KEY RESOURCES TABLE
| REAGENT | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| anti-KRT7 | Dako/Agilent | M7018 (RRID: AB_2134589) |
| anti-TP63 | Abcam | ab124762 (RRID: AB_10971840) |
| anti-SDC1 | Abcam | ab34164 (RRID: AB_778207) |
| anti-E-Cadherin (rabbit) | Cell Signaling | 3195S (RRID: AB_2291471) |
| anti-E-Cadherin (mouse) | Cell Signaling | 14472S (RRID: AB_2728770) |
| anti-hCG beta | Abcam | ab53087 (RRID: AB_870731) |
| anti-MMP2 | Cell Signaling | 40994S (RRID: AB_2799191) |
| anti-hCG alpha | R&D | MAB4169 (RRID: AB_2079126) |
| anti-HLAG | Santa Cruz | sc-21799 (RRID: AB_627938) |
| Pan HLA-A,B,C (W6/32-488) | Biolegend | 311413 (RRID: AB_493133) |
| anti-ZIKV capsid | GeneTex | GTX133317 (RRID: AB_2756861) |
| anti-Ki67 | Cell Signaling | 9449S (RRID: AB_2797703) |
| anti-SARS-CoV-2 Spike protein | Gift from Dr. Ellebedy, Washington University in St. Louis | Clone number 1C02 |
| anti-ITGA5B1 (rabbit) | Abcam | ab275977 |
| Secondary ab-Donkey anti-mouse 488 | Thermo Fisher Scientific | A21202 (RRID: AB_141607) |
| Secondary ab-Donkey anti-rabbit 488 | Thermo Fisher Scientific | A21206 (RRID: AB_2535792) |
| Secondary ab-Donkey anti-mouse 555 | Thermo Fisher Scientific | A31570 (RRID: AB_2536180) |
| Secondary ab-Donkey anti-rabbit 555 | Thermo Fisher Scientific | A31572 (RRID: AB_162543) |
| Secondary ab-Donkey anti-human 488 | Thermo Fisher Scientific | SA5-10126 (RRID: AB_2556706) |
| Chemicals, peptides, and recombinant proteins | ||
| Phalloidin-670 | Cytoskeleton | PHDN1 |
| CHIR99021 | R&D | 4423 |
| A83-01 | Peprotech | 9094360 |
| SB431542 | BioVision | 1674 |
| Valproic Acid | Sigma-Aldrich | P4543 |
| Insulin-Transferrin-Selenium-Ethanolamine (ITS - X) | Gibco | 51500056 |
| Insulin-Transferrin-Selenium (ITS -G) | Gibco | 41400045 |
| Forskolin | Sigma-Aldrich | F3917 |
| Y-27632 | Stemgent | 04–0012 |
| PD0325901 | Stemgent | 04–0006 |
| IM-12 | Enzo | BML-WN102 |
| SB590885 | Tocris | 2650 |
| WH-4-023 | A Chemtek | S1180 |
| XAV939 | Sigma | X3004 |
| Gö6983 | Tocris | 2285 |
| GDC-0994 | Selleck Chemicals | S7554 |
| rhEGF | Peprotech | AF-100-15 |
| rhHGF | Peprotech | 100-39 |
| rhR-Spondin1 | Peprotech | 120-38 |
| rhFGF2 | Peprotech | 100-18B |
| rhNRG1 | Cell Signaling | 5218SC |
| Activin A | PeproTech | 120-14 |
| LIF | PeproTech | 300-05 |
| Prostaglandin E2 | Millipore Sigma | P0409 |
| hESC qualified Matrigel | Corning | 354277 |
| Dispase | Stem Cell Technologies | 07923 |
| TrypLE Express | Gibco | 12604-013 |
| Primocin | Invitrogen | ant-pm-1 |
| N-Acetyl-L-Cysteine | Sigma Aldrich | A9165 |
| Knock-out Serum Replacement | ThermoFisher | 10828028 |
| Collagen IV | Corning | 354233 |
| Papain | MP Biomedicals | 100921 |
| Phenol-red free DMEM/F12 | Sigma Aldrich | D-2906 |
| Charcoal-stripped fetal bovine serum | Thermo Scientific | A3382101 |
| Ibidi micro well chamber slides | Ibidi | 80826 |
