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annexin a1 anxa1 shrna  (OriGene)


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    Structured Review

    OriGene annexin a1 anxa1 shrna
    <t>Annexin</t> <t>A1</t> expression is increased in β2AR-deficient myeloid cells post-MI. (A) RT-qPCR screening of various efferocytosis pathway genes was performed on total RNA isolated from whole bone marrow (BM) cells from FL/FL and LB2 mice, with the heatmap representing the differential expression pattern of <t>Anxa1,</t> Mertk, Axl, Stab1 and Stab2 genes between FL/FL and LB2 BM cells. RT-qPCR-detected Anxa1 expression in Veh or ISO-treated (10 µM for 16h) FL/FL versus LB2 BMDM (B, n = 3 each), prepared as described in Figure A. (C) Schematic of magnetic microbead column-based cardiac CD11b+ cell enrichment at 1 Day post-MI, after which gene expression of β2AR and Anxa1 were assessed via RT-qPCR (D), n = 3/group. Flow cytometry-based histogram analysis showing comparative AnxA1 protein expression via mean fluorescence intensity (MFI) among various phenotypically distinct myeloid cell types: general CD11b+ myeloid cells (E), Nu (F), Ly6C hi Mo (G), Mac (H) and Ly6C lo Mo (I) at 4 days post-MI FL/FL and LB2 hearts, n = 5/group. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05; ** p < 0.01, **** p < 0.0001, Unpaired student's t-test.
    Annexin A1 Anxa1 Shrna, supplied by OriGene, used in various techniques. Bioz Stars score: 94/100, based on 6 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/vector+a1/pRFP-C-shLenti+shRNA+Vector/pmc12905670-31-17-25
    Average 94 stars, based on 6 article reviews
    annexin a1 anxa1 shrna - by Bioz Stars, 2026-11
    94/100 stars

    Images

    1) Product Images from "Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1"

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1

    Journal: Theranostics

    doi: 10.7150/thno.123651

    Annexin A1 expression is increased in β2AR-deficient myeloid cells post-MI. (A) RT-qPCR screening of various efferocytosis pathway genes was performed on total RNA isolated from whole bone marrow (BM) cells from FL/FL and LB2 mice, with the heatmap representing the differential expression pattern of Anxa1, Mertk, Axl, Stab1 and Stab2 genes between FL/FL and LB2 BM cells. RT-qPCR-detected Anxa1 expression in Veh or ISO-treated (10 µM for 16h) FL/FL versus LB2 BMDM (B, n = 3 each), prepared as described in Figure A. (C) Schematic of magnetic microbead column-based cardiac CD11b+ cell enrichment at 1 Day post-MI, after which gene expression of β2AR and Anxa1 were assessed via RT-qPCR (D), n = 3/group. Flow cytometry-based histogram analysis showing comparative AnxA1 protein expression via mean fluorescence intensity (MFI) among various phenotypically distinct myeloid cell types: general CD11b+ myeloid cells (E), Nu (F), Ly6C hi Mo (G), Mac (H) and Ly6C lo Mo (I) at 4 days post-MI FL/FL and LB2 hearts, n = 5/group. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05; ** p < 0.01, **** p < 0.0001, Unpaired student's t-test.
    Figure Legend Snippet: Annexin A1 expression is increased in β2AR-deficient myeloid cells post-MI. (A) RT-qPCR screening of various efferocytosis pathway genes was performed on total RNA isolated from whole bone marrow (BM) cells from FL/FL and LB2 mice, with the heatmap representing the differential expression pattern of Anxa1, Mertk, Axl, Stab1 and Stab2 genes between FL/FL and LB2 BM cells. RT-qPCR-detected Anxa1 expression in Veh or ISO-treated (10 µM for 16h) FL/FL versus LB2 BMDM (B, n = 3 each), prepared as described in Figure A. (C) Schematic of magnetic microbead column-based cardiac CD11b+ cell enrichment at 1 Day post-MI, after which gene expression of β2AR and Anxa1 were assessed via RT-qPCR (D), n = 3/group. Flow cytometry-based histogram analysis showing comparative AnxA1 protein expression via mean fluorescence intensity (MFI) among various phenotypically distinct myeloid cell types: general CD11b+ myeloid cells (E), Nu (F), Ly6C hi Mo (G), Mac (H) and Ly6C lo Mo (I) at 4 days post-MI FL/FL and LB2 hearts, n = 5/group. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05; ** p < 0.01, **** p < 0.0001, Unpaired student's t-test.

    Techniques Used: Expressing, Quantitative RT-PCR, Isolation, Quantitative Proteomics, Gene Expression, Flow Cytometry, Fluorescence

    β2AR signaling induces miR-374b-50-mediated repression of Anxa1. RT-qPCR screening of miR-196b (A, n = 4 each), miR-374b-5p (B, n = 3 each), miR-128a (C, n = 3 each) and miR-26a (D, n = 3 each) in BMDM treated with vehicle (0.002% L-ascorbic acid) or ISO (10 μM, 16h). RT-qPCR screening of miR-196b (E), miR-374b-5p (F), miR-128a (G) and miR-26a (H) in 4 day post-MI cardiac CD11b + cells, n = 5 FL/FL and n = 4 LB2. For each replicate, a minimum of 5 heart cells were combined. (I) Table showing sequence % identity between mouse (prefixed; mmu-) and human (prefixed; hsa-) miR-374b-5p. (J) Predicated alignment of miR-374b-5p with 3'-UTR of Anxa1. (K) TaqMan TM based RT-qPCR analysis of the effect of miR-374b-5p mimic on miR-374b-5p expression in HEK293T cells. (L) RT-qPCR analysis of the effect of miR-374b-5p mimic on ANXA1 gene expression in HEK293T cells. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, One way ANOVA with Tukey's post-hoc test (A-D, K) or Unpaired student's t-test (E-H).
    Figure Legend Snippet: β2AR signaling induces miR-374b-50-mediated repression of Anxa1. RT-qPCR screening of miR-196b (A, n = 4 each), miR-374b-5p (B, n = 3 each), miR-128a (C, n = 3 each) and miR-26a (D, n = 3 each) in BMDM treated with vehicle (0.002% L-ascorbic acid) or ISO (10 μM, 16h). RT-qPCR screening of miR-196b (E), miR-374b-5p (F), miR-128a (G) and miR-26a (H) in 4 day post-MI cardiac CD11b + cells, n = 5 FL/FL and n = 4 LB2. For each replicate, a minimum of 5 heart cells were combined. (I) Table showing sequence % identity between mouse (prefixed; mmu-) and human (prefixed; hsa-) miR-374b-5p. (J) Predicated alignment of miR-374b-5p with 3'-UTR of Anxa1. (K) TaqMan TM based RT-qPCR analysis of the effect of miR-374b-5p mimic on miR-374b-5p expression in HEK293T cells. (L) RT-qPCR analysis of the effect of miR-374b-5p mimic on ANXA1 gene expression in HEK293T cells. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, One way ANOVA with Tukey's post-hoc test (A-D, K) or Unpaired student's t-test (E-H).

