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14 protocols using sfem medium

1

Culturing Leukemia Cell Lines

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LSK cells were cultured in SFEM medium (Stemcell Technology) supplemented with 300 ng/mL murine SCF (R&D), 20 ng/mL murine IL-11, 4 ng/mL murine Flt3L and 50 µg/mL gentamicin (Mediatech, Inc.). MLL-AF9, MLL-AF6, Cbfβ-SMMHC/NrasG12D, MN1 and BCR-ABL/NUP98-HOXA9 leukemia cells were cultured in Iscove’s Modified Dulbecco’s medium (IMDM, Mediatech, Inc.), BSA/insulin/transferrin (BIT, Stemcell Technology), 15% fetal bovine serum (FBS, Gibco), 2 mM L-glutamine (Mediatech, Inc.), 50 µM 2-mercaptoethanol (2-ME), 50 µg/mL gentamicin, 50 ng/mL murine SCF, 10 ng/mL murine IL-6 and 10 ng/mL murine IL-3.
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2

Modulation of Myeloid Lineage by AMP and IMP

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Lineage−/low cells were isolated from WT BMCs using the lineage cell depletion kit (Miltenyi Biotech, BergischGladbach, Germany), in accordance with the manufacturer’s instructions. After isolation, lineage−/low cells were seeded at a density of 5 × 105 cells per well in low adsorption 24-well plates. Cells were cultured in SFEM medium (STEMCELL Technologies, Vancouver, Canada) supplemented with 10 ng/mL stem cell factor (R&D, USA), 10 ng/mL thrombopoietin (R&D, USA) and 10 ng/mL IL-3 (R&D, USA). During the study, the cells were exposed to either PBS or 15 mM IMP (MLBio, Shanghai, China) for 24 or 72 h, respectively. After harvesting, the cells were counted and stained with GMP surface markers before being subjected to analysis by FACS. For inhibitor experiments, MK2206 (MLBio, Shanghai, China) was added at a concentration of 5 mM for 1 h before the addition of IMP.
To evaluate the effects of AMP on myeloid lineage production, lineage−/low cells were treatment with AMP (at 0, 50 μM, or 100 μM) for 72 h, and then changes in GMP frequency were assessed by FACS. In certain experiments, cells were treated with AMP or a control for 5 days. The cells were then harvested and stained with anti-mouse CD11b, anti-mouse F4/80, and anti-mouse Gr-1 for FACS analysis.
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3

Production and Titration of Lentiviral Vectors

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Production of lentiviral vectors was done according to Tiscornia, G53 (link): 3rd generation lentivector packaging plasmids for pRRL-Eμ-B29 vectors and 2nd generation lentivector packaging plasmids for LentiCRISPRv2GFP were co-transfected into 293T cells in the ratio of (15:10:5:4) (Lentivector:pMDL:pVSVG:pREV) and 2.8:2:1 (Lentivector pSPAX: pMD2G) respectively using ProFection Calcium Phosphate mammalian transfection system (Promega) or lipofectamine 30000 (Thermo) according to manufacturer’s protocol. Transfection medium was replaced 6–15 h after transfection with 5% serum DMEM serum and virus-containing supernatant was collected 24 and 48 h after replacement. The supernatant was then filtered with 0.45-μm PVDF filters (Millipore, MA, USA) and centrifuged in ultra-centrifuge using SW28 rotor for two and a half hours in 70,000 × g. The virus was reconstituted in 300–600 SFEM medium (STEMCELL Technologies, Vancouver, British Columbia, Canada). The concentrated virus was frozen at −80 °C until use. An aliquot of the frozen virus was used for titer in 018Z cells percentage of transduced cells was evaluated by flow cytometry using GFP, CRLF2, or IL7RA antibodies (Biolegend, CA, USA) Titer (infectious units/ml) was calculated according to Eq. (1):
Equation (1): titer calculation %transducedcellsX#cellsatdayoftransductiontotalμlofvirus/wellX1000=virusIU/ml
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4

Isolating and Culturing LSK Cells from BERK Mice

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All BERK mice used for experiments were heterozygous for the sickle transgene (mouse βA human βS), confirmed by RP-HPLC with appropriate mouse and human globin controls. Male BERK mice were euthanized at 2–3 months of age by CO2 narcosis. Cells from bone marrow were harvested by flushing the tibiae, femora, and hip bones with PBS containing 0.5% BSA and 2 mM EDTA. Lineage cells from total bone marrow were isolated using the Lineage Cell Depletion Kit (Miltenyi Biotech, catalog number 130-090-858) according to the manufacturer’s protocol. Lineage cells were stained with APC-cKit (Thermo Fisher Scientific, catalog number 17-1171-83) and PE-Sca1 (BD Biosciences, catalog number 553336). LSK cells were sorted on an MoFlo Astrios Sorter (Beckman Coulter, Brea, CA, USA) and then cultured in SFEM medium (STEMCELL Technologies, catalog number 09600) containing 10% FBS (SAFC Biosciences) with 50 μM β-mercaptoethanol (Sigma-Aldrich, catalog number M3148), 20 ng/mL Flt3L, 20 ng/mL interleukin-6 (IL-6), 100 ng/mL stem cell factor (SCF), and 20 ng/mL thrombopoietin (TPO; PeproTech) for 24 h.
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5

