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9 protocols using cd31 magnetic beads

1

Macrophage Differentiation and Isolation

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Bone marrow cells were differentiated into mature macrophages (BMDMs) from wild type C57BL/6 (WT) and NFATc3−/− mice in DMEM supplemented with 10% FBS, 1% penicillin/streptomycin and 20 ng/mL recombinant mouse M-CSF added on Day 1, 3 and 5. Cells were differentiated up to 7 days in total [4 (link)–6 (link)]. Mouse lung total macrophages were isolated by collagenase digestion, purified by adherence for 1 hour, plated in DMEM supplemented with 10% FBS, 1% penicillin/streptomycin [51 (link)]. Mouse PMVEC were isolated by Miltenyi CD31 magnetic beads. AEC type II cells were isolated as described earlier [52 ].
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2

Isolation and Treatment of pmAT2 Cells

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pmAT2 cells were isolated as previously described65 –68 . Briefly, mouse lungs were intratracheally inflated with dispase (BD Bioscience, San Jose, CA) followed by 300 μl instillation of 1% low gelling temperature agarose (Sigma Aldrich, St Louis, USA). Lungs were minced and filtered through 100 μm, 20 μm and 10 μm nylon meshes (Sefar, Heiden, Switzerland). Negative selection of fibroblasts was performed by adherence on cell culture dishes for 30 minutes. Nonadherent cells were collected and white blood cells and endothelial cells were depleted with CD45 and CD31 magnetic beads respectively (Miltenyi Biotec, Bergisch Gladbach, Germany), according to manufacturer’s instructions. pmATII cells were resuspended in DMEM containing 10% FBS (Pan-Biotech, Aidenbach, Germany), 2 mM l-glutamine (Life Technologies, Carlsbad, USA), 100mg/l streptomycin, and 100 U/ml penicillin (Sigma Aldrich, St Louis, USA), 3,6 mg/ml glucose (Applichem, Darmstadt, Germany) and 10 mM HEPES (Life Technologies, Carlsbad, USA) and cultured for 48 h to allow attachment. Cells were starved with 0.1% FBS containing medium and finally treated for 24h with an agonistic antibody to LTβR [2 μg/ml] (clone ACH6, kindly supplied by Jeffrey Browing, Biogen Idec) and recombinant mouse WNT3A [100 ng/ml] (Cat. No. 1324-WN, R&D Systems, Minneapolis, MN).
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3

RNA-sequencing of various cell types

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HAEC, HUVEC, H9 (WA09 hESCs) cells, HFF (human foreskin fibroblasts), the primary VICs, the primary VECs, and hPSC-derived VELs were collected and lysed with 1 ml Trizol (Transgen Biotech, China). RNA sample quality was checked by the OD 260/280 value using the Nanodrop 2000 instrument. When necessary, hPSC-derived VELs were sorted with VE-cad or CD31 magnetic beads (Miltenyi Biotec, GmbH, Germany) before RNA-sequencing. RNA samples were sent to the BGI China where RNA-sequencing libraries were constructed and sequenced by a BGI-500 system. RNA-seq experiments were repeated at least 2 times. Differentially expressed genes (DEGs) were defined by FDR < 0.05 and a Log2 fold change> 1 was deemed to be DEGs. The heat map was constructed based on the commonly expressed genes in different cell types, and the top 100 DEGs were listed as part of the heap map. Gene ontology (GO) analysis for differentially expressed genes (DEGs) and heat maps were generated from averaged replicates using the command line version of deepTools2.
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4

Isolation and Treatment of pmAT2 Cells

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pmAT2 cells were isolated as previously described65 –68 . Briefly, mouse lungs were intratracheally inflated with dispase (BD Bioscience, San Jose, CA) followed by 300 μl instillation of 1% low gelling temperature agarose (Sigma Aldrich, St Louis, USA). Lungs were minced and filtered through 100 μm, 20 μm and 10 μm nylon meshes (Sefar, Heiden, Switzerland). Negative selection of fibroblasts was performed by adherence on cell culture dishes for 30 minutes. Nonadherent cells were collected and white blood cells and endothelial cells were depleted with CD45 and CD31 magnetic beads respectively (Miltenyi Biotec, Bergisch Gladbach, Germany), according to manufacturer’s instructions. pmATII cells were resuspended in DMEM containing 10% FBS (Pan-Biotech, Aidenbach, Germany), 2 mM l-glutamine (Life Technologies, Carlsbad, USA), 100mg/l streptomycin, and 100 U/ml penicillin (Sigma Aldrich, St Louis, USA), 3,6 mg/ml glucose (Applichem, Darmstadt, Germany) and 10 mM HEPES (Life Technologies, Carlsbad, USA) and cultured for 48 h to allow attachment. Cells were starved with 0.1% FBS containing medium and finally treated for 24h with an agonistic antibody to LTβR [2 μg/ml] (clone ACH6, kindly supplied by Jeffrey Browing, Biogen Idec) and recombinant mouse WNT3A [100 ng/ml] (Cat. No. 1324-WN, R&D Systems, Minneapolis, MN).
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5

