Key resources table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse anti-ISL1 antibody | DSHB | Cat# 39.4D5, RRID:AB_2314683 |
| Rabbit anti-GATA3 antibody | Cell Signaling Technology | Cat# 5852, RRID:AB_10835690 |
| Mouse anti-GATA3 antibody | Thermo Fisher Scientific | Cat# MA1–028, RRID:AB_2536713 |
| Rabbit anti-GABRP antibody | Thermo Fisher Scientific | Cat# PA5–46830, RRID:AB_2610501 |
| Rabbit anti-MIXL1 antibody | Atlas Antibodies | Cat# HPA005662, RRID:AB_2667382 |
| Rabbit anti-HEY1 antibody | Abcam | Cat# ab154077, RRID:AB_2893447 |
| Mouse anti-TFAP2A antibody | Santa Cruz Biotechnology | Cat# sc-12726, RRID:AB_667767 |
| Goat anti-TBXT antibody | Thermo Fisher Scientific | Cat# PA5–46984, RRID:AB_2610378 |
| Rabbit anti-NANOG antibody | Cell Signaling Technology | Cat# 4903, RRID:AB_10559205 |
| Goat anti-NANOG antibody | R and D Systems | Cat# AF1997, RRID:AB_355097 |
| Mouse anti-TFAP2C antibody | Santa Cruz Biotechnology | Cat# sc-12762, RRID:AB_667770 |
| Goat anti-SOX17 antibody | R&D Systems | Cat# AF1924, RRID:AB_355060 |
| Rabbit anti-BLIMP1 antibody | Cell Signaling Technology | Cat# 9115, RRID:AB_2169699 |
| Rabbit anti-FOXA2 antibody | Cell Signaling Technology | Cat# 8186, RRID:AB_10891055 |
| Mouse anti-OCT4 antibody | Santa Cruz Biotechnology | Cat# sc-5279, RRID:AB_628051 |
| Rabbit anti-OCT4 antibody | Santa Cruz Biotechnology | Cat# sc-9081, RRID:AB_2167703 |
| Rabbit anti-SOX2 antibody | Millipore | Cat# AB5603, RRID:AB_2286686 |
| Mouse anti-DPPA3 antibody | Millipore | Cat# MAB4388, RRID:AB_2094156 |
| Mouse anti-GCM1 antibody | Santa Cruz Biotechnology | Cat# sc-101173, RRID:AB_2108121 |
| Goat anti-HAVCR antibody | R and D Systems | Cat# AF1750, RRID:AB_2116561 |
| Rabbit anti-FABP3 antibody | Proteintech | Cat# 10676-1-AP, RRID:AB_2102309 |
| Goat anti-GATA6 antibody | R and D Systems | Cat# AF1700, RRID:AB_2108901 |
| Mouse anti-NODAL antibody | Abcam | Cat# ab55676, RRID:AB_2151660 |
| Mouse anti- GAPDH antibody | Sigma-Aldrich | Cat# G8795, RRID:AB_1078991 |
| HRP-conjugated anti-mouse IgG antibody | Santa Cruz Biotechnology | Cat# sc-516102, RRID:AB_2687626 |
| Donkey anti-Rabbit 546 | Thermo Fisher Scientific | Cat# A10040, RRID:AB_2534016 |
| Donkey anti-Mouse 488 | Thermo Fisher Scientific | Cat# A-21202, RRID:AB_141607 |
| Donkey anti-Goat 647 | Thermo Fisher Scientific | Cat# A-21447, RRID:AB_2535864 |
| Donkey anti-Rabbit 568 | Thermo Fisher Scientific | Cat# A10042, RRID:AB_2534017 |
| Donkey anti-Mouse 647 | Thermo Fisher Scientific | Cat# A-31571, RRID:AB_162542 |
| Goat anti-Mouse IgG1 488 | Thermo Fisher Scientific | Cat# A-21121, RRID:AB_2535764 |
| Goat anti-Mouse IgG2b 647 | Thermo Fisher Scientific | Cat# A-21242, RRID:AB_2535811 |
| Biological samples | ||
| Human embryo | First People’s Hospital of Yunnan Province | N/A |