Generation of iPSCs from RTT Patients

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Peripheral blood mononuclear cells (PBMCs) from RTT patients recruited for the study were collected and isolated with SEPMATE TM tubes (STEMCELL) according to the protocol. Erythroblast population was enriched by maintaining PBMCs for 10 days in SFEM Medium (STEMCELL) and then transducing with Cytotune 2.0 Sendai Reprogramming Kit (Life Technologies). After about 3 weeks the first iPSC colonies appeared on the mouse embryonic fibroblast (MEF) layer. Single clones were expanded and characterized for stemness and genomic stability.
Pluripotency marker expression was confirmed through immunofluorescence (using antibody against OCT3/4 and TRA-1-60) and RT-PCR (with primers for OCT3/4, SOX2 and NANOG). Karyotype analysis on at least 20 metaphases/sample allowed visualization of chromosome aberrations occurring during reprogramming. Refer to [38 (link)] for further details.
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6

Mettl3 Knockout LSK Cell Transplant

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HSPC(LSK) cells from Mettl3 f/f or Mettl3 cKO mice were sorted following protocol described above. Sorted LSK cells were cultured in the SFEM medium (STEMCELL Technologies, NC9753895) supplemented with murine cytokines (50 ng/ml SCF, 10 ng/ml IL-3, and 10 ng/ml IL-6,10ng/ml TPO and 20 ng/ml FLT3L, PeproTec). Cells were then transduced with high-titer concentrated retroviral suspensions in the presence of 4 μg/ml polybrene and followed with spin infection for 1.5 hr. Next day, second round of transduction was performed as described. For transplant, 10,000 LSK cells plus500KCD45.1 whole bone marrow cells were injected into lethally irradiated B6SJL congenic CD45.1 recipients. For chimerism, either peripheral blood or bone marrow cells was extracted and subjected to flow cytometry at different time points.
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7

Mettl3 Knockout LSK Cell Transplant

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HSPC(LSK) cells from Mettl3 f/f or Mettl3 cKO mice were sorted following protocol described above. Sorted LSK cells were cultured in the SFEM medium (STEMCELL Technologies, NC9753895) supplemented with murine cytokines (50 ng/ml SCF, 10 ng/ml IL-3, and 10 ng/ml IL-6,10ng/ml TPO and 20 ng/ml FLT3L, PeproTec). Cells were then transduced with high-titer concentrated retroviral suspensions in the presence of 4 μg/ml polybrene and followed with spin infection for 1.5 hr. Next day, second round of transduction was performed as described. For transplant, 10,000 LSK cells plus500KCD45.1 whole bone marrow cells were injected into lethally irradiated B6SJL congenic CD45.1 recipients. For chimerism, either peripheral blood or bone marrow cells was extracted and subjected to flow cytometry at different time points.
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8

Conditional Knockout of Cbl/Cbl-b in HSCs

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Lineage cells were first isolated from BM cells with a lineage cell depletion kit (Miltenyi Biotec). LSK or LKS cells were sorted on a FACS Aria cytometer (BD Biosciences) and then cultured in SFEM medium (StemCell Technologies, Inc.) plus 10% FBS (SAFC Biosciences) with 20 ng/mL Flt3L, 20 ng/mL IL-6, 100 ng/mL SCF, and 20 ng/mL TPO for 2 d in the presence of 200 nM 4-OHT (Sigma-Aldrich) to induce Cre expression. For BMT, 2000 LSKs were cultured in each well in a 96-well plate. The resultant cells (CD45.2) were mixed with 3 × 105 total BM cells from isogenic competitor mice (CD45.1/CD45.2) and then injected into irradiated recipient mice (CD45.1) that were irradiated with a split dose of 10 Gy using Orthovoltage precision X-ray.
For Cbl/Cbl-b excision in vivo, we transplanted 2 × 106 total BM cells from Cblf/f;Cbl-bf/f or Cblf/f;Cbl-bf/f;CreERT2 mice into lethally irradiated recipient mice. Four weeks after BMT, transplanted mice were intraperitoneally injected with TAM (40 mg per kilogram of body weight) daily for four consecutive days. Twelve days and 45 d after TAM treatment, peripheral blood was collected for CBC and flow cytometric analysis. For secondary BMT, 2 × 106 total BM cells from primary recipient mice were injected into each lethally irradiated mouse.
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9

Optimizing CD34+ UCB-HSPC Expansion with Cytokine Cocktails

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The enriched CD34
+ UCB-HSPCs were seeded at 5×10
4 cells/mL in SFEM medium (#09650; Stem Cell Technologies, Vancouver, Canada) with different cytokine additions for 7 days, and half of the medium was refreshed every 48 h. The cytokine cocktails included SIT (SCF, IL-6, and TPO), SITF (SCF, IL-6, TPO, and FLT3L), and SITH (SCF, IL-6, TPO, and CH02). The concentrations of the cytokines were 100 ng/mL SCF (Cat. #300-07-5; PeproTech, Rocky Hill, USA), 20 ng/mL IL-6 (Cat. #200-06-5; PeproTech;), and 100 ng/mL TPO (Cat. #300-18-50; PeproTech), 100 ng/mL FLT3 ligand (Cat. #300-19-10; PeproTech), and CH02 peptide (5, 10, 15 or 20 ng/mL)
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10

Lentiviral Transduction of CD34+ Cells

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Before transduction, CD34+ cells were cultured in SFEM medium (Stem Cell Technologies. Inc., Vancouver, Canada) supplement with 50ng/ml stem cell factor (SCF), 100ng/ml thrombopoietin (TPO), 100ng/ml FMA-like tyrosine kinase 3 ligand (Flt-3L), 100 ng/ml interleukin (IL) -6, and 50ng/ml IL-3 (Peprotech, Rocky Hill, NJ) for 48 hours. CD34+ cells and K562 cells were plated in 24-well plate at a density of 2×105 per well, and then were infected by lentiviral vectors at multiplicity of infection (MOI) of 10 or by adenoviral vector at MOI of 150. The gene transduction efficiency of lentiviral vectors, indicated by RFP expression, was detected by flow cytometry (Becton Dickinson, Mountain View, CA).
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