46-9987-42

antibody from Invitrogen Antibodies

Targeting: GYPA CD235a, GPA, MN, MNS

Provider product page for 46-9987-42

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Antibody Data
Antigen structure
References [19]
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Flow cytometry [1]
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Product number: 46-9987-42 - Provider product page
Provider: Invitrogen Antibodies
Product name: CD235a (Glycophorin A) Monoclonal Antibody (HIR2 (GA-R2)), PerCP-eFluor™ 710, eBioscience™
Antibody type: Monoclonal
Antigen: Other
Description: Description: The HIR2 monoclonal antibody reacts with human glycophorin A, a sialoglycoprotein expressed by erythroid precursors and mature circulating red cells. Applications Reported: This HIR2 (also GA-R2) antibody has been reported for use in flow cytometric analysis. Applications Tested: This HIR2 (also GA-R2) antibody has been pre-titrated and tested by flow cytometric analsyis of human whole blood. This can be used at 5 µL (0.002 µg) per test. A test is defined as the amount (µg) of antibody that will stain a cell sample in a final volume of 100 µL. Cell number should be determined empirically but can range from 10^5 to 10^8 cells/test. PerCP-eFluor® 710 can be used in place of PE-Cy5, PE-Cy5.5 or PerCP-Cy5.5. PerCP-eFluor® 710 emits at 710 nm and is excited with the blue laser (488 nm). Please make sure that your instrument is capable of detecting this fluorochrome. For a filter configuration, we recommend using the 685 LP dichroic mirror and 710/40 band pass filter, however the 695/40 band pass filter is an acceptable alternative. Our testing indicates that PerCP-eFluor® 710 conjugated antibodies are stable when stained samples are exposed to freshly prepared 2% formaldehyde overnight at 4°C, but please evaluate for alternative fixation protocols. Excitation: 488 nm; Emission: 710 nm; Laser: Blue Laser. Filtration: 0.2 µm post-manufacturing filtered.
Reactivity: Human
Host: Mouse
Isotype: IgG
Antibody clone number: HIR2 (GA-R2)
Vial size: 100 Tests
Concentration: 5 µL/Test
Storage: 4° C, store in dark, DO NOT FREEZE!

GYPA protein structure - 46-9987-42 shown in red.

Supportive validation

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Supportive validation

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Supportive validation

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Supportive validation

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Supportive validation

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Experimental details: NULL

Supportive validation

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Experimental details: NULL

Supportive validation

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Experimental details: NULL

Supportive validation

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Experimental details: Figure 3 Activation of KLF1 at day 10 of differentiation results in enhanced erythroid differentiation of hiPSCs. (A) : Schematic of the pZDonor-AAVS1 Puro-CAG-HA-KLF1-ER T2 -PA construct. (B) : Western blot analyses of nuclear cell lysates from adult CD34 + cells that had been differentiated for 6 days into erythroid progenitors, control undifferentiated and differentiated (day 10) induced pluripotent stem cells (iPSCs), undifferentiated iKLF1.2 iPSCs and iKLF1.2 iPSC that had been differentiated for 10 days then treated with tamoxifen for 3 hours. Endogenous KLF1 and the expected larger sized KLF1-ER T2 fusion protein was detected with the anti-KLF1 antibody and the anti-Lamin B1 antibody was used to detect nuclear proteins as a loading control. (C) : Flow cytometry analysis using antibodies against CD235a and CD71 of cells present at day 15 of the erythroid differentiation protocol in control iPSCs and iKLF1.2 iPSC cell lines in the presence (+) and absence (-) of tamoxifen from day 10. ( D) : Quantitation of flow cytometry data representing three independent experiments. Error bars represent SEM. p values were calculated using one-way ANOVA followed by Holm-Sidak's multiple comparison test (* p < .05). ( E) : Image showing the cell pellets from one representative experiment demonstrating a smaller but more intense red pellet in the tamoxifen-treated iKLF1.2 cell line. Abbreviation: iPSCs, induced pluripotent stem cells.