Isolation of ASCs from Endothelial Cells

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For isolating ASCs from endothelial cells, CD31 magnetic beads (Miltenyi Biotech, Bergish, Gladbach, Germany) and a miniMACs magnet kit (Miltenyl Biotech) were used [8 (link)]. Primary ASCs cultures (1 × 107 cells) were trypsinized and centrifuged at 300×g for 5 min. Cells were then recovered in 60 μL of GM. After blocking from 20 μL of FcR blocking reagent, 20 μL of CD31 microbeads were added to the cells and incubated at 4 °C for 15 min. The microbeads were applied to the magnetic column. The unlabeled cells (CD31) were collected, whereas the labeled cells (CD31+) were discarded. In this study, CD31 ASCs were called ASCs, and subsequently seeded at 1 × 104 cells per 60-mm2 dish (Falcon).
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6

Magnetic Bead-based Endothelial Cell Isolation

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Cells were removed from their culture dish following a typical trypsinization protocol. Cells were spun down using a centrifuge at 300g for 5 min. Cells were reconstituted in 250 μL of PBS. Next, 20 μL of CD31 magnetic beads (Miltenyi Biotech, 130-091-935) were added to the cells and mixed by gentle flicking. The mixture was incubated at 4°C for 20 min, with periodic mixing to ensure that the beads did not settle. After, 5 mL of PBS was added, and the cells were spun at 300g for 5 min. The cells were reconstituted in 1 mL of EGM-2. The magnetic columns were attached to the magnet and primed by putting 1 mL of EGM-2 through them, and then adding the cell suspension. After, the column was removed from the magnet and placed in a 15 mL conical tube. Another 1 mL of EGM-2 was added to the column to allow the CD31+ cells to elute out. The cells were then used in various experiments.
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7

Isolation and Purification of Endothelial Cells

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The method of tissue digestion was the same as that of the single-cell sample preparation, the difference was that the digestion time for ECs was 20 min, while that of FB cells was about 40 min. The digested single-cell suspensions were washed and re-suspended in 10% FBS/DMED (Gibco) and EGM-2 (CC-3202; Lonza) medium for FB and EC culturing, respectively. Because of the strong proliferation capacity of FBs, FB cells would eventually dominate in DMEM medium, and the purity was more than 95% after passage. For ECs, cell cloning began at about day 5 of culture, then fibroblast inhibitors were added for 7–10 days. When isolated colonies began to fuse with each other, the EC colonies were marked and digested using a clonal cylinder (C7983-50EA; Sigma-Aldrich), and the EC suspension was further purified using CD31 magnetic beads (130-091-935; Miltenyi).
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8

Isolation and Purification of Cardiac Capillary Endothelial Cells

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Fresh CC tissue samples of approximately 1 × 1 cm size were first immersed in 15 mL PBS with vigorous shaking to remove residual blood cells. Then, tissues were cut into pieces of 1 × 1 mm size and enzymatically digested with 2.5 mg/mL collagenase type I (17104-019, gibco, US), 4 mg/mL collagenase type IV (17018029, gibco), 0.1 mg/mL neutral protease, and 2 mg/mL DNase I (#AMPD1, Sigma-Aldrich, US) at 37 °C for 20 min. Subsequently, the cell suspension was filtered through a 40 mm nylon mesh, and the cells were sorted by MACS with a Dead Cell Removal Kit (130-090-101, Miltenyi Biotec, Germany) to remove dead cells. Briefly, 106 cells were co-incubated with 20 µL MicroBeads at 4 °C for 30 min. After blocking and washing, magnetic separation with LS Columns (130-042-401; Miltenyi) and MidiMACS Separator (130-042-302; Miltenyi) was performed, retaining cells that were not adsorbed by the column. CCECs were cultured with EGM-2 medium and cell cloning began at approximately day 5 of culture, then fibroblast inhibitors were added for 7–10 days. When isolated colonies began to fuse with each other, the EC colonies were marked and digested using a clonal cylinder (C7983-50EA; Sigma-Aldrich), and the EC suspension could be further purified using CD31 magnetic beads (according to their purity) (130-091-935; Miltenyi).
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9

Isolation and culture of primary mouse lymph node lymphatic endothelial cells

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Primary mouse LN LECs were isolated as previously described [28 (link)]. Briefly, popliteal, inguinal, axillary, brachial, and auricular LNs were isolated from 8–12-week-old animals; torn; and digested in RPMI medium (Thermo Fisher Scientific) containing 0.25 mg/mL Liberase TL (Roche, Basel, Switzerland) and 1 mg/mL DNase I (Roche) at 37 °C for 1 h. After 15 min, the LNs were cut with scissors, and thereafter further disrupted by pipetting every 10–15 min. The cell suspension was passed through a 70-µm cell strainer, centrifuged, and resuspended in full LN LEC medium (αMEM (no nucleosides, Thermo Fisher Scientific), 10% FBS, 1% penicillin-streptomycin (Thermo Fisher Scientific), and 1% L-glutamine (Thermo Fisher Scientific)). Cells were cultured at 37 °C and 5% CO2 in dishes precoated with 10 µg/mL collagen (PureCol, Advanced BioMatrix, Carlsbad, CA, USA) and 10 µg/mL human fibronectin (Merck, Darmstadt, Germany) in PBS. Nonadherent cells were washed away with warm PBS on day 1 and day 3. Once the cells reached about 80% confluency, they were detached with accutase (Sigma-Aldrich) and purified with CD31 magnetic beads (Miltenyi Biotec, Bergisch Gladbach, Germany) according to the manufacturer’s instructions. Purified LECs were cultured in full medium on coated plates and used for experiments in passages 3–5.
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