Journal: Cell metabolism

Article Title: Targeting Peripheral CB 1 Receptors Reduces Ethanol Intake via a Gut-Brain Axis

doi: 10.1016/j.cmet.2019.04.012

Figure Lengend Snippet: (A) Time course and rate of increase in oleate-driven respiratory activity in MGN3–1 cells. Cells were treated with 10 or 100 nM JD5037, 2.5 M of FCCP (positive control) or vehicle in the presence of the fluorescent extracellular O2 consumption reagent. Oxidative respiration was recorded every 90 sec and the slope of the initial linear increase was calculated. Points and bars are means ± SEM from n = 11–15 experiments, as indicated. *P < 0.05 compared to vehicle. (B) Verification of Cnr1 knockdown by rtPCR in cells used in panel C. Cellular uptake of the constructs was verified by fluorescent microscopy (20x magnification) and the degree of knockdown was determined by rt-PCR, *P < 0.05, n = 4. (C) Oleate-driven oxidative activity in MGN3–1 cells with shRNA-mediated knockdown of Cnr1 expression and their mock-transfected controls, n = 3–8 experiments, as indicated, *P < 0.05.

Article Snippet: Scramble shRNA with GFP Adenovirus (Ad-scramble-shRNA) , Vector Biolabs , 1122.

Techniques: Activity Assay, Positive Control, Knockdown, Reverse Transcription Polymerase Chain Reaction, Construct, Microscopy, shRNA, Expressing, Transfection

Journal: Frontiers in pharmacology

Article Title: LncRNA-uc002mbe.2 Interacting with hnRNPA2B1 Mediates AKT Deactivation and p21 Up-Regulation Induced by Trichostatin in Liver Cancer Cells.

doi: 10.3389/fphar.2017.00669

Figure Lengend Snippet: FIGURE 7 | uc002mbe.2 knockdown inhibits the in vivo sensitivity of HCC cells to TSA. (A) A representative image of an isolated tumor from nude mice subcutaneously inoculated with uc002mbe.2 shRNA-transfected Huh7 cells and shGFP-transfected cells after 14 days of TSA treatment. (B) Tumor growth curve. (C) Mean tumor weight. The data are presented as the mean ± SD of 8 nude mice. ∗p < 0.05. (D) Total RNA extracted from isolated tumor tissue was used to evaluate the efficiency of uc002mbe.2 knockdown by quantitative real-time PCR. (E) Total protein was isolated from xenograft tumors and subjected to Western blotting analyses to evaluate the levels of hnRNPA2B1, p-AKT and p21.

Article Snippet: Scramble siRNA and predesigned siRNA specific for human hnRNPA2B1 were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, United States).

Techniques: Knockdown, In Vivo, Isolation, shRNA, Transfection, Real-time Polymerase Chain Reaction, Western Blot

Journal: Endocrine journal

Article Title: Caspase 8 and menin expressions are not correlated in human parathyroid tumors.

doi: 10.1507/endocrj.k10e-085

Figure Lengend Snippet: Fig. 1 Caspase 8 expression in menin knockdown experiments. Cells were transfected with control siRNA or menin siRNA or treat- ed with transfection reagents without RNA (mock). (A) The amounts of menin mRNA measured by quantitative RT-PCR in WI38-VA13 (left) and GM0639 (right) cells. Data are presented as the relative value to the mean value of mock-transfect- ed cells and the standard error from three experiments. *, p<0.05 versus cells transfected with control siRNA (n=3). (B) Representative Western blot of menin and caspase 8 (CP8) in WI38-VA13 (left) and GM0639 (right) cells. Actin was served as a loading control.

Article Snippet: Menin siRNA or scrambled negative control siRNA (menin siRNA (h), sc-35922 and control siRNA-A, sc-37007, Santa Cruz Biotechnology, USA) were transfected by the procedures recommended by the supplier into culture cells that were seeded at 5 × 105 cells per 35 mm plate the day before transfection.

Techniques: Expressing, Knockdown, Transfection, Control, Quantitative RT-PCR, Western Blot

Journal: Journal of Clinical & Cellular Immunology

Article Title: MicroRNA Regulation of Proinflammatory Response in X-linked Adrenoleukodystrophy

doi: 10.4172/2155-9899.1000349

Figure Lengend Snippet: Figure 3: miR-323-5p mediates AMPKα1 deletion-induced iNOS expression in Abcd1-KO mice mixed glial cells. (A) Abcd1-KO mixed glial cells were silenced for scrambled control (Scr) or AMPKα1 as described in section 2. iNOS mRNA expression (B) was induced and miR-323-5p expression decreased (C) in Abcd1-KO mixed glial cells deleted for AMPKα1 using lentiviral particles. Abcd1-KO mixed glial cells deleted or AMPKα1 and co-transfected with miR-323-5p mimic (MIM) or inhibitors (INB) modulated iNOS mRNA (D) and protein (E) levels. Mimic and inhibitor transfected cells were compared with negative control (NGC) transfected cells. Results represent the mean ± SD of triplicates from three different experiments. ***p<0.001.

