Materials and Reagents

6-well tissue culture plates (TPP Techno Plastic Products, catalog number: 92006 )
10 cm microbiology grade Petri dishes (SARSTEDT, catalog number: 82.1473.001 )
50 ml Falcon tubes (Corning, Falcon^®, catalog number: 352070 )
70 µm cell strainer (Greiner Bio One International, catalog number: 542070 )
40 µm cell strainer (Greiner Bio One International, catalog number: 542040 )
Top bottle filter (TPP Techno Plastic Products, catalog number: 99505 )
5 ml Serological pipettes (Corning, Falcon^®, catalog number: 357543 )
10 ml Serological pipettes (Corning, Falcon^®, catalog number: 357551 )
25 ml Serological pipettes (Corning, Falcon^®, catalog number: 357525 )
Pipette tips 10 µl (STARLAB INTERNATIONAL, catalog number: S1180-3810 )
Pipette tips 20 µl (STARLAB INTERNATIONAL, catalog number: S1120-1810 )
Pipette tips 200 µl (STARLAB INTERNATIONAL, catalog number: S1120-8810 )
Pipette tips 1,000 µl (STARLAB INTERNATIONAL, catalog number: S1126-7810 )
Collagenase IV (Thermo Fisher Scientific, Gibco^TM, catalog number: 17104019 )
Knockout-Dulbecco’s modified Eagle medium (KO-DMEM) (Thermo Fisher Scientific, Gibco^TM, catalog number: 10829018 )
Gelatin (Sigma-Aldrich, catalog number: G1890 )
1-Thiogylcerol (Sigma-Aldrich, catalog number: M1753 )
L-ascorbic acid (Sigma-Aldrich, catalog number: A4403 )
Bovine serum albumin (BSA) low endotoxin (PAA, catalog number: K31-011 )
1x Dulbecco’s phosphate buffered saline (PBS) (Thermo Fisher Scientific, Gibco^TM, catalog number: 14190094 )
HumanKine bone morphogenic protein 4 (BMP4) research grade (Miltenyi Biotec, catalog number: 130-110-921 )
Recombinant human basic fibroblast growth factor (bFGF) (PeproTech, catalog number: 100-18B )
Recombinant human FLT3L (PeproTech, catalog number: 300-19 )
Recombinant human GM-CSF (PeproTech, catalog number: 300-03 )
Recombinant human insulin-like growth factor 1 (IGF1) (PeproTech, catalog number: 100-11 )
Human interleukin 3 (IL-3) research grade (Miltenyi Biotec, catalog number: 130-094-193 )
Human IL-4 research grade (Miltenyi Biotec, catalog number: 130-095-373 )
Human SCF research grade (Miltenyi Biotec, catalog number: 130-096-693 )
Human thrombopoietin (TPO) research grade (Miltenyi Biotec, catalog number: 130-094-013 )
Recombinant human vascular endothelial growth factor (VEGF) (PeproTech, catalog number: 100-20 )
1x StemPro-34 SFM (Thermo Fisher Scientific, catalog number: 10639011 )
Penicillin-streptomycin 10,000 U/ml (Thermo Fisher Scientific, Gibco^TM, catalog number: 15140122 )
L-glutamine 200 mM (Thermo Fisher Scientific, Gibco^TM, catalog number: 25030081 )
Hyper-interleukin 6 (IL-6) (kindly provided by S. Rose John, Institute of Biochemistry, Medical Faculty, Christian-Albrechts-University, Kiel, Germany, [Fischer et al., 1997], see also Notes)
α-Minimal essential medium (α-MEM) (Thermo Fisher Scientific, Gibco^TM, catalog number: 12571063 )
β-mercaptoethanol (50 mM) (Thermo Fisher Scientific, Gibco^TM, catalog number: 31350010 )
Fetal bovine serum (FBS) (Thermo Fisher Scientific, Gibco^TM, catalog number: 10500064 )
Roswell Park Memorial Institute (RPMI) 1640 medium (Thermo Fisher Scientific, Gibco^TM, catalog number: 11875093 )
Collagenase IV solution (1 mg/ml) (see Recipes)
0.1% gelatin solution (see Recipes)
1-Thioglycerol stock solution (100 mM) (see Recipes)
L-ascorbic acid stock solution (50 mg/ml) (see Recipes)
0.1% BSA solution (see Recipes)
BMP4 stock solution (25 µg/ml) (see Recipes)
bFGF stock solution (100 µg/ml) (see Recipes)
FLT3L stock solution (25 µg/ml) (see Recipes)
GM-CSF stock solution (100 µg/ml) (see Recipes)
IGF1 stock solution (40 µg/ml) (see Recipes)
IL-3 stock solution (150 µg/ml) (see Recipes)
IL-4 stock solution (20 µg/ml) (see Recipes)
SCF stock solution (100 µg/ml) (see Recipes)
TPO stock solution (20 µg/ml) (see Recipes)
VEGF stock solution (100 µg/ml) (see Recipes)
Hematopoietic progenitor basal differentiation medium (see Recipes)
Induction medium d0 (see Recipes)
Induction medium d1 (see Recipes)
Induction medium d2 (see Recipes)
Induction medium d4 (see Recipes)
Induction medium d6 (see Recipes)
OP9 culture medium (see Recipes)
DC differentiation basal medium (see Recipes)
DC differentiation FSG4 medium (see Recipes)
DC differentiation FSG medium (see Recipes)