Supportive validation

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Experimental details: Figure 3 Freeze/thaw of standard plasma increased platelet MPs in platelet poor plasma (PPP). Standard plasma from six healthy volunteers was either immediately processed to PPP or exposed to a single freeze/thaw cycle prior to a second centrifugation step to remove residual platelets. Platelet (CD41+), leukocyte (CD45+), endothelial (CD146+), and RBC (CD235a) MPs were quantified by flow cytometry. Total number of MPs in a sample was either calculated by the sum of positive events detected by antibody staining (Sum antibody+) or measured by staining with calcein-AM, a non-specific dye that fluorescently labels intact vesicles. Results were similar and showed marked increase after freeze-thaw of standard plasma *** indicates P < 0.001. This effect was largely due to an increase in platelet derived MPs (CD41+).

Supportive validation

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Experimental details: FIGURE 5 (A) Picture of pelleted K562 infected with an empty short hairpin RNA (shRNA, shCT ) and two shRNAs against PHF19 ( sh #1 and sh#2 ) 5 days after puromycin selection. (B) CD235a marker levels measured by flow cytometry in shCT-, sh# 1-, sh#2-infected cells 4 days after puromycin selection and 1 muM of Ara-C treatment in uninfected cells as a positive control. Left , representative plot of a single experiment. Right , bar plot of the mean of median cytometry values (shCt and sh#1, n = 4; sh#1 and 1 muM of Ara-C, n = 3) + SEM. (C) CD61 marker levels measured by flow cytometry in shCT-, sh# 1-, and sh#2-infected cells 4 days after puromycin selection and treated with 1 nM phorbol myristate acetate (PMA) for 24 h. Left , representative plot of a single experiment. Right , bar plot of the mean of median cytometry values ( n = 3) + SEM. (D) CD235a marker levels measured by flow cytometry at 4 days in shCT-, sh# 1-, and sh#2-infected cells after puromycin selection and treated with 10 nM of Ara-C for 72 h, with 1 muM of Ara-C treatment in uninfected cells as a positive control. Left , representative plot of a single experiment. Right , bar plot of the mean of median cytometry values (shCt, 10 nM Ara-C; sh#1, 10 nM Ara-C, n = 24; sh#1, 10 nM Ara-C, and 1 muM of Ara-C, n = 3) + SEM. * p < 0.05 ; p * * < 0.01 .

Supportive validation

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Experimental details: Figure 4 Global disruption of GATA1 transcriptional activity in DBA patients and rescue of ribosomal protein haploinsufficiency with exogenous GATA1 ( a ) Mean gene expression values of DBA and control patient samples are plotted on a scatter plot with a linear regression shown in red. The coefficient of determination is shown. ( b ) Relative GATA1 mRNA levels are plotted from DBA and control samples. ( c, d ) Enrichment profiles from GSEA comparing the relative expression of genes in DBA patients versus controls and examining the distribution of GATA1 target genes in this data (shown as black bars). ( e ) Representative FACS plots on transduction of bone marrow mononuclear cells from a DBA patient with GATA1 or HMD (empty) control lentiviruses. ( f ) The ratio of erythroid (CD235a + ) to non-erythroid (CD235a - ) -cells is shown after transduction of GATA1 for three independent DBA patients. The data are shown as the mean +- the standard deviation (n = 3). (** p < 0.01; *** p < 0.001). ( g ) Representative FACS forward scatter histogram plots (measuring cell size) of cultured DBA patient cells transduced with control or GATA1 lentivirus. The mean forward scatter intensity is shown +- the standard deviation (n = 3). ( h ) Representative cytospin images of cultured DBA patient cells transduced with control or GATA1 lentivirus. Transduced cells were sorted based on GFP expression and stained with May-Grunwald-Giemsa staining. Scale bar = 10 mum. ( i ) Gene expression analysis b