Article Snippet: Lentiviral vector mediated knockdown of AMPKα1 in Abcd1-KO mice mixed glial cells Transduction-ready mouse shRNA lentiviral particles (106 TU/ml) for AMPKα1 (consisting of a pool of 3-5 constructs and puromycin selection gene; sc-29674-V) and control scrambled shRNA lentiviral particles (Scr) (106 TU/ml, sc-108080) were purchased from Santa Cruz Biotechnology (Dallas, TX).

Techniques: Expressing, Control, Transfection, Negative Control

Journal: The Journal of biological chemistry

Article Title: VIRMA promotes nasopharyngeal carcinoma, tumorigenesis, and metastasis by upregulation of E2F7 in an m6A-dependent manner.

doi: 10.1016/j.jbc.2023.104677

Figure Lengend Snippet: Figure 3. Depletion of VIRMA impaired the proliferation and invasion of NPC in vivo. A, SUNE-1 cells were stably transduced with scrambled shRNA or sh-VIRMA 1# lentivirus, and quantitative RT-PCR was used for validation. B–E, subcutaneous tumorigenesis model. B, tumor volume of subcutaneous xe- nografts with or without VIRMA depletion was measured every 4 days during 5 weeks of growth. Subcutaneous xenograft tumors were retrieved from sacrificed mice on day 32 after axilla inoculation (C), and the tumor weight was measured (D). E, subcutaneous xenograft tumors were embedded in paraffin and cut into 5 μm sections, which were stained using IHC (VIRMA, upper row) and ISH (E2F7, lower row). Scale bar: 50 μm. F–I, SUNE-1 cells with or without VIRMA silencing were inoculated into the footpad of nude mice to establish the inguinal lymph node metastasis model. F, representative image of primary tumors (footpad) and metastatic inguinal lymph nodes in the inguinal lymph node metastasis model. G, representative images of primary tumor sections stained with hematoxylin and eosin showing tumor cells invasion into lymphatic vessels (arrows). Scale bar: 100 μm. H, representative images of pan- cytokeratin staining in inguinal lymph nodes. Scale bar: 100 μm. I, ratios of inguinal lymph nodes metastasis from primary tumors in the footpad. Data are presented as the mean ± SD. *p < 0.05, **p < 0.01. IHC, immunohistochemistry; ISH, In situ hybridization; NPC, nasopharyngeal carcinoma; VIRMA, vir- like m6A methyltransferase associated.

Article Snippet: For VIRMA stable knockdown, lentiviruses expressing shRNA targeting VIRMA or scrambled shRNA control were co-transfected with lentivirus packaging plasmids pMD2G and psPAX2 (Addgene) into the human embryonic kidney (HEK) 293T cells.

Techniques: In Vivo, Stable Transfection, Transduction, shRNA, Quantitative RT-PCR, Biomarker Discovery, Staining, Immunohistochemistry, In Situ Hybridization

Journal: Nature communications

Article Title: Dynamic catch of a Thy-1-α5β1+syndecan-4 trimolecular complex.