Equipment

1,000 µl pipette (Gilson, catalog number: F123602 )
200 µl pipette (Gilson, catalog number: F123601 )
20 µl pipette (Gilson, catalog number: F123600 )
10 µl pipette (Gilson, catalog number: F144802 )
Pipetboy (INTEGRA Biosciences, catalog number: 155000 )
Water bath (JULABO, model: SW22 )
Inverted light microscope (Leica Microsystems, model: Leica DM IL LED )
Autoclave
Centrifuge (Thermo Fisher Scientific, model: Heraeus^TM Multifuge 3 L )
Flow hood (Heraeus)
Automatic CO₂ incubator with nitrogen supply and O₂ sensor (Thermo Fisher Scientific, Thermo Scientific^TM, model: Heraeus^TM240i , catalog number: 51026331)
Vacuum pump (INTEGRA Biosciences, catalog number: 158300 )
Standard fridge
Standard non-defrosting freezer

Procedure

The differentiation of iPS cells (or ES cells) into hematopoietic progenitors is summarized in Figure 1.

Figure 1. Schematic representation of the differentiation protocol of iPS cells (or ES cells) into hematopoietic progenitors. Differentiation time and corresponding differentiation steps and cytokine compositions (in colored boxes) are shown.
1. To differentiate iPS cells (or ES cells) into hematopoietic progenitors, prewarm required amounts of collagenase IV solution (1 mg/ml, 37 °C, see Recipes) and KO-DMEM (room temperature, RT) before starting the experiment. Prepare induction medium d0 (see Recipes) and prewarm at RT.
2. Harvest iPS cells (or ES cells) when they reached 70-80% confluence. Therefore, aspirate medium and add collagenase IV solution to the cells. The volume depends on the culture dish used. Make sure to completely cover the cells with collagenase IV solution (e.g., 1 ml per well of a 6-well plate, 4 ml per 10 cm dish).
3. Incubate cells with collagenase IV at 37 °C in a normoxic incubator with 5% CO₂ for 40-60 min. Check if colony edges start to roll up. Only if colony edges have rolled up from all sites and colonies are only loosely adherent to the plate proceed with step A4. If necessary, incubate 10-15 min longer but do not exceed 80 min collagenase IV treatment because this compromises cell viability.
4. Dilute collagenase IV with KO-DMEM in a ratio 1/3, meaning add 2 ml KO-DMEM for each ml collagenase IV solution. Use a 10 ml pipette to rinse off colonies, resuspend and collect them in 50 ml Falcon tubes.
5. If iPS cells (or ES cells) were cultured on mouse embryonic fibroblasts (MEF), separate iPS cell (or ES cell) clusters and single MEF by gravity for 10 min at RT. Large iPS cell (or ES cell) clusters will settle to the bottom, while single MEF will remain in suspension. Aspirate 80% of the supernatant to remove MEF. If iPS cells (or ES cells) were cultured feeder-free, directly continue with step A6.
6. Collect iPS cell (or ES cell) clusters by centrifugation at 212 x g for 4 min. If not stated otherwise, all centrifugation steps are performed at RT. Aspirate supernatant and resuspend pellet in 1 ml induction medium d0. Pipette up and down with 1 ml pipette to break up clusters. Clusters should contain 50-100 cells (Figure 2). Therefore, transfer a drop of the cell suspension onto a microbiology grade Petri dish and check cluster size by microscopy.
  