    Techniques Used: Quantitative RT-PCR, Sequencing, Expressing, Gene Expression

    Anxa1 downregulation reduces efferocytosis and ameliorative cardiac remodeling effects in myeloid cell-specific β2AR knockout mice. (A) BMDM underwent lentivirus transduction of various clones (A-D) of AnxA1 shRNA versus control (CTL) shRNA for 48 h, after which RT-qPCR was used to assess gene silencing efficiency, n = 3/group. (B) Schematic depicting the experimental design to test the impact of AnxA1 knockdown in LB2 bone marrow-derived Nu. Briefly, LB2 BM cells were transduced with lentivirus containing either CTL shRNA or AnxA1 shRNA (1:1 mixture of clones B and D), after which they were retro-orbitally injected into lethally irradiated LB2 mice to generate bone marrow transplant (BMT) mice featuring LB2 bone marrow with or without AnxA1 knockdown, as confirmed via RT-qPCR analysis after terminal experiments (C), n = 4 (CTL shRNA), n = 4 (AnxA1 shRNA). 4 weeks after BM reconstitution, CTL shRNA and AnaA1 shRNA Nu were enriched from the respective BMT mice using magnetic columns, after which they underwent efferocytosis assays with LB2 BMDM (as described in Figure ) and flow cytometry analysis, as shown via contour plots (D) of LB2 BMDM incubated without Nu (left) or with CMFDA + Nu from either CTL shRNA (middle) or Anxa1 shRNA (right) LB2 BMT mice. (E) Quantification of CTL shRNA versus Anxa1 shRNA LB2 Nu uptake efficiency into LB2 BMDM in terms of % efferocytosis, n = 4/each group. CTL shRNA and AnxA1 shRNA-transduced LB2 BMT mice were generated as described above and 4 weeks after BM reconstitution underwent MI surgery. Histograms depicting %EF (F) and %FS (G) at baseline, 3 and 14 days post-MI in CTL and AnxA1 shRNA LB2 BMT mice, n = 4 for CTL, n = 6 for AnxA1 shRNA. (H) MT staining of whole heart (top row) displaying infarct size of CTL and AnxA1 shRNA LB2 BMT mice at 14 days post-MI with quantification shown in (I), n = 4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 1000 µm, and 20X images (bottom row) displaying interstitial fibrosis in the border zone of the post-MI hearts with quantification as % area fibrosis (J), n =4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 100 µm. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001, One way ANOVA with Tukey's post-hoc test (A), Unpaired student's t-test (C, E, I, J) or Two-way repeated measures ANOVA with Tukey's post-hoc test (F, G).
    Figure Legend Snippet: Anxa1 downregulation reduces efferocytosis and ameliorative cardiac remodeling effects in myeloid cell-specific β2AR knockout mice. (A) BMDM underwent lentivirus transduction of various clones (A-D) of AnxA1 shRNA versus control (CTL) shRNA for 48 h, after which RT-qPCR was used to assess gene silencing efficiency, n = 3/group. (B) Schematic depicting the experimental design to test the impact of AnxA1 knockdown in LB2 bone marrow-derived Nu. Briefly, LB2 BM cells were transduced with lentivirus containing either CTL shRNA or AnxA1 shRNA (1:1 mixture of clones B and D), after which they were retro-orbitally injected into lethally irradiated LB2 mice to generate bone marrow transplant (BMT) mice featuring LB2 bone marrow with or without AnxA1 knockdown, as confirmed via RT-qPCR analysis after terminal experiments (C), n = 4 (CTL shRNA), n = 4 (AnxA1 shRNA). 4 weeks after BM reconstitution, CTL shRNA and AnaA1 shRNA Nu were enriched from the respective BMT mice using magnetic columns, after which they underwent efferocytosis assays with LB2 BMDM (as described in Figure ) and flow cytometry analysis, as shown via contour plots (D) of LB2 BMDM incubated without Nu (left) or with CMFDA + Nu from either CTL shRNA (middle) or Anxa1 shRNA (right) LB2 BMT mice. (E) Quantification of CTL shRNA versus Anxa1 shRNA LB2 Nu uptake efficiency into LB2 BMDM in terms of % efferocytosis, n = 4/each group. CTL shRNA and AnxA1 shRNA-transduced LB2 BMT mice were generated as described above and 4 weeks after BM reconstitution underwent MI surgery. Histograms depicting %EF (F) and %FS (G) at baseline, 3 and 14 days post-MI in CTL and AnxA1 shRNA LB2 BMT mice, n = 4 for CTL, n = 6 for AnxA1 shRNA. (H) MT staining of whole heart (top row) displaying infarct size of CTL and AnxA1 shRNA LB2 BMT mice at 14 days post-MI with quantification shown in (I), n = 4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 1000 µm, and 20X images (bottom row) displaying interstitial fibrosis in the border zone of the post-MI hearts with quantification as % area fibrosis (J), n =4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 100 µm. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001, One way ANOVA with Tukey's post-hoc test (A), Unpaired student's t-test (C, E, I, J) or Two-way repeated measures ANOVA with Tukey's post-hoc test (F, G).