Supportive validation

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Experimental details: Fig. 3 KLF1-activated iPSC-DMs enhance erythroid maturation. a , b . Flow cytometry analyses of live CD235a + -gated cells of UCB-CD34 + erythroid cells cultured alone or in co-culture with iKLF1.2-DMs in the presence and absence of tamoxifen at day 14 ( a ) and day 21 ( b ) stained with anti-CD71 antibody and Hoechst dye (see Supplementary Fig. 3 for gating strategy and FMO controls). c Quantification and statistical analysis of absolute numbers of fully mature enucleated erythroid cells of replicate co-culture experiments ( n = 5 biologically independent samples; two-way ANOVA with Tukey''s post-test). d Cytospin of co-culture of KLF1-activated macrophages and UCB CD34 + cells showing close association and a fully mature erythroid cell with biconcave shape (arrow) (scale bar, 20 mum). e Cytospins of UCB CD34 + erythroid cells cultured alone or in co-culture with iKLF1.2-DM in the presence and absence of tamoxifen at day 14 (upper panels) and day 21 (lower panels); arrows point to enucleated cells (scale bar, 20 mum). * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001

Supportive validation

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Experimental details: Fig. 4 Implication of FTH1 in the erythroid iron restriction response. a , b Influence of FTH1 levels on viability and proliferation. Graphs: mean % viable cells and fold increases in cell number for human CD34+ progenitors transduced with lentiviral shRNA vectors targeting either green fluorescent protein (GFP) or ferritin heavy chain (FTH1), and cultured 4 days in iron-replete erythroid medium. Error bars, SEM; n = 3 biologically independent experiments; *, ** P = 0.011, 0.009, one-way ANOVA with Tukey post hoc. NS not significant. GPA glycophorin A. c Influence of FTH1 levels on erythroid differentiation as determined by flow cytometry on cells treated as in a . d Mean fold change in GPA+ cells associated with lentiviral transductions and 4 days culture in iron-replete erythroid medium. Error bars, SEM; n = 3 independent experiments; *, ** P = 0.019, 0.013, unpaired two-sided Student''s t test. Note: most experiments separately assessed FTH1#1 and FTH1#2. e Distinct consequences of ferritin enforcement in iron-replete versus iron-restricted progenitors. Flow cytometry analysis of CD34+ progenitors transduced with lentiviral (LV) expression vectors for ferritin heavy (FTH1) and light (FTL) chains followed by 4 days culture in iron-replete (100% TSAT) or deficient (10% TSAT) erythroid medium. f Mean fold change in GPA+ cells associated with ferritin enforcement in cells cultured as in e . Error bars, SEM; n = 3 independent experiments; * P = 0.02, unpaired two-sided Student'

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Experimental details: Figure 1. An Epigenomic and Transcriptional Time Course of Human Erythroid Differentiation (A) Schematic outline of generating matched transcriptome and open chromatin profiles across human erythropoiesis. (B) FACS gating scheme showing expression of surface markers CD71, CD235a, CD49d, and BAND3 used to sort indicated populations P1-P8 (P1, MyP; P2, CFU-E; P3, ProE1; P4, ProE1; P5, BasoE; P6, PolyE; P7, OrthoE; P8, Ortho/Ret). (C and D) Principal-components plots of (C) RNA-seq data and (D) ATAC-seq data, colored by FACS-sorted populations. Color code indicated below. (E) Number of chromatin accessibility peaks across populations. Error bars represent SEM number of peaks per population between replicates. (F) Heatmap showing relative numbers of differentially accessible peaks (top, blue shades) and differentially expressed genes (bottom, red shade) between populations.

Supportive validation

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Experimental details: Fig. 1 Genome-wide CRISPR screening reveals CBX8 as a regulator of K562 cell differentiation. (A) Schematic representation of genome-wide CRISPR-Cas9 screening in K562 cells with and without 3 days 30 uM hemin treatment to induce erythroid differentiation. (B) (left) Scatterplots of CS of CD235A - positive versus CD235A - negative K562 cells. (right) Gene ontology analysis of genes in the indicated regions (red). (C) CS (derived from the average of the four sgRNAs CRISPR-Cas9 guide scores within the sgRNAs targeting a given gene) for CD235A - negative K562 cells by hemin sorted after 3 days. Candidate genes and previously identified genes are indicated in red. (D) RT-qPCR of HBA1/2 in K562 cells with sgV2 (control vector) or sgCBX8, sgPRDM14, sgMETTL3, sgNAIF1 under hemin treatment. (E) (left) Cell differentiation was measured by hemoglobin staining of K562 cells with O-dianisidine. Hemin treatments were conducted for 3 days. Black arrowheads indicate O-dianisidine-positive cells. Scale bar = 25 um. (right) Quantifications are shown. (D) Values are presented as mean +- SEM (n = 3-4). (E) Values are presented as mean +- SD (n = 4). * P < 0.05, ** P < 0.01; Student's t -test.

