KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse monoclonal anti-Sox2 | Abcam | ab79351 RRID: AB_10710406 |
| Goat polyclonal anti-Sox2 (Y-17) | Santa Cruz Biotechnology | sc-17320 RRID: AB_2286684 |
| Rabbit polyclonal anti-Nkx2–1 (H-190) | Santa Cruz Biotechnology | sc-13040X RRID: AB_793532 |
| Goat polyclonal anti-Foxf1 | R&D | AF4798 RRID: AB_2105588 |
| Rat monoclonal anti-Cdh1 | R&D | MAB7481 RRID: AB_2076679 |
| Rabbit polyclonal anti-laminin | Sigma-Aldrich | L9393 RRID: AB_477163 |
| Mouse monoclonal anti-ß1 integrin | Developmental Studies Hybridoma Bank | 8C8 (deposited to the DSHB by Hausen, P./ Gawantka, V.) RRID: AB_528309 |
| Rabbit polyclonal anti-ß-catenin (H-102) | Santa Cruz Biotechnology | sc-7199 RRID: AB_634603 |
| Rabbit polyclonal anti-phospho-histone H3 | Cell Signaling | 9701L RRID: AB_331535 |
| Rabbit polyclonal anti-cleaved caspase 3 | Cell Signaling | 9661 RRID: AB_2341188 |
| Mouse monoclonal anti-Cdh1 (5D3) | Developmental Studies Hybridoma Bank | 5D3 (deposited to the DSHB by Gumbiner, B.M.) RRID: AB_528116 |
| Mouse monoclonal anti-Cdh3 (6B6) | Developmental Studies Hybridoma Bank | 6B6 (deposited to the DSHB by Gumbiner, B.M.) RRID: AB_528113 |
| Rabbit polyclonal anti-aPKC | Abcam | ab59364 RRID: AB_944858 |
| Goat polyclonal anti-p-PKC ζ (C-20) | Santa Cruz Biotechnology | sc-216-G RRID: AB_632241 |
| Rabbit monoclonal anti-PKCμ (C-20) | Santa Cruz Biotechnology | sc-639 RRID: AB_2172392 |
| Rabbit monoclonal anti-Rab11 (3H18L5) | Invitrogen | 700184 RRID: AB_2532295 |
| Rabbit polyclonal anti-Rab11 | Cell Signaling | 5589 RRID: AB_10693925 |
| Mouse monoclonal anti-Fibronectin 4H2 | De Simone Lab | Available from DSHB #4H2 RRID: AB_2721949 |
| Chicken polyclonal anti-ß-galactosidase | Abcam | ab9361 RRID: AB_307210 |
| Chicken polyclonal anti-GFP | Aves Labs | GFP-1020 RRID: AB_10000240 |
| Mouse monoclonal anti-DsRed | Takara Bio | 632392 RRID: AB_2801258 |
| Donkey anti-goat 488 | Jackson ImmunoResearch Laboratories | 705-546-147 RRID: AB_2340430 |
| Donkey anti-goat Cy3 | Jackson ImmunoResearch Laboratories | 705-166-147 RRID: AB_2340413 |
| Donkey anti-rabbit Cy3 | Jackson ImmunoResearch Laboratories | 711-165-152 RRID: AB_2307443 |
| Donkey anti-rat 647 | Jackson ImmunoResearch Laboratories | 712-606-153 RRID: AB_2340696 |
| Donkey anti-mouse Cy3 | Jackson ImmunoResearch Laboratories | 715-165-151 RRID: AB_2315777 |
| Donkey anti-mouse 647 | Jackson ImmunoResearch Laboratories | 715-606-151 RRID: AB_2340866 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Cyclopamine | Tocris | 1623 |
| Cyclopamine | Selleck Chemicals | S1146 |
| GM6001 | Millipore Sigma | 364205 |
| 1,10-phenanthroline | Millipore Sigma | 131377–25G |
| Dynasore | Millipore Sigma | 324414 |
| Hydroxyurea | Alfa Aesar | A10831 |
| T7E1 | New England BioLabs, Incorporated | M0302S |
| Cas9 | PNA Biosciences | CP01–50 |
| 2x Phusion Master Mix | Thermo Fisher Scientific | F531 |
| Phusion Hot Start Flex 2X Master Mix | New England BioLabs, Incorporated | M0536S |
| QuickLoad 2X Master Mix | New England BioLabs, Incorporated | M0271L |
| I-Sce1 | New England Biolabs | R0694S |
| Doxycycline hyclate | Sigma | D9891 |
| pCR8/GW/TOPO TA Cloning Kit with One Shot TOP10 E.coli | Thermo Fisher Scientific | K250020 |
| LR Clonase II Plus enzyme | Thermo Fisher Scientific | 12538120 |
| Tamoxifen | Sigma-Aldrich | T5648 |
| Normal donkey serum | Jackson ImmunoResearch Laboratories | 017-000-121 |
| ProLong Gold Antifade | Thermo Fisher Scientific | P36930 |
| 10X Citrate Buffer | Abcam | ab64214 |
| Alexa Fluor Phalloidin 488 | Life Technologies | A12379 |
| DAPI | Thermo Fisher Scientific | D1306 RRID: AB_2629482 |