  Figure 2. From iPS cells to hematopoietic progenitors. Representative phase contrast images of iPS cells during differentiation into hematopoietic progenitors. Undifferentiated iPS cell colonies on day 0 and small EB with some cell debris on day 2 and 6. Scale bars = 500 µm. Hemato-endothelial patches and hematopoietic progenitors on day 8, 10 and 14. Scale bars = 200 µm.
7. If cluster size is appropriate, pass cell suspension through a 70 µm cell strainer to remove remaining larger clusters. Fill up flow-through to the final volume with induction medium d0 and transfer to microbiology grade Petri dishes to allow embryoid bodies (EB) to form. We usually use 10 ml induction medium d0 for two 6-well plates with iPS cells (or ES cells).
8. Place cells in a 37 °C, 5% CO₂ incubator and set O₂ regulator of the automatic incubator to 5%. Thus, O₂ levels will slowly decrease to 5%.
9. On day 1 of differentiation (24 h after EB formation), many cells (approx. 40-50%) will have died. Prepare induction medium d1 (see Recipes) and prewarm at RT. Dilute old medium (induction medium d0) with fresh medium (induction medium d1) in a ratio of 1/2. Calculate volume of bFGF in induction medium d1 according to total volume (old medium + fresh medium).
  Example: 10 ml induction medium d0 + 5 ml induction medium d1 medium containing 1.5 µl bFGF and 1.6 µl BMP4. Final bFGF concentration should be 10 ng/ml. Continue culture under hypoxic conditions (5% O₂, 5% CO₂).
10. On day 2 of differentiation, there will be a lot of cell debris visible (Figure 2). Collect EB in 50 ml Falcon tubes. Despite the use of microbiology grade Petri dishes, some EB loosely adhere to the dish. Rinse loosely adherent EB off the dishes twice with 1x PBS (prewarmed to RT) and add to EB suspension. Centrifuge EB at 136 x g for 4 min. Aspirate supernatant, gently resuspend pellet (if necessary with 1 ml pipette to break up aggregated EB) in induction medium d2 (prewarmed to RT, see Recipes) and transfer to new microbiology grade Petri dishes. Use the same volume as on day 0 (see step A7). Continue culture under hypoxic conditions (5% O₂, 5% CO₂).
11. On day 4 of differentiation, proceed as in step A10. Finally, resuspend EB in induction medium d4 (prewarmed to RT, see Recipes) and transfer to new microbiology grade Petri dishes. Use the same volume as on day 0 (see step A7). Continue culture under hypoxic conditions (5% O₂, 5% CO₂).
12. On day 6 of differentiation, proceed as in step A10. Finally, resuspend EB in induction medium d6 (prewarmed to RT, see Recipes) and transfer to tissue culture plastic (TCP) dishes coated with 0.1% gelatin (see Recipes). Use the same volume as on day 0 (see step A7). Continue culture under hypoxic conditions (5% O₂, 5% CO₂).
13. On day 8 of differentiation, most EB are adherent on TCP. Collect medium and centrifuge at 136 x g for 4 min. Aspirate supernatant, resuspend in induction medium d6 (prewarmed to RT) and transfer carefully back to the TCP dish. Use the same volume as on day 0 (see step A7). From now on, avoid detaching EB from the dish. Transfer cells to 37 °C, 5% CO₂ and normoxic incubator.
14. On day 10 and 12 of differentiation, medium change is performed as in step A13.
15. Depending on the iPS cell (or ES cell) clone used hematopoietic progenitors will start to bud off from adherent or loosely adherent EB between day 6-14 (iPS cells) or day 21-28 (ES cells) of differentiation, respectively (Figure 2, Video 1). iPS cell (or ES cell) derived hematopoietic progenitors are CD43⁺ (Figure 3) and used for DC differentiation between day 10-14 (iPS cells) and day 24-28 (ES cells).
  