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Experimental details: Fig. 2 CBX8 negatively regulates hemin-mediated K562 cell differentiation. (A) Immunoblots were performed using K562 cell lysates, which were treated with 30 uM hemin for 2 days. (B) RT-qPCR of CBX8 was performed using K562 cells treated with 30 uM hemin for 2 days. n.s, not significant. (C) Immunoblots were performed using K562 cell lysates, which were treated with 30 uM hemin for 2 days and 20 uM MG132 proteasome inhibitor for 8 h before harvested. (D) IP of endogenous CBX8 in K562 cells was performed to investigate polyubiquitination chains of CBX8. Cell lysates were immunoprecipitated using anti-CBX8 antibodies, and polyubiquitination chains were immunoblotted using FK2 antibodies that detect mono- and poly-ubiquitin. (E) Overexpression of flag-tagged CBX8 was confirmed by immunoblots. NC, normal control. (F) RT-qPCR of HBA1/2 was performed using K562 cells stably expressing flag-tagged CBX8. The relative increase of expression in cells treated with 30 uM hemin for 2 days was quantified compared to that of a mock experiment. (G) Histogram showing erythroid differentiation upon 30 uM hemin treatment for 3 days. K562 cells expressing control vector (NC) or flag-tagged CBX8 were stained with anti-APC-CD235A and FACS sorted. (B and F) Values are presented as mean +- SEM (n = 3-4). * P < 0.05; Student's t -test.

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Experimental details: Fig. 4 Phosphorylation of serine 196 on CBX8 by PIM1 affects K562 cell differentiation. (A) RT-qPCR of PIM1 was performed using K562 cells treated with 30 uM hemin for 2 days. (B) Immunoblots were performed using K562 cell lysates, which were treated with 30 uM, 50 uM hemin for 2 days. (C) IP of endogenous CBX8 in K562 cells was performed and proteins were immunoblotted with the indicated antibodies. (D) IP of endogenous CBX8 was performed using K562 cells treated with 30 uM hemin for 2 days and proteins were immunoblotted with the indicated antibodies. (E) GST-CBX8 WT and deletion constructs were used for GST pulldown assay with 293T cell lysates transiently expressed GFP-tagged PIM1, followed by elution and separation by SDS-PAGE. The amount of GST-CBX8 WT or deletion constructs were determined by Coomassie brilliant blue (CBB) staining. (F) In vitro kinase assay using GST-CBX8 and GST-PIM1. The phosphorylated GST-CBX8 by PIM1 were visualized via autoradiography and the amounts of GST-fusion proteins used in the assay are shown in the CBB staining. (G) In vitro kinase assay using GST-CBX8 deletion mutants and GST-PIM1. The phosphorylated GST-CBX8 WT and #2 deletion mutant were visualized via autoradiography. The amounts of GST-fusion proteins used in the assay are shown in the CBB staining. (H) GST-CBX8 modified with phosphorylation on serine 196. Mass spectrometry analysis (LC-MS / MS) was performed after in vitro kinase assay with GST-CBX8 and GST-PIM1. The graph shown in

