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11 protocols using tra 1 81

1

Pluripotency and Lineage Marker Analysis

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Cells were grown in six-well plates and fixed with 4% paraformaldehyde. The following antibodies were used: OCT4 (1:200; Abcam 19857), NANOG (1:200; Abcam 21624), Tra1-81 (1:200; Abcam 16289), Tra1–60 (1:200; Abcam 16288), Smooth Muscle Actinin (SMA; 1:200; Abcam 5694), Tuj1 (1:200; Covance MMS-435P) and α-fetoprotein (1:200; Dako A 0008). Secondary antibodies used were from Jackson Immunoresearch: DyLight 549-coniugated AffiniPure Goat Anti-Rabbit IgG (1:250; 111-505-303); DyLight 488-coniugated AffiniPure Donkey Anti-mouse IgG (1:250; 715-485-150) and were used according to the manufacturer’s guidelines. Images were taken using an Axiovert 200M microscope (Zeiss).
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2

Pluripotent Stem Cell Differentiation Protocol

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The main reagents include DMEM/F12 (1:1) medium, knockout serum replacement (KSR), valproic acid, fetal bovine serum, Essential 8™ Flex Medium, Geltrex™, KSFM medium, BMP‐4, bovine pituitary extract (BPE), (Gibco), NANOG, OCT4, SOX2, SSEA‐4, TRA‐1‐81, TRA‐1‐60, Krt19, Integrinβ1, CD200, CD31 and VEGF‐A antibodies (Abcam), PDGF‐B and Ang2 antibodies (Santa Cruz), recombinant human EGF (R&D), RA, valproic acid, sodium alginate (Sigma), Matrigel® Matrix (Corning), mTeSRTM1 medium (Stem Cell), Astragalus polysaccharide (Solarbio), silk fibroin and collagen (Hefei Bomei Bio), and Dextran Texas red™ (Invitrogen). Primers were designed using Primier 6.0 software, and all primers were synthesized as shown in Table 1.
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3

Pluripotency and Lineage Marker Analysis

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Cells were grown in six-well plates and fixed with 4% paraformaldehyde. The following antibodies were used: OCT4 (1:200; Abcam 19857), NANOG (1:200; Abcam 21624), Tra1-81 (1:200; Abcam 16289), Tra1–60 (1:200; Abcam 16288), Smooth Muscle Actinin (SMA; 1:200; Abcam 5694), Tuj1 (1:200; Covance MMS-435P) and α-fetoprotein (1:200; Dako A 0008). Secondary antibodies used were from Jackson Immunoresearch: DyLight 549-coniugated AffiniPure Goat Anti-Rabbit IgG (1:250; 111-505-303); DyLight 488-coniugated AffiniPure Donkey Anti-mouse IgG (1:250; 715-485-150) and were used according to the manufacturer’s guidelines. Images were taken using an Axiovert 200M microscope (Zeiss).
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4

Characterization of Pluripotent Stem Cells

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Cells were fixed via 4% paraformaldehyde (Sigma) for 15 minutes at room temperature. After washed with PBS, cells were permeabilized by 0.5% Triton X‐100 (Sigma) for 15 minutes at room temperature. Cells were washed and incubated with 4% bovine serum albumin (BSA) for 1 hour at room temperature, which were then stained with primary antibodies at 4℃ overnight. These primary antibodies were used: OCT4, SOX2, SSEA4, TRA‐1‐81, AFP, SMA, NESTIN (1:200; Abcam). We washed the cells and incubated them with the secondary antibodies for 1 hour at room temperature, which were as following: Alexa Fluor 488 Goat anti‐Mouse IgG (H + L; 1:500; Invitrogen) and Alexa Fluor 594 Donkey anti‐Rabbit IgG (H + L; 1:500; Invitrogen). The cells were washed and Nuclei were stained with DAPI (1 μg/mL; Life Technology) for 10 minutes. The stained cells were observed through a confocal microscope (Nikon). Alkaline phosphatase (AP) staining was performed by Alkaline Phosphatase Assay Kit (Beyotime) according to the manufacturer's instruction, and cells were analysed via a microscope (Leica).
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5

Pluripotency Confirmation of iPSCs

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To confirm pluripotency, iPSC colonies were fixed (3% paraformaldehyde × 30 min), washed with phosphate-buffered saline (PBS) and permeabilized with 0.5% Triton. After blocking with 5% BSA, the colonies were incubated overnight with primary antibodies (OCT3/4, 1:50; NANOG, 1:50; TRA-1-60, 1:200; and TRA-1-81,1:200; all from Santa Cruz, Dallas, TX) followed by secondary antibody (anti-mouse Cy3, anti-rabbit FITC, 1:1,000). Isotype control antibodies were: anti-mouse IgG2b for OCT3/4, anti-goat IgG for Sox2 and Nanog, and anti-mouse IgM for TRA-1-60 and TRA-1-81 (all Abcam, Cambridge, UK). Images were taken using a confocal laser scanning microscope (LSM 710, Carl Zeiss, Germany).
For immunocytochemistry, 4% paraformaldehyde-fixed iPSCs were incubated with 3% donkey serum in 0.3% Triton X-100 in PBS (blocking) and exposed to rat anti-human αKlotho monoclonal antibody (1:1000, KM2076, overnight at 4°C, Trans Genic, Fukuoka, Japan), followed by incubation with secondary donkey anti-rat antibody conjugated to Alexa Fluor 555 (A31570, Invitrogen, Carlsbad, CA) at room temperature × 60min. Filamentous actin was labeled with rhodamine phalloidin (R415, Invitrogen), and nuclei with 4′,6-diamidino-2-phenylindole (DAPI, P36931, Thermo Fisher, Waltham, MA), and imaged with a laser scanning microscope (Zeiss LSM 880, Advanced Imaging Microscopy, Germany).
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6