  Video 1. Emergence of iPS cell (or ES cell) derived hematopoietic progenitors. Representative video of iPS cell derived EB on day 6 of differentiation.
  
  Figure 3. iPS cells develop via hemogenic endothelium into hematopoietic progenitors. Representative flow cytometry data on day 6 and 10 of differentiation. Upper row shows gating for CD34⁺ CD31⁺ hemogenic endothelium population. Center row shows gating for CD43⁺ CD31⁺ hematopoietic progenitors. Bottom row shows gating for mature CD43⁺ CD45⁺ hematopoietic progenitors.
The differentiation of iPS cell (or ES cell) derived hematopoietic progenitors into DC subsets is summarized in Figure 4.

Figure 4. Differentiation protocol of iPS cell (or ES cell) derived hematopoietic progenitors into DC subsets. CD43⁺ hematopoietic progenitors are co-cultured on OP9 stromal cells with FSG4 and FSG cytokines to generate cDC1 and cDC2 (FSG4), or cDC1 and pDC (FSG), respectively.
1. To differentiate iPS cell (or ES cell) derived hematopoietic progenitors into DC, seed irradiated OP9 stromal cells (30 Gray) resuspended in OP9 culture medium (see Recipes) in a density of 1.2 x 10⁴ cells/cm² onto 0.1% gelatin coated TCP dishes one day prior to DC differentiation. We prefer using 6-well plates because later during DC differentiation we can use the same cells for different treatments and experiments.
2. Collect hematopoietic progenitors from step A15 by gentle pipetting and pass cell suspension through a 40 µm cell strainer in order to remove remaining EB. Wash plates twice with 1x PBS (prewarmed to RT) and pass this suspension through the same cell strainer.
3. Centrifuge flow-through at 416 x g for 4 min. Aspirate supernatant and wash pellet in defined volume of 1x PBS (prewarmed to RT, e.g., 5 ml). Count cells (e.g., with a Neubauer chamber and trypan blue as live/dead cell marker).
4. Centrifuge cell suspension at 416 x g for 4 min. Aspirate supernatant and resuspend cells in DC differentiation basal medium (prewarmed to RT, see Recipes) in a density of 1 x 10⁶-1.5 x 10⁶ cells/ml. Split cell suspension in half in two separate Falcon tubes labeled FSG4 and FSG, respectively.
5. Add 100 ng/ml FLT3L, 20 ng/ml SCF, 20 ng/ml GM-CSF and 20 ng/ml IL-4 final concentrations in one Falcon tube (FSG4). Add 100 ng/ml FLT3L, 20 ng/ml SCF and 10 ng/ml GM-CSF final concentrations in the other Falcon tube (FSG).
6. Aspirate OP9 culture medium from OP9 stromal cells and distribute FSG4 and FSG cell suspension onto the OP9 stromal cells. For example, 6 ml of FSG4 and FSG suspension can be distributed in 3 wells of a 6-well plate (2 ml per well), respectively.
7. Culture cells at 37 °C and 5% CO₂.
8. Perform a partial medium change every second day. Prepare fresh medium: take half of the volume of basal DC differentiation medium as in step B4 but add double the amount of cytokines. Carefully tilt the plate and slowly aspirate the supernatant. Cells are loosely adherent to the feeder layer and those in suspension will settle down to the bottom if the medium is removed slowly. Avoid disturbing the cells e.g., by rinsing them off the feeder layer. Remove approx. 50% of the old medium (e.g., 1 ml per 6-well). Add 50% of freshly prepared medium (see above, prewarmed to RT). Thereby cytokine concentrations in the total volume will be the same as given in step B5.
9. DC have acquired DC morphology by DC differentiation day (dd) 4 (Figure 5) and can be used for analyses between dd4-dd7. To collect DC, carefully rinse them off the feeder layer. Wash plates twice with 1x PBS (prewarmed to RT). Avoid detaching OP9 stromal cells. Collect cells in a 50 ml Falcon tube on ice and proceed to required analyses and experiments, respectively.
  