    Techniques Used: Knock-Out, Transduction, Clone Assay, shRNA, Control, Quantitative RT-PCR, Knockdown, Derivative Assay, Injection, Irradiation, Flow Cytometry, Incubation, Generated, Staining

    Mechanism of myeloid cell-specific β2AR deletion-mediated post-MI injury resolution. Myocardial infarction triggers local ischemic damage and elevated catecholamines (epinephrine/norepinephrine; NE/EP). Stimulation of myeloid cell β2AR increases the abundance of miR-347b-5p leading to degradation of Anxa1 mRNA, resulting in decreased Anxa1 protein expression (A). In the absence of β2AR, miR-347b-5p cannot be induced, leading to de-repression of Anxa1 expression, and ultimately increased Nu efferocytosis (B). This enhanced Nu clearance during the early post-MI period leads to better injury resolution with less fibrosis and infarct expansion and better contractile function.
    Figure Legend Snippet: Mechanism of myeloid cell-specific β2AR deletion-mediated post-MI injury resolution. Myocardial infarction triggers local ischemic damage and elevated catecholamines (epinephrine/norepinephrine; NE/EP). Stimulation of myeloid cell β2AR increases the abundance of miR-347b-5p leading to degradation of Anxa1 mRNA, resulting in decreased Anxa1 protein expression (A). In the absence of β2AR, miR-347b-5p cannot be induced, leading to de-repression of Anxa1 expression, and ultimately increased Nu efferocytosis (B). This enhanced Nu clearance during the early post-MI period leads to better injury resolution with less fibrosis and infarct expansion and better contractile function.

    Techniques Used: Expressing

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    Polymerase Chain Reaction:

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    Isolation:

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1
    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ). .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

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    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150. .. Lentivirus transduction was performed in serum free RPMI-1460 (w/o antibiotic and antimycotic) in the presence of ViralEntryTM Transduction Enhancer (Applied Biological Materials Inc. ABM, BC, Canada).

    Transduction:

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1
    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ). .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

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    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150. .. Lentivirus transduction was performed in serum free RPMI-1460 (w/o antibiotic and antimycotic) in the presence of ViralEntryTM Transduction Enhancer (Applied Biological Materials Inc. ABM, BC, Canada).

    shRNA:

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1
    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ). .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

    Article Title: Loss of Myeloid Cell-Specific β2-Adrenergic Receptor Expression Ameliorates Cardiac Function and Remodeling after Acute Ischemia
    Article Snippet: .. Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150. .. Lentivirus transduction was performed in serum free RPMI-1460 (w/o antibiotic and antimycotic) in the presence of ViralEntryTM Transduction Enhancer (Applied Biological Materials Inc. ABM, BC, Canada).

    Over Expression:

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    Article Snippet: Prostate cancer (PCa) is a common malignant tumour that occurs in men.. It was expected that PCa would account for approximately 13.09% of all newly diagnosed cancer cases in the United States in 2021 (Siegel & Miller, 2021).. Most of the diagnosed patients are local, and their 5year survival rate is close to 98%– 100% after radical prostatectomy or radiotherapy or their combination treatment (Altschuler et al., 2021).

    Article Title: Netrin-1 mediates nerve innervation and angiogenesis leading to discogenic pain
    Article Snippet: Briefly, HEK-293 T cells were transfected with Netrin-1 promoter luciferase plasmid with renilla (Promega). .. Meanwhile cells were co-transfected with vector or a particular transcription factor TCF3 (OriGene) overexpression plasmid. .. The dual luciferase reporter assay kit was used to evaluate luciferase activity (Beyotime, Shanghai, China).

    Construct:

    Article Title: Glycogen Synthase Kinase-3 Modulates Hyperosmotic-Induced Urea Transporter A1 Relocation in the Inner Medullary Collecting Duct Cells.
    Article Snippet: Aim: Glycogen synthase kinase 3 (GSK3) regulates urine concentration by mediating the vasopressin-induced aquaporin 2 expression and water permeability, although it is unknown whether GSK3 also mediates the accumulation of the urea transporter A1 (UT-A1).. The aim of this study is to investigate the effect of GSK3 on UT-A1 distribution.. Methods: Mouse inner medullary collecting duct 3 cells were transfected with UT-A1-GFP construct.

    Synthesized:

    Article Title: The E3 ubiquitin ligase FBXL6 controls the quality of newly synthesized mitochondrial ribosomal proteins.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 568 Thermo Fisher Scientific Cat# A-11004; RRID:AB_2534072 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 568 Thermo Fisher Scientific Cat# A-11011; RRID:AB_143157 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21235; RRID:AB_2535804 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21244; RRID:AB_2535812 Streptavidin Mag Sepharose Cytiva Cat# 28-9857-38 PierceTM Anti-HA Magnetic Beads Thermo Fisher Cat# 88836 Anti-FLAG M2 Magnetic Beads Sigma Aldrich Cat# M8823 Chemicals, peptides, and recombinant proteins Epoxomycin UBPBIO Cat# F1400-5 Cycloheximide Sigma-Aldrich Cat# 01810 MG132 UBPBIO Cat# F1101 Dithiothreitol Sigma Aldrich Cat# D5545 Protease Inhibitor Cocktail Sigma-Aldrich Cat# P8340 Bovine Serum Albumin Sigma-Aldrich Cat# A7906-500G 2-Mercaptoethanol Sigma Aldrich Cat# M3148 Digitonin Sigma Aldrich Cat# D141-100MG Carfilzomib (PR-171) UBPBio Cat# F1300 PierceTM BCA Protein Assay Kit Thermo Scientific Cat# 23225 Adenosine 5’-triphosphate disodium salt hydrate Sigma Aldrich Cat# A7699-5G Critical commercial assays CellTiter-Glo 2.0 Cell Viability Assay Promega Cat# G9242 Deposited data FBXL6 Knockdown cells proteome. .. This study, ProteomeXchange PXD037252 FBXL6 interacting proteome This study, ProteomeXchange PXD037248 FBXL6 interaction with newly synthesized proteins This study, ProteomeXchange PXD037602 biotinylated proteins in cells expressing GFP-TurboID This study, ProteomeXchange PXD027122 biotinylated proteins in cells expressing FBXL6-TurboID cells This study, ProteomeXchange PXD028161 Experimental models: Cell lines Wild-type HEK293 ATCC Cat# CRL-1573; RRID: CVCL_0045 Wild-type HeLa cells Sigma Aldrich ECACC Cat# 93021013; RRID:CVCL_0030 FBXL4 KO HeLa stable This manuscript N/A FBXL6 KO HeLa stable This manuscript N/A HCT 116 cell line ATCC ATCC, CCL-247 TurboID FBXL4 HCT116 stable This manuscript N/A TurboID FBXL6 HCT116 stable This manuscript N/A Recombinant DNA pCMV-beta-galactosidase Gift N/A pCMV6-AC-GFP Origene Cat# PS100010 FBXL3-Myc Genscript Clone ID: OHu06084C FBXL4-Myc-DDK Origene Cat# RC208817 FBXL6-Myc-DDK This paper N/A mlsFBXL4-GFP This paper N/A mlsFBXL6-GFP This paper N/A Cyto-GFP This paper N/A Cyto-GFP-CAT This paper N/A (Continued on next page) Cell Reports 42, 112579, June 27, 2023 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Mito-GFP This paper N/A Mito-GFP-CAT This paper N/A MRPL45-HA-CAT This paper N/A MRPL45-HA-NS This paper N/A MRPL42-HA-CAT This paper N/A MRPL42-HA-NS This paper N/A SDHA-HA-CAT This paper N/A SDHA-HA-NS This paper N/A Software and algorithms graphpad Prism 9 Graphpad N/A DAVID 6.8 Huang et al.42 https://david.ncifcrf.gov Other Biorender Biorender.com Fugene HD Transfection Reagent Promega Cat# E2311 RIPA buffer Sigma-Aldrich Cat# R0278 Laemmli Sample Buffer 4x Bio-Rad Cat# 1610747 Laemmli Sample Buffer 23 Sigma Aldrich Cat# S3401 Precision Plus Protein Dual Color Standards Bio-Rad Cat# 1610374 10x Tris/Glycine/SDS Bio-Rad Cat# 1610772 Mini-PROTEAN TGX Gels Bio-Rad Cat# 4561093 Mini-PROTEAN TGX gels IPG Bio-Rad Cat# 4561091 Trans-Blot Turbo RTA Midi 0.2 mm PVDF Transfer Kit Bio-Rad Cat# 1704273 Penicillin-Streptomycin ThermoFisher Scientific Cat# 15140122 DMEM, high glucose, GlutaMAXTM Supplement, pyruvate ThermoFisher Scientific Cat# 31966021 DMEM, no glucose ThermoFisher Scientific Cat# 11966025 HEPES (1M) ThermoFisher Scientific Cat# 15630056 L-Glutamine (200 mM) ThermoFisher Scientific Cat# 25030024 Sodium Pyruvate (100 mM) ThermoFisher Scientific Cat# 11360070 D-(+)-Galactose Sigma Aldrich Cat# G0625 Trypsin-EDTA (0.25%), phenol red ThermoFisher Scientific Cat# 25200072 SuperSignalTM West Pico PLUS Thermo Scientific Cat# 34577 SuperSignalTM West Femto Thermo Scientific Cat# 34095 Trypsin-EDTA (0.05%) Gibco Cat# 25300062 2-Mercaptoethanol Sigma Aldrich Cat# M3148 NativePAGE 20x running buffer Invitrogen Cat# BN2001

    Expressing:

    Article Title: The E3 ubiquitin ligase FBXL6 controls the quality of newly synthesized mitochondrial ribosomal proteins.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 568 Thermo Fisher Scientific Cat# A-11004; RRID:AB_2534072 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 568 Thermo Fisher Scientific Cat# A-11011; RRID:AB_143157 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21235; RRID:AB_2535804 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21244; RRID:AB_2535812 Streptavidin Mag Sepharose Cytiva Cat# 28-9857-38 PierceTM Anti-HA Magnetic Beads Thermo Fisher Cat# 88836 Anti-FLAG M2 Magnetic Beads Sigma Aldrich Cat# M8823 Chemicals, peptides, and recombinant proteins Epoxomycin UBPBIO Cat# F1400-5 Cycloheximide Sigma-Aldrich Cat# 01810 MG132 UBPBIO Cat# F1101 Dithiothreitol Sigma Aldrich Cat# D5545 Protease Inhibitor Cocktail Sigma-Aldrich Cat# P8340 Bovine Serum Albumin Sigma-Aldrich Cat# A7906-500G 2-Mercaptoethanol Sigma Aldrich Cat# M3148 Digitonin Sigma Aldrich Cat# D141-100MG Carfilzomib (PR-171) UBPBio Cat# F1300 PierceTM BCA Protein Assay Kit Thermo Scientific Cat# 23225 Adenosine 5’-triphosphate disodium salt hydrate Sigma Aldrich Cat# A7699-5G Critical commercial assays CellTiter-Glo 2.0 Cell Viability Assay Promega Cat# G9242 Deposited data FBXL6 Knockdown cells proteome. .. This study, ProteomeXchange PXD037252 FBXL6 interacting proteome This study, ProteomeXchange PXD037248 FBXL6 interaction with newly synthesized proteins This study, ProteomeXchange PXD037602 biotinylated proteins in cells expressing GFP-TurboID This study, ProteomeXchange PXD027122 biotinylated proteins in cells expressing FBXL6-TurboID cells This study, ProteomeXchange PXD028161 Experimental models: Cell lines Wild-type HEK293 ATCC Cat# CRL-1573; RRID: CVCL_0045 Wild-type HeLa cells Sigma Aldrich ECACC Cat# 93021013; RRID:CVCL_0030 FBXL4 KO HeLa stable This manuscript N/A FBXL6 KO HeLa stable This manuscript N/A HCT 116 cell line ATCC ATCC, CCL-247 TurboID FBXL4 HCT116 stable This manuscript N/A TurboID FBXL6 HCT116 stable This manuscript N/A Recombinant DNA pCMV-beta-galactosidase Gift N/A pCMV6-AC-GFP Origene Cat# PS100010 FBXL3-Myc Genscript Clone ID: OHu06084C FBXL4-Myc-DDK Origene Cat# RC208817 FBXL6-Myc-DDK This paper N/A mlsFBXL4-GFP This paper N/A mlsFBXL6-GFP This paper N/A Cyto-GFP This paper N/A Cyto-GFP-CAT This paper N/A (Continued on next page) Cell Reports 42, 112579, June 27, 2023 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Mito-GFP This paper N/A Mito-GFP-CAT This paper N/A MRPL45-HA-CAT This paper N/A MRPL45-HA-NS This paper N/A MRPL42-HA-CAT This paper N/A MRPL42-HA-NS This paper N/A SDHA-HA-CAT This paper N/A SDHA-HA-NS This paper N/A Software and algorithms graphpad Prism 9 Graphpad N/A DAVID 6.8 Huang et al.42 https://david.ncifcrf.gov Other Biorender Biorender.com Fugene HD Transfection Reagent Promega Cat# E2311 RIPA buffer Sigma-Aldrich Cat# R0278 Laemmli Sample Buffer 4x Bio-Rad Cat# 1610747 Laemmli Sample Buffer 23 Sigma Aldrich Cat# S3401 Precision Plus Protein Dual Color Standards Bio-Rad Cat# 1610374 10x Tris/Glycine/SDS Bio-Rad Cat# 1610772 Mini-PROTEAN TGX Gels Bio-Rad Cat# 4561093 Mini-PROTEAN TGX gels IPG Bio-Rad Cat# 4561091 Trans-Blot Turbo RTA Midi 0.2 mm PVDF Transfer Kit Bio-Rad Cat# 1704273 Penicillin-Streptomycin ThermoFisher Scientific Cat# 15140122 DMEM, high glucose, GlutaMAXTM Supplement, pyruvate ThermoFisher Scientific Cat# 31966021 DMEM, no glucose ThermoFisher Scientific Cat# 11966025 HEPES (1M) ThermoFisher Scientific Cat# 15630056 L-Glutamine (200 mM) ThermoFisher Scientific Cat# 25030024 Sodium Pyruvate (100 mM) ThermoFisher Scientific Cat# 11360070 D-(+)-Galactose Sigma Aldrich Cat# G0625 Trypsin-EDTA (0.25%), phenol red ThermoFisher Scientific Cat# 25200072 SuperSignalTM West Pico PLUS Thermo Scientific Cat# 34577 SuperSignalTM West Femto Thermo Scientific Cat# 34095 Trypsin-EDTA (0.05%) Gibco Cat# 25300062 2-Mercaptoethanol Sigma Aldrich Cat# M3148 NativePAGE 20x running buffer Invitrogen Cat# BN2001