Pluripotent Stem Cell Characterization

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Established pluripotent (beyond passage 15) DF‐iPSCs and ACL‐iPSCs were seeded into 24‐well plates and grown for 4 days. Pluripotent cells and outgrown EBs were fixed with 4% paraformaldehyde in PBS for 10 min. Cells were then incubated with primary antibodies against markers of pluripotency; NANOG (1:400, cat. no. 4903; Cell Signaling Technology, London, UK), OCT‐4 (1:100, cat. no. 611202; BD Biosciences, Oxford, UK), SOX2 (1:400, cat. no. 3579; Cell Signaling Technology), SSEA‐3 (1:200, cat. no MAB1434; R&D Systems, Abingdon, UK), SSEA‐4 (1:200, cat. no MAB1435; R&D Systems), TRA‐1‐60 (1:200, cat. no. Ab16288; Abcam, Cambridge, UK), TRA‐1‐81 (1:200, cat. no. Ab16289; Abcam), marker of early differentiation; SSEA‐1 (1:200, cat. no. MAB2155; R&D Systems), marker of mesoderm; α‐smooth muscle actin (αSMA) (1:100, cat. no. MAB1420; R&D Systems), marker of endoderm; GATA6 (1:1600, cat. no. 5851; Cell Signaling Technology) and marker of ectoderm; Neurofilament (1:100, cat. no. 2837; Cell Signaling Technology), in the presence of 1% goat serum, followed by Alexa Fluor secondary antibodies (1:200; Thermo Fisher Scientific) and nuclei stained using 4′,6‐diamidino‐2‐phenylindole (DAPI) (cat no. D1306; Thermo Fisher Scientific). Images were captured using BX51 fluorescence microscope (Olympus, Southend‐on‐Sea, UK).
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7

TRA-1-81 Expression by Flow Cytometry

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TRA-1-81 expression was performed by flow cytometer FACs Canto (BD Bioscience). Cells were detached and incubated for 30 min with 1% BSA. Cells were then stained for 1 h with TRA-1-81 (Abcam), primary antibody diluted according to manufacturer's recommendations followed by the appropriate secondary antibody.
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8

Pluripotency Validation of Reprogrammed iPSCs

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Alkaline phosphatase activity of the reprogrammed iPSC colonies was tested using an alkaline phosphatase detection kit (Millipore) according to the manufacturer's instructions. Immunocytochemistry was performed to confirm pluripotency marker expression (OCT4, 1 : 200, and TRA-1-81, 1 : 200, Abcam, Cambridge, UK). RT-PCR, karyotyping, and hematoxylin and eosin staining (HE staining) of teratoma tissues were performed as previously described [17 (link)].
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9

Stem Cell Marker Expression Analysis

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To detect the expression of stem cell markers of NANOG (Abcam, USA), SSEA-4 (Abcam, USA), OCT4 (Abcam, USA), TRA-1-81 (Abcam, USA), hESCs were treated by trypsin-EDTA for 3 min and then blowed into single cell. Single hESCs were resuspended in 1% fetal bovine serum (FBS) diluted in PBS and then stained by the antibodies of SSEA-4, TRA-1-81 or its corresponding isotype control for 30 min at 4°C. Cytofix/Cytoperm Fixation/Permeabilization Solution Kit (BD, USA) was applied to stain OCT4 and NANOG following the manufacturer’s instruction. The stained cells were analyzed on fluorescence-activated cell sorter (BD, USA).
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10

Characterization of hESC Pluripotency Markers

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Cells were seeded at a density of 20,000 (Rebl.PAT) or 25,000 (Man-13) cells per cm 2 in a 24 well plate and treated identically to samples prepared for proteomic and RNA-Seq analysis (Fig. 1A). Cell surface markers and transcription factors characteristic of pluripotent hESCs were detected using immunofluorescence. The cells were fixed with 4% paraformaldehyde and incubated with antibodies against stage specific embryonic antigens SSEA-4, SSEA-1 (R&D Systems), TRA-1-60, TRA-1-81 (Abcam) and transcription factors SOX2, NANOG (Cell signalling Technologies), and OCT-4 (BD Biosciences) at 4 o C overnight. Secondary antibodies (Life Technologies), specific for the species and isotype of the primary antibody, conjugated to Alexafluors 488 or 594 were used for detection using a BX51 microscope (Olympus, Hertfordshire, UK) equipped with a Q-Imaging camera (Micro Imaging Applications Group, Inc, Buckinghamshire, UK). Image processing was done with the aid of Q-Capture Pro software package (Micro Imaging Applications Group, Inc).
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