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Experimental details: Fig. 5 TRIM28 induces CBX8 protein stabilization. (A) K562 cells stably expressing flag-tagged CBX8 were treated with 30 uM hemin for 2 days. Proteins in complexes with flag-tagged CBX8 were separated by SDS-PAGE after immunoprecipitation and visualized via silver staining. (B) IP of endogenous CBX8 in K562 cells was performed to confirm the interaction between TRIM28 and CBX8. K562 cells were treated with 30 uM hemin for 2 days and MG132 for 8 h before harvested. (C) GST-CBX8 WT and deletion mutants were used for GST pulldown assays. Extracts of 293T cells transiently expressing flag-tagged TRIM28 were incubated with GST-CBX8 or GST-CBX8 deletion mutants followed by elution and separation by SDS-PAGE. The amount of GST-CBX8 WT or deletion constructs were determined by CBB staining. (D) Immunoblots were performed using normal control (NC) and shTRIM28 K562 cells. (E) Immunoblots were performed using NC and shTRIM28 K562 cells treated with 30 uM hemin for 2 days. Each protein was blotted with the indicated antibodies. (F) Immunoblots were performed using NC and shTRIM28 K562 cells, treated with 30 uM hemin for 2 days and 20 uM MG132 for 8 h before being harvested. (G) IP of endogenous CBX8 in K562 cells was performed to investigate polyubiquitination chains of CBX8. NC and shTRIM28 K562 cells were treated with 20 uM MG132 for 8 h before harvested. Cell lysates were immunoprecipitated using anti-CBX8 antibodies and polyubiquitination chains were immunoblotted using FK2 antibodi

Supportive validation

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Experimental details: Figure 7 mTOR signalling in TAM - MG promotes immune evasion mechanisms in human glioblastoma A Correlation between ssGSEA enrichment scores for the mTOR signature versus TAM-MG or TAM-BMDM signatures in TCGA-GBM transcriptomic data. Comparison carried out on all IDH-wild-type samples and in a subgroup-specific manner according to Wang's classifier. Size of circle is indicative of R-square value, and bold outline represents a P

Supportive validation

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Experimental details: Figure 10 Hematopoiesis analysis Flow cytometry analysis of the indicated cell surface markers at day 4 of hemogenic endothelium culture.

Supportive validation

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Experimental details: Figure 7 Hematopoietic and endothelial cell characterization Flow cytometry analysis of day 4 hemogenic culture for hematopoietic (CD43, CD235a) and endothelial (KDR, CD73) cell surface markers.

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Experimental details: FIGURE 1 Hypoxia accelerates erythroid differentiation (A) Reddish pellets of K562 cells in the process of erythroid differentiation under normoxia and hypoxia. Redder pellets indicate more accumulation of hemoglobin (B) qRT-PCR analysis of the relative mRNA levels of specific erythrocyte markers CD235a and HBG. qRT-PCR was performed at the indicated time points after K562 cells were exposed to normoxia or hypoxia during erythroid differentiation. * p < 0.05, ** p < 0.01, *** p < 0.001, versus the corresponding normoxia group at different time points (C) Western blot analysis of CD235a and gamma-globin protein expression at the indicated time points after K562 cells were exposed to normoxia or hypoxia. N: normoxia; (H) hypoxia (D) Representative images of benzidine staining in K562 cells differentiated into erythrocytes. The line graph below shows the percentage of benzidine-positive cells. Scale Bar = 100 mum *** p < 0.001, versus the corresponding normoxia group. Nor: normoxia; Hyp: hypoxia (E) Flow cytometry plots show the expression of CD235a and CD71 in K562 cells. The line graph below shows the percentage of CD71 + /CD235a + cells. * p < 0.05, ** p < 0.01, *** p < 0.001, versus the respective normoxia group (F) qRT-PCR analysis of the relative mRNA levels of CD235a, HBG and HBB in HSPCs. qRT-PCR was performed at the indicated time points after HSPCs were exposed to normoxia or hypoxia during erythroid differentiation. *** p < 0.001, versus the respective normoxia group

Supportive validation

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Experimental details: FIGURE 3 Autophagy mediates erythroid differentiation promoted by hypoxia (A) Reddish pellets of K562 cells differentiated into erythrocytes treated with DMSO or Baf A1 (20 nM) under normoxia and hypoxia. The red color of pellets was lightened by Baf A1 in both normoxia and hypoxia (B) qRT-PCR analysis of the relative mRNA levels of CD235a and HBG at the indicated time points after K562 cells treated with DMSO (-) as control or Baf A1 (+, 20 nM) were induced into erythroid differentiation under normoxia or hypoxia conditions. ** p < 0.01; *** p < 0.001. versus the respective normoxia group at different time points (C) Western blot analysis of p62, LC3 and gamma-globin protein expression at the indicated time points after K562 cells differentiated into erythrocytes were treated with DMSO (-) as control or Baf A1 (+, 20 nM) under normoxia or hypoxia. Nor: normoxia; Hyp: hypoxia (D) Flow cytometry plots show the expression of CD235a and CD71 in K562 cells differentiated into erythrocytes that were treated with DMSO (-) as control or Baf A1 (+, 20 nM) under normoxia or hypoxia for 3 days. The graph on the right shows the percentage of CD71 + /CD235a + cells. *** p < 0.001, versus the DMSO group under normoxia. ### p < 0.001, versus the respective DMSO group under normoxia or hypoxia (E) Representative images of benzidine staining in K562 cells treated the same as (D) . The right graph shows the percentage of benzidine-positive cells. Scale Bar = 100 mum *** p < 0.001, versus the

