-BV421 (BD, 1F4, 1:100), anti-CD4-PE-Cy7 (BD, OX-35, 1:100), anti-CD8-BV510 (BD, OX8, 1:100), anti-CD25-APC (Thermo Fisher, OX39, 1:100), and anti-CD45-PE-Cy5 (BD, OX1, 1:100).

Techniques: Staining