doi: 10.1038/ncomms5886

Figure Lengend Snippet: Figure 3 | Trimolecular bonds exhibit ‘Dynamic catch’ behaviour. (a) Representative force versus time overlapping plots showing no bond (black), non- stiffening bond (blue) and stiffening bond (red) events. Data (points, grey) were acquired at 1,200 fps and were smoothed using the Savitzky–Golay method. (b,c) Representative force versus time zoom-in plots in the ramping phase showing non-stiffening (b) and stiffening (c) signatures. The force at SP (fsp), the stiffness before SP (ksys 1 ) and after SP (ksys 2 ) are indicated. Zero forces are shown by dotted lines. (d) Mean±s.e.m. (of 450 measurements) stiffness of Thy-1–K562 molecular complexes measured by BFP, from left to right: ka5b1 obtained by Syn4 siRNA treatment, kSyn4 obtained by anti-b1 mAb and b1 shRNA treatment, respectively, knon-stiff for all non-stiffening bonds and kws calculated as the /nS weighted sum of ka5b1 and kSyn4. *Po0.05; **Po0.01 as assessed by unpaired, two-tailed Student’s t-test. (e) The relative fraction of Thy-1 bonds: the left column shows trimolecular (empty) versus bimolecular (solid) bond compositions at zero force; the right column shows stiffened (grid) versus non-stiffened (shaded) bond compositions at non-zero force in the ramping phase. (f) Scatter plots of bond lifetimes versus corresponding clamp forces. Individual lifetimes (scatter points) from a were colour- coded for non-stiffening (blue) and stiffening (red) bonds, respectively. (g) Plots of lifetime (mean±s.e.m.) versus force of Thy-1–a5b1 (/ta5b1S, Syn4 siRNA treated, purple square), Thy-1–Syn4 (/tSyn4S, b1 shRNA treated, green triangle) bimolecular bonds and total Thy-1–K562 bonds (/ttotalS, untreated, black circle) for the full force regime investigated. (h) Non-stiffening synergy zoom-in. The low force regime from g (yellow) is highlighted. Weighted sum (by respective /nS in Fig. 2d) of bimolecular bonds (/ta5b1S þ /tSyn4S, blue dashed line) and calculated trimolecular bonds (/ta5b1 þ Syn4S, red dashed line) are shown. (i) Stiffening synergy zoom-in. The high force regime from g (turquoise) is highlighted. Non-stiffening bonds ((/tnon-stiffS þ /tstiffS, green dashed line, /tnon-stiffS, blue square), stiffening bonds (/tstiffS, red triangle) and their weighted sum (by respective /nS in corresponding force regime) are shown in the high force regime.

Article Snippet: For Syn4 siRNA knockdown, human Syn4 siRNA (SC-36588; Santa Cruz Biotechnology) or scrambled control siRNA (SC-37007; Santa Cruz Biotechnology) was transfected into K562 or A375 cells using the Amaxa Nucleofector system (Lonza, Switzerland) at 10 nM, and cells were used the following day for experimentation or verification of knockdown efficiency by flow cytometry.

Techniques: shRNA, Two Tailed Test

Journal: Nature communications

Article Title: Dynamic catch of a Thy-1-α5β1+syndecan-4 trimolecular complex.

doi: 10.1038/ncomms5886

Figure Lengend Snippet: Figure 5 | Syn4 engagement is required for dynamic catch and contractility-dependent adhesion maturation. (a) Scatter plot of bond lifetime versus clamp force for HPSE-treated K562 cells. The measurements and colour codes are the same as the data of Fig. 3f, which are overlaid with the same but dimmed colours for comparison. (b) Fraction of non-stiffening (blue) versus stiffening (red) Thy-1–K562 bonds at the absence and presence of anti-b1 mAb, HPSE and those with Syn4 siRNA in K562 cells. The same treatment conditions were used as Fig. 2c. (c) Immunofluorescence images of Pxn, FAK-pY397, overlays (depicting Pxn in green and FAK-pY397 in red), and ratiometric quantification of FAK activation in A375 cells spread on Thy-1 with control (Cont.) or Syn4 siRNA, and with or without 25 mM blebbistatin. Expanded views correspond to the area indicated with a red rectangle. The range of ratio values (in arbitrary values) is indicated by colour scale. Scale bar, 10 mm. (d) Distributions of FAK activation (FAK-pY397:Pxn) versus adhesion size for individual adhesions of representative Cont. (upper) or Syn4 siRNA-treated (lower) cells with or without 25 mM blebbistatin. Statistically significant Pearson’s correlation values and two-tailed P-values are indicated. (e) Mean±s.e.m. for non-treated adhesions binned into groupings o1 mm2, 41 mm2, or non-binned adhesions treated with Bleb. Data sets represent n4800 adhesions from ten cells or greater for each treatment condition. One representative of two independent experiments is shown. *Po0.05; **Po0.01; ***Po0.001; as assessed by unpaired, two-tailed Student’s t-test.

Article Snippet: For Syn4 siRNA knockdown, human Syn4 siRNA (SC-36588; Santa Cruz Biotechnology) or scrambled control siRNA (SC-37007; Santa Cruz Biotechnology) was transfected into K562 or A375 cells using the Amaxa Nucleofector system (Lonza, Switzerland) at 10 nM, and cells were used the following day for experimentation or verification of knockdown efficiency by flow cytometry.

Techniques: Comparison, Activation Assay, Control, Two Tailed Test