| Experimental Models: Organisms/Strains | ||
| Xenopus laevis: Xla.Tg(CMV:memGFP,cryga:mCherry)NXR | National Xenopus Resource | NXR_0.0012 |
| Xenopus laevis females | NASCO | LM00531 |
| Xenopus laevis males | NASCO | LM00715 |
| Xenopus tropicalis females | NASCO | LM00823 |
| Xenopus tropicalis males | NASCO | LM00822 |
| Xenopus tropicalis Superman males | Mustafa Khokha | N/A |
| Xenopus tropicalis Superman females | Mustafa Khokha | N/A |
| Xenopus laevis Tg(hhex;rtTA;TRE:dnRab11a-GFP) | This study | This study |
| Mouse: Gli2tm2.1Alj/J | The Jackson Laboratory | JAX: 007922 |
| Mouse; Gli3XtJ | Rolf Stottmann | (JAX: 000026) |
| Mouse: Gt(ROSA)26Sortm3(Gli3)Amc/J | Rolf Stottmann & Joo-Seop Park | (JAX: 013124) |
| Mouse: Shhtm1(EGFP/cre)Cjt/J | Debora Sinner | (JAX: 005622) |
| Mouse: Foxg1tm1(cre)Skm | Debora Sinner | (JAX: 006084) |
| Mouse: Nkx2–1GFP | John Shannon & Jeffrey Whitsett | (Longmire et al., 2012) |
| Mouse: FoxA2tm2.1(cre/Esr*)Moon/J | James Wells | (JAX: 008464) |
| Mouse: Sox2tm1.1Lan/J | James Wells | (JAX: 013093) |
| Mouse: B6.129(Cg)-Gt(ROSA)26Sortm4(ACTB-tdTomato,-EGFP)Luo/J | Debora Sinner | (JAX: 007676) |
| Mouse: B6.129X1-Twist2tm1.1(cre)Dor/J | Debora Sinner | (JAX: 008712) |
| Oligonucleotides | ||
| Control Morpholino: CCTCTTACCTCAGTTACAATTTATA | GeneTools | (Nguyen et al., 2005) |
| X. laevis Gli2 Morpholino: GCACAGAACGCAGGTAATGCTCCAT | GeneTools | (Nguyen et al., 2005) |
| X. laevis Gli3 Morpholino: TAGTGCTACGGGACTGGGCTTCCAT | GeneTools | (Nguyen et al., 2005) |
| X. laevis Rab11a Morpholino: TACCCATCGTCGCGGCACTTCTGAC | GeneTools | (Kim et al., 2012) |
| X. tropicalis CRISPR gRNA tyr: GGAACTGGCCCCTGCAAACATGG | IDTDNA | (Blitz et al., 2013) |
| X. tropicalis CRISPR gRNA gli3 exon 2 LOF: CGGTAGGGAACTGAGGGTTCAGG | IDTDNA | This study |
| Genotyping, X. tropicalis gli3 LOF CRISPR forward: AAGAAACGCCATCACCATGC | IDTDNA | This study |
| Genotyping, X. tropicalis gli3 LOF CRISPR reverse: TCCAAGCAGTCCCTAATAGCA | IDTDNA | This study |
| X. tropicalis CRISPR gRNA gli2 LOF: GGGCTACCGCTGAGAGTTGGGGG | IDTDNA | This study |
| Genotyping, X. tropicalis gli2 LOF CRISPR forward: CTGTGCTAATAACCCACATTTCTC | IDTDNA | This study |
| Genotyping, X. tropicalis gli2 LOF CRISPR reverse: TGCAGACCCCCACTATCCA | IDTDNA | This study |
| X. tropicalis CRISPR gRNA gli3R PHS: GTGCTCTATGAGGTGGAACTGGG | IDTDNA | This study |
| Genotyping, X. tropicalis gli3R CRISPR forward: GCATTGAGTGCATGACATTG | IDTDNA | This study |
| Genotyping, X. tropicalis gli3R CRISPR reverse: CATTCCCATGACAACACAGC | IDTDNA | This study |
| X. laevis CRISPR gRNA rab11.a exon 1 LOF: GAGATTACTCTTCCCCACAC CGG | IDTDNA | This study |
| Genotyping, X. laevis rab11a.S CRISPR forward: ACAGTGTGCATAGAATTTGGCG | IDTDNA | This study |
| Genotyping, X. laevis rab11a.S CRISPR forward: CGTGTGTTGCCTAGAGGGAC | IDTDNA | This study |
| X. laevis pCS2-EGFP-dnRab11a | Sergei Sokol | (Kim et al., 2012) |
| Amplification of EGFP-dnRab11a from provided pCS2-EGFP-dnRab11, forward: ATGGTGAGCAAGGGCGAGGAGCT | IDTDNA | This study |
| Amplification of EGFP-dnRab11a from provided pCS2-EGFP-dnRab11, reverse: TTAGATGTTCTGACAGCATTGCAT | IDTDNA | This study |
| Amplification of X. laevis hhex promoter, forward: GCATACAGACCCATGCCAGTG | IDTDNA | (Rankin et al., 2011) |
| Amplification of X. laevis hhex promoter, reverse: GTCGATTCCTCTTTCCACACTCAG | IDTDNA | (Rankin et al., 2011) |
| Software and Algorithms | ||
| NIS Elements | Nikon | N/A |
| IMARIS | Bitplane | N/A |
| Excel | Microsoft | N/A |
| Prism | GraphPad | N/A |
| TIDE | N/A | https://tide.deskgen.com |
| CRISPRScan | N/A | http://www.crisprscan.org |
| CHOPCHOP | N/A | http://chopchop.cbu.uib.no |