  Figure 5. iPS derived DC acquire DC morphology during differentiation. Representative phase contrast images of iPS cell derived DC (yellow arrow) on irradiated OP9 stromal cells (white arrow) during differentiation. Scale bars = 25 µm.

Data analysis

iPS cell (or ES cell) derived DC subsets can be analyzed as described in our recent publication (Sontag et al., 2017).

Notes

Instead of hyper-IL-6 we also tested recombinant human IL-6 (Miltenyi Biotec, catalog number: 130-095-352) in a final concentration of 100 ng/ml and obtained similar results.

Recipes

Collagenase IV solution (1 mg/ml)
1,000 mg collagenase IV
1,000 ml KO-DMEM
Note: Sterile filter with 0.2 µm top bottle filter. Aliquot (e.g., 50 ml) and store at -20 °C.
0.1% gelatin solution
0.5 g gelatin
500 ml distilled water
Note: Autoclave at 121 °C for 30 min. Gelatin will solubilize during autoclaving. Store at RT. For coating, cover surface of tissue culture dish with gelatin solution and incubate at 37 °C for at least 15 min. Aspirate gelatin solution prior to plating cells. Use immediately without additional washing or drying.
1-Thioglycerol stock solution (100 mM)
87 µl 1-thioglycerol
10 ml distilled and sterile water
Note: 1-Thioglycerol has a high viscosity. Pipette slowly in order to dispense 1-thioglycerol accurately. Aliquot (e.g., 1 ml) and store at -20 °C.
L-ascorbic acid stock solution (50 mg/ml)
100 mg L-ascorbic acid
2 ml distilled and sterile water
Note: Aliquot (e.g., 250 µl) and store at -20 °C. Protect from light.
0.1% BSA solution
0.1 g BSA
100 ml 1x PBS
Note: Store at 4 °C.
BMP4 stock solution (25 µg/ml)
10 µg BMP4
400 µl 0.1% BSA solution
bFGF stock solution (100 µg/ml)
50 µg bFGF
500 µl 0.1% BSA solution
FLT3L stock solution (25 µg/ml)
100 µg FLT3L
4 ml 0.1% BSA solution
GM-CSF stock solution (100 µg/ml)
20 µg GM-CSF
200 µl 0.1% BSA solution
IGF1 stock solution (40 µg/ml)
100 µg IGF1
2.5 ml 0.1% BSA solution
IL-3 stock solution (150 µg/ml)
25 µg IL-3
167 µl 0.1% BSA solution
IL-4 stock solution (20 µg/ml)
10 µg IL-4
500 µl 0.1% BSA solution
SCF stock solution (100 µg/ml)
10 µg SCF
100 µl 0.1% BSA solution
TPO stock solution (20 µg/ml)
100 µg TPO
5 ml 0.1% BSA solution
VEGF stock solution (100 µg/ml)
10 µg VEGF
100 µl 0.1% BSA solution
Note: All cytokines (BMP4, bFGF, FLT3L, GM-CSF, IGF1, IL-3, IL-4, SCF, TPO and VEGF) are stored in aliquots (e.g., 10-50 µl) at -20 °C in a standard non-defrosting freezer. After thawing, we keep them at 4 °C and use them for four weeks.
Hematopoietic progenitor basal differentiation medium
237 ml 1x StemPro-34 SFM
6.5 ml StemPro-34 supplements (provided with 1x StemPro-34 SFM)
2.5 ml penicillin-streptomycin (final concentration 100 U/ml penicillin, 100 µg/ml streptomycin)
2.5 ml L-glutamine (final concentration 2 mM)
1.0 ml 1-thioglycerol stock solution (final concentration 0.4 mM)
250 µl L-ascorbic acid stock solution (final concentration 50 µg/ml)
Induction medium d0
20 ml hematopoietic progenitor basal differentiation medium
6.7 µl BMP4 stock solution (final concentration 8 ng/ml)