| cynomolgus monkeys (Macaca fascicularis) | Yunnan Key Laboratory of Primate Biomedical Research (LPBR) in China. Astrid Fagræus laboratory of the Karolinska Institutet in Sweden. | N/A |
| Chemicals, peptides, and recombinant proteins | ||
| Epidermal growth factor (EGF) | R&D System | Cat# 236-EG-200 |
| CHIR99021 | Cayman Chemical | Cat# 13122 |
| A83-01 | Tocris Bioscience | Cat# 2939 |
| SB431542 | STEMCELL Technologies | Cat# 72234 |
| Y27632 | Tocris | Cat# 1254 |
| FGF2 | Thermo Fisher Scientific | Cat# PHG0261 |
| BMP4 | R&D Systems | Cat# 314-BP-050 |
| IWP2 | Tocris | Cat# 3533 |
| LY294002 | Selleckchem | Cat# S1105 |
| ACTVIN A | R&D Systems | Cat# 338-AC-050 |
| Critical commercial assays | ||
| LookOut Mycoplasma PCR Detection Kit | Sigma-Aldrich | Cat# MP0035-1KT |
| Click-iT™ Plus EdU Cell Proliferation Kit | Thermo Fisher Scientific | Cat# C10637 |
| Deposited data | ||
| Data files for RNA sequencing | Gene Expression Omnibus | GSE185643 |
| Processed dataset | Gene Expression Omnibus | GSE185643, https://umichibbl.shinyapps.io/shinyapp/ |
| Raw data for plots | Mendeley Data | http://dx.doi.org/10.17632/cvv5rzymhd.1 |
| Experimental models: Cell lines | ||
| Human: H9 (WA09) (female) | WiCell | NIH registration number: 0062 |
| Human: ESI-017 (male) | BioTime, Inc. | NIH registration number: 0093 |
| Chimpanzee: Chimpanzee iPSC lines (C3651, male and C4955, female) | (Gallego Romero et al., 2015; Pavlovic et al., 2018) | N/A |
| Human: Human trophoblast stem cells (hTSCs) | (Okae et al., 2018) | N/A |
| Human: ESI-017 NODAL-KO hPSC line | (Chhabra et al., 2019) | N/A |
| Oligonucleotides | ||
| NODAL_crRNA_1: 5’-AGGCUCAGCAUGUACGCCAG-3’ | Thermo Fisher Scientific | N/A |
| NODAL_crRNA_2: 5’-AGACAUCAUCCGCAGCCUAC-3’ | Thermo Fisher Scientific | N/A |
| NODAL exon 1 Forward Primer: 5’-CTTCCTTCTGCACGCCTGGTGG-3’ | Thermo Fisher Scientific | N/A |
| NODAL exon 1 Reverse Primer: 5’-CCAACCCACAGCACTTCCCGAG-3’ | Thermo Fisher Scientific | N/A |
| Recombinant DNA | ||
| pCXLE-EGFP expression plasmid | Addgene | plasmid # 27082; RRID: Addgene_27082 |
| Software and algorithms | ||
| R | open source | https://www.r-project.org |
| Python | open source | https://www.python.org/ |
| ImageJ | open source | https://imagej.net/software/fiji/ |
| Other | ||
| mTeSR™1 | STEMCELL Technologies | Cat# 85850 |
| mTeSR™ Plus | STEMCELL Technologies | Cat# 100-0276 |
| Gibco™ Geltrex™ LDEV-Free, hESC-Qualified, Reduced Growth Factor Basement Membrane Matrix | Thermo Fisher Scientific | Cat# A1413302 |
| Corning™ Matrigel™ hESC-Qualified Matrix | Thermo Fisher Scientific | Cat# 08-774-552 |
| KnockOut™ Serum Replacement | Thermo Fisher Scientific | Cat# 10828028 |
| Insulin-Transferrin-Selenium-Ethanolamine (ITS -X) | Thermo Fisher Scientific | Cat# 51500056 |
| Essential 6 medium (E6) | Thermo Fisher Scientific | Cat# A1516401 |