    Article Title: Recombinant CD300c-Ig fusion protein attenuates collagen-induced arthritis in mice.
    Article Snippet: Rheumatoid arthritis (RA) is a chronic autoimmune disease characterized by joint inflammation and tissue destruction.. Immune responses mediated by T cells and autoantibodies are known to play critical roles in RA.. Collagen type II (CII)-induced arthritis (CIA) is a commonly used animal model of human RA.

    Clone Assay:

    Article Title: Recombinant CD300c-Ig fusion protein attenuates collagen-induced arthritis in mice.
    Article Snippet: Rheumatoid arthritis (RA) is a chronic autoimmune disease characterized by joint inflammation and tissue destruction.. Immune responses mediated by T cells and autoantibodies are known to play critical roles in RA.. Collagen type II (CII)-induced arthritis (CIA) is a commonly used animal model of human RA.



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    Image Search Results


    Annexin A1 expression is increased in β2AR-deficient myeloid cells post-MI. (A) RT-qPCR screening of various efferocytosis pathway genes was performed on total RNA isolated from whole bone marrow (BM) cells from FL/FL and LB2 mice, with the heatmap representing the differential expression pattern of Anxa1, Mertk, Axl, Stab1 and Stab2 genes between FL/FL and LB2 BM cells. RT-qPCR-detected Anxa1 expression in Veh or ISO-treated (10 µM for 16h) FL/FL versus LB2 BMDM (B, n = 3 each), prepared as described in Figure A. (C) Schematic of magnetic microbead column-based cardiac CD11b+ cell enrichment at 1 Day post-MI, after which gene expression of β2AR and Anxa1 were assessed via RT-qPCR (D), n = 3/group. Flow cytometry-based histogram analysis showing comparative AnxA1 protein expression via mean fluorescence intensity (MFI) among various phenotypically distinct myeloid cell types: general CD11b+ myeloid cells (E), Nu (F), Ly6C hi Mo (G), Mac (H) and Ly6C lo Mo (I) at 4 days post-MI FL/FL and LB2 hearts, n = 5/group. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05; ** p < 0.01, **** p < 0.0001, Unpaired student's t-test.

    Journal: Theranostics

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1

    doi: 10.7150/thno.123651

    Figure Lengend Snippet: Annexin A1 expression is increased in β2AR-deficient myeloid cells post-MI. (A) RT-qPCR screening of various efferocytosis pathway genes was performed on total RNA isolated from whole bone marrow (BM) cells from FL/FL and LB2 mice, with the heatmap representing the differential expression pattern of Anxa1, Mertk, Axl, Stab1 and Stab2 genes between FL/FL and LB2 BM cells. RT-qPCR-detected Anxa1 expression in Veh or ISO-treated (10 µM for 16h) FL/FL versus LB2 BMDM (B, n = 3 each), prepared as described in Figure A. (C) Schematic of magnetic microbead column-based cardiac CD11b+ cell enrichment at 1 Day post-MI, after which gene expression of β2AR and Anxa1 were assessed via RT-qPCR (D), n = 3/group. Flow cytometry-based histogram analysis showing comparative AnxA1 protein expression via mean fluorescence intensity (MFI) among various phenotypically distinct myeloid cell types: general CD11b+ myeloid cells (E), Nu (F), Ly6C hi Mo (G), Mac (H) and Ly6C lo Mo (I) at 4 days post-MI FL/FL and LB2 hearts, n = 5/group. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05; ** p < 0.01, **** p < 0.0001, Unpaired student's t-test.

    Article Snippet: Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

    Techniques: Expressing, Quantitative RT-PCR, Isolation, Quantitative Proteomics, Gene Expression, Flow Cytometry, Fluorescence

    β2AR signaling induces miR-374b-50-mediated repression of Anxa1. RT-qPCR screening of miR-196b (A, n = 4 each), miR-374b-5p (B, n = 3 each), miR-128a (C, n = 3 each) and miR-26a (D, n = 3 each) in BMDM treated with vehicle (0.002% L-ascorbic acid) or ISO (10 μM, 16h). RT-qPCR screening of miR-196b (E), miR-374b-5p (F), miR-128a (G) and miR-26a (H) in 4 day post-MI cardiac CD11b + cells, n = 5 FL/FL and n = 4 LB2. For each replicate, a minimum of 5 heart cells were combined. (I) Table showing sequence % identity between mouse (prefixed; mmu-) and human (prefixed; hsa-) miR-374b-5p. (J) Predicated alignment of miR-374b-5p with 3'-UTR of Anxa1. (K) TaqMan TM based RT-qPCR analysis of the effect of miR-374b-5p mimic on miR-374b-5p expression in HEK293T cells. (L) RT-qPCR analysis of the effect of miR-374b-5p mimic on ANXA1 gene expression in HEK293T cells. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, One way ANOVA with Tukey's post-hoc test (A-D, K) or Unpaired student's t-test (E-H).

