Journal: Molecular and Cellular Biology
Article Title: SRSF1 and PTBP1 Are trans -Acting Factors That Suppress the Formation of a CD33 Splicing Isoform Linked to Alzheimer’s Disease Risk
doi: 10.1128/MCB.00568-18
Figure Lengend Snippet: The rs12459419 SNP genotype does not affect CD33 mRNA or protein levels in CD33 cDNAs lacking introns. (A) Overview of the CD33 expression constructs used. (B) Overview of the RT-qPCR primer and probe sets used to detect the various CD33 mRNA transcripts. (C) Validation of the RT-qPCR assays ability to quantify CD33 exon 2 splicing using gBlocks that represent D2-CD33 or full-length CD33 cDNA. The fraction of detected exon 2 included (red) or exon 2 skipped (cyan) gene fragments is shown. Input quantities of the two different CD33 fragments are indicated below the graph. (D and E) mRNA levels of exon 2 included (D) and exon 2 skipped (E) CD33 transcripts normalized to the corresponding T-allele in HeLa cells transfected with the CD33 constructs shown in panel A, measured by RT-qPCR. (F) The RT-PCR products from a single primer set that simultaneously detects full-length CD33 (FL) and D2-CD33 in HeLa cells transfected with the CD33 constructs, including introns (A), visualized on a 1.2% agarose gel. The percent D2-CD33 values ± the standard errors of the mean (SEM) are indicated below each lane. (G to L) Flow cytometry analysis of CD33 surface levels using FITC- or PE-labeled antibodies targeting exon 2 (WM-53 [G and H]) or exon 3 (Him3-4 [J and K]) of CD33 in HeLa cells transfected with the CD33 constructs shown in panel A. CD33 KO THP1 cells were utilized as a negative control. α IgV, anti-IgV; α IgC, anti-IgG C 2 domain. The mean fluorescence intensity (MFI) normalized to the corresponding T-allele is depicted in panels I and L. Error bars indicate means + the SEM. A two-tailed t test was performed. *, P ≤ 0.05; **, P ≤ 0.01; ****, P ≤ 0.0001; ns, not significant. n = 3 biological replicates for each plot.
Article Snippet: The antibodies used were as follows: phycoerythrin (PE)-conjugated mouse anti-human CD33 clone WM-53 (BD Biosciences), fluorescein isothiocyanate (FITC)-conjugated mouse anti-human CD33 clone him3-4 (BD Biosciences, catalog no. 555626), and Alexa Fluor 488-conjugated anti-human CD11b clone ICRF44 (BioLegend, catalog no. 301317).
Techniques: Expressing, Construct, Quantitative RT-PCR, Transfection, Reverse Transcription Polymerase Chain Reaction, Agarose Gel Electrophoresis, Flow Cytometry, Labeling, Negative Control, Fluorescence, Two Tailed Test