Supportive validation

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Experimental details: FIGURE 4 Suppression of mTORC1 is required for inducing autophagy and accelerating erythroid differentiation under hypoxia (A) After K562 cells (left) and HSPCs (right) differentiated erythrocytes were exposed to normoxia or hypoxia for 3 day and 7 days, respectively, RNA-seq was performed, and then GSEA was used to analyze the major pathways related to hypoxia. NES, normalized enrichment score (B,C) Western blot shows the effects of hypoxia on p62, LC3, gamma-globin or beta-globin protein levels and mTORC1 activity at different time points in the process of erythroid differentiation of K562 cells or HSPCs (D,E) Western blot analysis of the effects of Rapa (100 nM) on p62, LC3, CD235a, gamma-globin or beta-globin protein levels and mTORC1 activity in K562- or HSPCs-differentiated erythrocytes under normoxia (F) qRT-PCR analysis of the relative mRNA levels of CD235a, HBG and HBB after HSPCs were differentiated into erythrocytes which were treated with DMSO or different concentrations of Rapa for 3 days from the fourth day to the seventh day of differentiation under normoxia. ns, not significant, ** p < 0.01, *** p < 0.001, versus the DMSO group (G) Flow cytometry plots show the expression of CD235a and CD71 in HSPCs-differentiated erythrocytes treated the same as (F) . The graph on the right shows the percentage of CD71 + /CD235a + cells. ** p < 0.01, *** p < 0.001. versus the DMSO group (H,I) Western blot analysis of the effects of TSC2 knockdown on p62, LC3, CD235a, gamma-gl

Supportive validation

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Experimental details: Extended Figure 2 Human CD34 + Erythroid Differentiation System a , Total CFU-E colonies formed during day 0-9. CFU-E colony numbers were quantified by plating 1000 cells from various time points during day 0-9 of the human CD34 + erythroid culture on methylcellulose. CFU-E colonies were quantified after 12-14 days. Total CFU-E colony numbers in culture under conditions without GW7647 (black line) or with GW7647 (red line) were calculated using the total cell numbers at corresponding time points in Figure 2a. b , Human CD34+ cells were treated at day 1 with 100 nM GW7647 with or without DEX at the concentration indicated in the figure. At day 6, total cell numbers were counted and cells were collected for BFU-E colony assays. c , Protein expression of PPARalpha demonstrating shRNA knock-down efficiency via lentiviral transduction. LacZ shRNA is used as a control. shRNA-1 and -2 are both specific for PPARalpha . shRNA-2 has higher knock-down efficiency. d , Cell pellets of 1 million cells demonstrating hemoglobin accumulation during the differentiation process. e , Flow cytometry analyses of erythroid markers during the 21-day human CD34 + erythroid culture. (top row) c-kit vs. CD235a; (middle row) CD71 vs. CD235a. Note the sequential induction of c-kit, CD71 and CD235a, as well as the sequential down-regulation of c-kit and CD71, (bottom row) Enucleated reticulocytes are CD235a + Hoechst - , nuclei are CD235a - Hoechst + , and nucleated erythroblasts are CD235a + Hoechst + .