    Journal: Theranostics

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1

    doi: 10.7150/thno.123651

    Figure Lengend Snippet: β2AR signaling induces miR-374b-50-mediated repression of Anxa1. RT-qPCR screening of miR-196b (A, n = 4 each), miR-374b-5p (B, n = 3 each), miR-128a (C, n = 3 each) and miR-26a (D, n = 3 each) in BMDM treated with vehicle (0.002% L-ascorbic acid) or ISO (10 μM, 16h). RT-qPCR screening of miR-196b (E), miR-374b-5p (F), miR-128a (G) and miR-26a (H) in 4 day post-MI cardiac CD11b + cells, n = 5 FL/FL and n = 4 LB2. For each replicate, a minimum of 5 heart cells were combined. (I) Table showing sequence % identity between mouse (prefixed; mmu-) and human (prefixed; hsa-) miR-374b-5p. (J) Predicated alignment of miR-374b-5p with 3'-UTR of Anxa1. (K) TaqMan TM based RT-qPCR analysis of the effect of miR-374b-5p mimic on miR-374b-5p expression in HEK293T cells. (L) RT-qPCR analysis of the effect of miR-374b-5p mimic on ANXA1 gene expression in HEK293T cells. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, One way ANOVA with Tukey's post-hoc test (A-D, K) or Unpaired student's t-test (E-H).

    Article Snippet: Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

    Techniques: Quantitative RT-PCR, Sequencing, Expressing, Gene Expression

    Anxa1 downregulation reduces efferocytosis and ameliorative cardiac remodeling effects in myeloid cell-specific β2AR knockout mice. (A) BMDM underwent lentivirus transduction of various clones (A-D) of AnxA1 shRNA versus control (CTL) shRNA for 48 h, after which RT-qPCR was used to assess gene silencing efficiency, n = 3/group. (B) Schematic depicting the experimental design to test the impact of AnxA1 knockdown in LB2 bone marrow-derived Nu. Briefly, LB2 BM cells were transduced with lentivirus containing either CTL shRNA or AnxA1 shRNA (1:1 mixture of clones B and D), after which they were retro-orbitally injected into lethally irradiated LB2 mice to generate bone marrow transplant (BMT) mice featuring LB2 bone marrow with or without AnxA1 knockdown, as confirmed via RT-qPCR analysis after terminal experiments (C), n = 4 (CTL shRNA), n = 4 (AnxA1 shRNA). 4 weeks after BM reconstitution, CTL shRNA and AnaA1 shRNA Nu were enriched from the respective BMT mice using magnetic columns, after which they underwent efferocytosis assays with LB2 BMDM (as described in Figure ) and flow cytometry analysis, as shown via contour plots (D) of LB2 BMDM incubated without Nu (left) or with CMFDA + Nu from either CTL shRNA (middle) or Anxa1 shRNA (right) LB2 BMT mice. (E) Quantification of CTL shRNA versus Anxa1 shRNA LB2 Nu uptake efficiency into LB2 BMDM in terms of % efferocytosis, n = 4/each group. CTL shRNA and AnxA1 shRNA-transduced LB2 BMT mice were generated as described above and 4 weeks after BM reconstitution underwent MI surgery. Histograms depicting %EF (F) and %FS (G) at baseline, 3 and 14 days post-MI in CTL and AnxA1 shRNA LB2 BMT mice, n = 4 for CTL, n = 6 for AnxA1 shRNA. (H) MT staining of whole heart (top row) displaying infarct size of CTL and AnxA1 shRNA LB2 BMT mice at 14 days post-MI with quantification shown in (I), n = 4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 1000 µm, and 20X images (bottom row) displaying interstitial fibrosis in the border zone of the post-MI hearts with quantification as % area fibrosis (J), n =4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 100 µm. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001, One way ANOVA with Tukey's post-hoc test (A), Unpaired student's t-test (C, E, I, J) or Two-way repeated measures ANOVA with Tukey's post-hoc test (F, G).

    Journal: Theranostics

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1

    doi: 10.7150/thno.123651

    Figure Lengend Snippet: Anxa1 downregulation reduces efferocytosis and ameliorative cardiac remodeling effects in myeloid cell-specific β2AR knockout mice. (A) BMDM underwent lentivirus transduction of various clones (A-D) of AnxA1 shRNA versus control (CTL) shRNA for 48 h, after which RT-qPCR was used to assess gene silencing efficiency, n = 3/group. (B) Schematic depicting the experimental design to test the impact of AnxA1 knockdown in LB2 bone marrow-derived Nu. Briefly, LB2 BM cells were transduced with lentivirus containing either CTL shRNA or AnxA1 shRNA (1:1 mixture of clones B and D), after which they were retro-orbitally injected into lethally irradiated LB2 mice to generate bone marrow transplant (BMT) mice featuring LB2 bone marrow with or without AnxA1 knockdown, as confirmed via RT-qPCR analysis after terminal experiments (C), n = 4 (CTL shRNA), n = 4 (AnxA1 shRNA). 4 weeks after BM reconstitution, CTL shRNA and AnaA1 shRNA Nu were enriched from the respective BMT mice using magnetic columns, after which they underwent efferocytosis assays with LB2 BMDM (as described in Figure ) and flow cytometry analysis, as shown via contour plots (D) of LB2 BMDM incubated without Nu (left) or with CMFDA + Nu from either CTL shRNA (middle) or Anxa1 shRNA (right) LB2 BMT mice. (E) Quantification of CTL shRNA versus Anxa1 shRNA LB2 Nu uptake efficiency into LB2 BMDM in terms of % efferocytosis, n = 4/each group. CTL shRNA and AnxA1 shRNA-transduced LB2 BMT mice were generated as described above and 4 weeks after BM reconstitution underwent MI surgery. Histograms depicting %EF (F) and %FS (G) at baseline, 3 and 14 days post-MI in CTL and AnxA1 shRNA LB2 BMT mice, n = 4 for CTL, n = 6 for AnxA1 shRNA. (H) MT staining of whole heart (top row) displaying infarct size of CTL and AnxA1 shRNA LB2 BMT mice at 14 days post-MI with quantification shown in (I), n = 4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 1000 µm, and 20X images (bottom row) displaying interstitial fibrosis in the border zone of the post-MI hearts with quantification as % area fibrosis (J), n =4 for CTL and n = 5 for AnxA1 shRNA group, scale bar = 100 µm. Data are Mean ± SEM of independent experiments. ns, non-significant, * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001, One way ANOVA with Tukey's post-hoc test (A), Unpaired student's t-test (C, E, I, J) or Two-way repeated measures ANOVA with Tukey's post-hoc test (F, G).