Induction medium d1
20 ml hematopoietic progenitor basal differentiation medium
6.7 µl BMP4 stock solution (final concentration 8 ng/ml)
4.0 µl bFGF stock solution (final concentration 10 ng/ml, see Procedure step A9)
Induction medium d2
20 ml hematopoietic progenitor basal differentiation medium
6.7 µl BMP4 stock solution (final concentration 8 ng/ml)
2.0 µl bFGF stock solution (final concentration 10 ng/ml)
2.0 µl VEGF stock solution (final concentration 10 ng/ml)
20 µl hyper-IL-6 (final concentration 10 ng/ml)
12.5 µl IGF1 stock solution (final concentration 25 ng/ml)
20 µl SCF stock solution (final concentration 100 ng/ml)
Induction medium d4
20 ml hematopoietic progenitor basal differentiation medium
2.0 µl bFGF stock solution (final concentration 10 ng/ml)
2.0 µl VEGF stock solution (final concentration 10 ng/ml)
20 µl hyper-IL-6 (final concentration 10 ng/ml)
12.5 µl IGF1 stock solution (final concentration 25 ng/ml)
20 µl SCF stock solution (final concentration 100 ng/ml)
8.0 µl FLT3L stock solution (final concentration 10 ng/ml)
20 µl TPO stock solution (final concentration 20 ng/ml)
4.0 µl IL-3 stock solution (final concentration 30 ng/ml)
Induction medium d6
20 ml hematopoietic progenitor basal differentiation medium
20 µl SCF stock solution (final concentration 100 ng/ml)
8.0 µl FLT3L stock solution (final concentration 10 ng/ml)
20 µl TPO stock solution (final concentration 20 ng/ml)
4.0 µl IL-3 stock solution (final concentration 30 ng/ml)
OP9 culture medium
195 ml α-MEM
50 ml FBS (final concentration 20%)
2.5 ml penicillin-streptomycin (final concentration 100 U/ml penicillin, 100 µg/ml streptomycin)
2.5 ml L-glutamine (final concentration 2 mM)
DC differentiation basal medium
220 ml RPMI 1640
25 ml FBS (final concentration 10%)
2.5 ml penicillin-streptomycin (final concentration 100 U/ml penicillin, 100 µg/ml streptomycin)
2.5 ml L-glutamine (final concentration 2 mM)
500 µl β-mercaptoethanol (final concentration 0.1 mM)
DC differentiation FSG4 medium
20 ml DC differentiation basal medium
80 µl FLT3L stock concentration (final concentration 100 ng/ml)
40 µl SCF stock concentration (final concentration 20 ng/ml)
4.0 µl GM-CSF stock solution (final concentration 20 ng/ml)
20 µl IL-4 stock concentration (final concentration 20 ng/ml)
DC differentiation FSG medium
20 ml DC differentiation basal medium
80 µl FLT3L stock concentration (final concentration 100 ng/ml)
40 µl SCF stock concentration (final concentration 20 ng/ml)
2.0 µl GM-CSF stock solution (final concentration 20 ng/ml)

Acknowledgments

This work was supported in part by the Ministry for Innovation, Science and Research of German Federal State of North Rhine-Westphalia, Duesseldorf, Germany (S. S. and M. Z.) and by a research grant of the Interdisciplinary Center for Clinical Research (IZKF) Aachen, Germany (M. Z.). We thank Marion Kennedy and Gordon Keller for their advice on hematopoietic progenitor differentiation.

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