Supportive validation

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Experimental details: Extended Figure 3 GW7647 increases erythroid progenitors and CD235a + cells in RPS19 knock down human progenitor cells a , Human CD34 + hematopoietic progenitors were transduced with lentivirus encoding GFP and either a scrambled shRNA or an shRNA targeting RPS19. Then transduced cells were treated with or without 100 nM GW7647. After 48 hrs, GFP + cells were sorted by FACS and plated for BFU-E and CFU-E colony forming assays. RPS19 knocking down efficiency is shown at the bottom. (* p < 0.05; Student t test. Error bars represent mean +- S.D. from three independent experiments.) b. Sorted GFP + cells were returned to culture with the indicated concentration of GW7647. (Top) Percentage of CD71 + cells at day 9 in was determined by FACS; (Bottom) Percentage of CD235a + cells at day 21 was determined by FACS. (* p < 0.05; Student t test. Error bars represent mean +- S.D. from three independent experiments.) c. Total cell numbers generated from one GFP positive cell at the indicated times of culture. (* p < 0.05; Student t test. Error bars represent mean +- S.D. from three independent experiments.)

Supportive validation

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Experimental details: Figure 5 iPSCs Derived from Different Donors Show Variable Erythroid Lineage Differentiation Propensity (A) Representative micrographs showing the hematopoietic cells differentiated from iPSCs with reduced hemoglobinized erythroid cells in iPSCs derived from T42 (left panel). Scale bar, 100 mum. (B) Representative FACS plots of differentiated genetically matched F- and B-iPSC lines (n = 4) showing the percentage of erythroblasts (GPA+ CD71+ gated from CD45- CD33-). (C) Scatter graphs presenting percentage of erythroblasts generated from the genetically matched F- and B-iPSC lines. Each dot represents an independent experiment. (D) Percentage of erythroid colonies out of the total colony number generated from iPSC lines. Values are mean +- SEM. Statistics performed by Student's t test, in three or four biological replicates. (E) Gene set enrichment plot and heatmap showing the genes constituting the core enrichment of overlap between multi-potent progenitors sorted from the bone marrow of DBA patients and iPSC lines derived from T42 cells. T42 iPSC lines show decreased expression levels of genes that are downregulated in Diamond-Blackfan anemia patients.

Supportive validation

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Experimental details: Figure 1--figure supplement 3. Pooled shRNA screen in primary HSPCs undergoing erythroid differentiation. ( A ) Histogram showing distribution of number of independent hairpins included in the library to target each of the candidate's genes. ( B ) Representative FACS plots of erythroid cell surface markers CD71 (transferrin receptor) and CD235a (Glycophorin A) expression at various time points during erythroid differentiation at which deep sequencing of shRNAs was performed. Percentages in each quadrant is represented as mean and standard deviation of 3 experiments from independent donors that were uninfected (Mock) or infected with the shRNA library (Pool).

Supportive validation

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Experimental details: Figure 6. SF3A2 is a Key regulator of Human Erythropoiesis and Modulates Erythropoiesis Defects in a Murine Model of MDS. ( A ) Quantitative RT-PCR and ( B ) Western blot showing the expression of SF3A2 in human CD34 + cells five days post-infection with the respective lentiviral shRNAs targeting SF3A2 (sh1-4) and a control luciferase gene (shLUC). ( C ) Growth curves showing that downregulation of SF3A2 results in reduced total cell numbers during erythroid differentiation from three independent experiments. ( D ) Representative FACS plots of erythroid cell surface markers CD71 (transferrin receptor) and CD235a (Glycophorin A) expression at various time points during erythroid differentiation. Percentages in each quadrant are represented as mean and standard deviation of three independent experiments ( E ) Altered splicing events identified by RNA-Seq analysis of stage matched erythroid cells (shSF3A2 vs. shLUC). Overlapping changes observed in SF3B1 mutant BM cells from MDS patients (Obeng et al) ( Figure 6--source data 5 and 6 ). Differentially expressed genes and pathway analysis available in Figure 6--source data 1 - 4 . ( F ) Lineage negative bone marrow cells from wildtype (WT) and Sf3b1 K700E mice were infected with shRNAs targeting murine Sf3a2 gene co-expressing a reporter GFP gene. Percentage of Ter119 + CD71 + erythroid cells within the GFP compartment after 48 hr in erythroid differentiation. ( G ) Total cell numbers of GFP + erythroid cells after