    Article Snippet: Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

    Techniques: Knock-Out, Transduction, Clone Assay, shRNA, Control, Quantitative RT-PCR, Knockdown, Derivative Assay, Injection, Irradiation, Flow Cytometry, Incubation, Generated, Staining

    Mechanism of myeloid cell-specific β2AR deletion-mediated post-MI injury resolution. Myocardial infarction triggers local ischemic damage and elevated catecholamines (epinephrine/norepinephrine; NE/EP). Stimulation of myeloid cell β2AR increases the abundance of miR-347b-5p leading to degradation of Anxa1 mRNA, resulting in decreased Anxa1 protein expression (A). In the absence of β2AR, miR-347b-5p cannot be induced, leading to de-repression of Anxa1 expression, and ultimately increased Nu efferocytosis (B). This enhanced Nu clearance during the early post-MI period leads to better injury resolution with less fibrosis and infarct expansion and better contractile function.

    Journal: Theranostics

    Article Title: Myeloid cell-specific β2-adrenergic receptor deletion improves early cardiac injury resolution via de-repression of Anxa1

    doi: 10.7150/thno.123651

    Figure Lengend Snippet: Mechanism of myeloid cell-specific β2AR deletion-mediated post-MI injury resolution. Myocardial infarction triggers local ischemic damage and elevated catecholamines (epinephrine/norepinephrine; NE/EP). Stimulation of myeloid cell β2AR increases the abundance of miR-347b-5p leading to degradation of Anxa1 mRNA, resulting in decreased Anxa1 protein expression (A). In the absence of β2AR, miR-347b-5p cannot be induced, leading to de-repression of Anxa1 expression, and ultimately increased Nu efferocytosis (B). This enhanced Nu clearance during the early post-MI period leads to better injury resolution with less fibrosis and infarct expansion and better contractile function.

    Article Snippet: Bone marrow cells from the femurs of LB2 mice were isolated and transduced with either scrambled or Annexin A1 (Anxa1) shRNA using TR30030 pRFP-C-shLenti vector (Origene Technologies Inc. MD, USA) at an MOI of 150 ( ).

    Techniques: Expressing

    ( A ) Schematic representation of RNA pull-down system to identify proteins that bind UNC13A RNA. First, UNC13A RNA is in vitro transcribed from UNC13A minigene construct. Second, the RNA is labeled with a T4 RNA ligase, and the labeled RNA is then captured with streptavidin magnetic beads. The UNC13A RNA-streptavidin beads complex is mixed with either WT or TARDBP KO HeLa cell nuclei extract to elute the UNC13A RBPs, which are then assessed by western blot. ( B, C ) In vitro-transcribed RNA from WT UNC13A minigene (containing reference haplotype in UNC13A ) showed binding to TDP-43, hnRNP L, hnRNP A1, and hnRNP A2B1 by western blot ( B ) and mass spectrometry ( C ). Blots in B provided in Supporting information . Data used to generate the volcano plot in C can be found in . ( D ) In vitro-transcribed RNA from WT UNC13A minigene demonstrate binding of UNC13A cryptic exon to hnRNP L, hnRNP A1, and hnRNP A2B1 even in the absence of TDP-43 ( TARDBP KO HeLa cells), as shown in western blot. Blots in D provided in Supporting information . TARDBP KO HeLa cells treated with siRNAs against HNRNPL , HNRPNA1 , and HNRNPA2B1 were used as an additional negative control in the assay. Representative images of at least 2 independent experiments are shown. RBP, RNA-binding protein; siRNA, small interfering RNA; TDP-43, TAR DNA-binding protein-43.

    Journal: PLOS Biology

    Article Title: TDP-43 and other hnRNPs regulate cryptic exon inclusion of a key ALS/FTD risk gene, UNC13A

    doi: 10.1371/journal.pbio.3002028

    Figure Lengend Snippet: ( A ) Schematic representation of RNA pull-down system to identify proteins that bind UNC13A RNA. First, UNC13A RNA is in vitro transcribed from UNC13A minigene construct. Second, the RNA is labeled with a T4 RNA ligase, and the labeled RNA is then captured with streptavidin magnetic beads. The UNC13A RNA-streptavidin beads complex is mixed with either WT or TARDBP KO HeLa cell nuclei extract to elute the UNC13A RBPs, which are then assessed by western blot. ( B, C ) In vitro-transcribed RNA from WT UNC13A minigene (containing reference haplotype in UNC13A ) showed binding to TDP-43, hnRNP L, hnRNP A1, and hnRNP A2B1 by western blot ( B ) and mass spectrometry ( C ). Blots in B provided in Supporting information . Data used to generate the volcano plot in C can be found in . ( D ) In vitro-transcribed RNA from WT UNC13A minigene demonstrate binding of UNC13A cryptic exon to hnRNP L, hnRNP A1, and hnRNP A2B1 even in the absence of TDP-43 ( TARDBP KO HeLa cells), as shown in western blot. Blots in D provided in Supporting information . TARDBP KO HeLa cells treated with siRNAs against HNRNPL , HNRPNA1 , and HNRNPA2B1 were used as an additional negative control in the assay. Representative images of at least 2 independent experiments are shown. RBP, RNA-binding protein; siRNA, small interfering RNA; TDP-43, TAR DNA-binding protein-43.