| Medroxyprogesterone 17-acetate | Sigma-Aldrich | M1629 |
| beta-Estradiol | Sigma-Aldrich | E8875 |
| 8-Bromo-cAMP | Tocris | 1140 |
| Critical commercial assays | ||
| E.Z.N.A. total RNA kit | Omega | D6834 |
| miRNeasy Mini Kit | Qiagen | 1038703 |
| TaqMan Advanced miRNA cDNA Synthesis Kit | Applied Biosystems | A28007 |
| TaqMan Fast Advanced Master Mix | Applied Biosystems | 4444556 |
| DNeasy Blood and Tissue Kit | Qiagen | 69504 |
| MMP2 ELISA Kit | Abcam | ab100606 |
| hCG ELISA Kit | CalBiotech | HC251F |
| Deposited data | ||
| Raw and Processed data | This paper | GEO: GSE172241 |
| A developmental landscape of 3D-cultured human pre-gastrulation embryos | Xiang et al., 2020 | GEO: GSE136447 |
| Single-cell RNA-seq reveals the diversity of trophoblast subtypes and patterns of differentiation in the human placenta | Liu et al., 2018 | GEO: GSE89497 |
| Experimental models: Cell lines | ||
| H9 (WA09); female | WashU GEiC | RRID: CVCL_9773 |
| WIBR3 (hESC); female | Whitehead Institute | RRID: CVCL_9767 |
| WIBR3-MECP2-GFP/tdTomato; female | Whitehead Institute | N/A |
| bTS5 (BT5) hTSC; female | Drs. Okae, Arima, and Pastor | RCB Cat# RCB4940 (RRID: CVCL_A6JH) |
| CT27 hTSC; female | Drs. Okae, Arima, and Pastor | RCB Cat# RCB4936 (RRID: CVCL_A7AZ) |
| CT30 hTSC; female | Drs. Okae, Arima, and Pastor | RCB Cat# RCB4938 (RRID: CVCL_A7BB) |
| Human Endometrial Stromal Cells-Immortalized | ATCC | CRL-4003 (RRID: CVCL_C464) |
| Human endometrial epithelial cells (EM-TERTs)-Immortalized | Dr. Pamela Pollock, Queensland Un. of Technology, Australia | N/A |
| MicroRNA probes | ||
| TaqMan MicroRNA Advanced Assay 477860_mir Assay Name: hsa-miR-16-5p | Applied Biosystems | A25576 |
| TaqMan MicroRNA Advanced Assay 478703_mir Assay Name: miR-1323 | Applied Biosystems | A25576 |
| TaqMan MicroRNA Advanced Assay 479396_mir Assay Name: miR-525-5p | Applied Biosystems | A25576 |
| TaqMan MicroRNA Advanced Assay 479485_mir Assay Name: miR-517a-3p | Applied Biosystems | A25576 |
| TaqMan MicroRNA Advanced Assay 478148_mir Assay Name: miR-518b | Applied Biosystems | A25576 |
| TaqMan MicroRNA Advanced Assay 478986_mir Assay Name: miR-519d-3p | Applied Biosystems | A25576 |
| Software and algorithms | ||
| FlowJo_v10.6.2 | FlowJo™ | RRID:SCR_008520; https://www.flowjo.com/ |
| Prism 9 | GraphPad | RRID:SCR_002798; https://www.graphpad.com |
| FIJI | NIH | https://imagej.net/Fiji |
| Amira | ThermoFisher | N/A |
| R 4.0.0 | R project | N/A; https://www.r-project.org/ |
| Cellranger 5.0.0 | 10Xgenomics | https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest |
| ClusterProfiler 4.0.0 | Bioconductor | https://bioconductor.org/packages/release/bioc/html/clusterProfiler.html |
| Seurat 4.0 | Satija Lab | https://satijalab.org/seurat |
| pheatmap 1.0.12 | CRAN | https://cran.r-project.org/web/packages/pheatmap/index.html |