    Article Snippet: To generate Flag-tagged hnRNP A1 and hnRNP A2B1 overexpression constructs, an hnRNP A2B1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC000506) and an hnRNP A1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC002355) were used.

    Techniques: In Vitro, Construct, Labeling, Magnetic Beads, Western Blot, Binding Assay, Mass Spectrometry, Negative Control, RNA Binding Assay, Small Interfering RNA

    In vitro-transcribed RNA from WT and CE SNP UNC13A minigenes were incubated with nuclear extracts from WT HeLa cells to assess their ability to bind the following proteins by western blot analyses after pull-down: TDP-43 ( A ), hnRNP L ( B ), hnRNP A1 ( C ), and hnRNP A2B1 ( D ). The graphs show reduced binding to CE SNP minigene by TDP-43 and other hnRNPs, as quantified by the signal intensity of the western blots using Image J. Graphs represent mean ± SEM of 6 independent assays. Statistical differences were assessed by Student’s t test, ** P < 0.005, **** P < 0.0001. Blots provided in Supporting information . Data used to generate graphs can be found in . CE, cryptic exon; SEM, standard error of mean; SNP, single-nucleotide polymorphism; TDP-43, TAR DNA-binding protein-43.

    Journal: PLOS Biology

    Article Title: TDP-43 and other hnRNPs regulate cryptic exon inclusion of a key ALS/FTD risk gene, UNC13A

    doi: 10.1371/journal.pbio.3002028

    Figure Lengend Snippet: In vitro-transcribed RNA from WT and CE SNP UNC13A minigenes were incubated with nuclear extracts from WT HeLa cells to assess their ability to bind the following proteins by western blot analyses after pull-down: TDP-43 ( A ), hnRNP L ( B ), hnRNP A1 ( C ), and hnRNP A2B1 ( D ). The graphs show reduced binding to CE SNP minigene by TDP-43 and other hnRNPs, as quantified by the signal intensity of the western blots using Image J. Graphs represent mean ± SEM of 6 independent assays. Statistical differences were assessed by Student’s t test, ** P < 0.005, **** P < 0.0001. Blots provided in Supporting information . Data used to generate graphs can be found in . CE, cryptic exon; SEM, standard error of mean; SNP, single-nucleotide polymorphism; TDP-43, TAR DNA-binding protein-43.

    Article Snippet: To generate Flag-tagged hnRNP A1 and hnRNP A2B1 overexpression constructs, an hnRNP A2B1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC000506) and an hnRNP A1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC002355) were used.

    Techniques: In Vitro, Incubation, Western Blot, Binding Assay

    ( A ) WT UNC13A minigene was expressed in WT HeLa cells treated with either control (siControl) or siRNAs against TARDBP (siTARDBP), HNRNPL (siHNRPL), HNRNPA1 (siHNRNPA1), or HNRNPA2B1 (siHNRNPA2B1). RNA was extracted, and RT-qPCR was performed to assess the expression levels of UNC13A cryptic (A), TARDBP , HNRNPL , HNRNPA1 , or HNRNPA2B1 RNA. (B, C) Flag-tagged TDP-43, hnRNP L, hnRNP A1, and hnRNP A2B1 were expressed in TARDBP KO HeLa cells transfected with UNC13A WT or CE SNP minigenes to evaluate the ability of other hnRNPs to repress UNC13A cryptic exon inclusion by RT-qPCR. A representative immunoblot confirming the expression of each Flag-tagged plasmid using a Flag antibody is shown in B. Blot provided in Supporting information . All graphs represent mean ± SEM of UNC13A cryptic RNA levels of 3 independent experiments. Statistical differences were assessed by one-way followed by Tukey’s multiple comparisons test (A) or two-way (C) ANOVA (ns: not significant, * P < 0.05, ** P < 0.005, **** P < 0.0001). Data used to generate graphs can be found in . CE, cryptic exon; hnRNP, heterogeneous nuclear ribonucleoprotein; SEM, standard error of mean; siRNA, small interfering RNA; SNP, single-nucleotide polymorphism;TDP-43, TAR DNA-binding protein-43.

    Journal: PLOS Biology

    Article Title: TDP-43 and other hnRNPs regulate cryptic exon inclusion of a key ALS/FTD risk gene, UNC13A

    doi: 10.1371/journal.pbio.3002028

    Figure Lengend Snippet: ( A ) WT UNC13A minigene was expressed in WT HeLa cells treated with either control (siControl) or siRNAs against TARDBP (siTARDBP), HNRNPL (siHNRPL), HNRNPA1 (siHNRNPA1), or HNRNPA2B1 (siHNRNPA2B1). RNA was extracted, and RT-qPCR was performed to assess the expression levels of UNC13A cryptic (A), TARDBP , HNRNPL , HNRNPA1 , or HNRNPA2B1 RNA. (B, C) Flag-tagged TDP-43, hnRNP L, hnRNP A1, and hnRNP A2B1 were expressed in TARDBP KO HeLa cells transfected with UNC13A WT or CE SNP minigenes to evaluate the ability of other hnRNPs to repress UNC13A cryptic exon inclusion by RT-qPCR. A representative immunoblot confirming the expression of each Flag-tagged plasmid using a Flag antibody is shown in B. Blot provided in Supporting information . All graphs represent mean ± SEM of UNC13A cryptic RNA levels of 3 independent experiments. Statistical differences were assessed by one-way followed by Tukey’s multiple comparisons test (A) or two-way (C) ANOVA (ns: not significant, * P < 0.05, ** P < 0.005, **** P < 0.0001). Data used to generate graphs can be found in . CE, cryptic exon; hnRNP, heterogeneous nuclear ribonucleoprotein; SEM, standard error of mean; siRNA, small interfering RNA; SNP, single-nucleotide polymorphism;TDP-43, TAR DNA-binding protein-43.

    Article Snippet: To generate Flag-tagged hnRNP A1 and hnRNP A2B1 overexpression constructs, an hnRNP A2B1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC000506) and an hnRNP A1 protein vector (pPM-N-D-C-HA) (Applied Biological Materials, Accession Number BC002355) were used.

    Techniques: Quantitative RT-PCR, Expressing, Transfection, Western Blot, Plasmid Preparation, Small Interfering RNA, Binding Assay