KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| goat anti-Gli3 antibody | R&D Systems | Cat#AF3690; RRID: AB_2232499 |
| rabbit anti-Gli3 antibody | Chen et al., 2004 | N/A |
| mouse anti-Vinculin antibody | Sigma-Aldrich | Cat#V9264; RRID: AB_10603627 |
| IRDye 800CW goat anti-rabbit secondary antibody | LI-COR | Cat#926-32211; RRID: AB_621843 |
| IRDye 800CW donkey anti-goat secondary antibody | LI-COR | Cat#926-32214; RRID: AB_621846 |
| IRDye 680RD donkey anti-mouse secondary antibody | LI-COR | Cat#926-68072; RRID: AB_10953628 |
| Anti-Digoxigenin-AP antibody | Sigma-Aldrich | Cat#11093274910; RRID: AB_2734716 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Tamoxifen | Sigma-Aldrich | Cat#T5648; CAS: 10540-29-1 |
| Progesterone | West-Ward Pharmaceuticals | Cat#NDC 0143-9725-01; CAS: 57-83-0 |
| Lysotracker Red | ThermoFisher Scientific | Cat#L7528 |
| Alcian Blue 8 GX | Sigma-Aldrich | Cat#A-5268; CAS: 33864-99-2 |
| Alizarin Red S | Sigma-Aldrich | Cat#A5533; CAS: 130-22-3 |
| Ethanol | Sigma-Aldrich | Cat# 107017; CAS: 64-17-5 |
| Acetone | Sigma-Aldrich | Cat# 179124; CAS: 67-64-1 |
| Methanol | Sigma-Aldrich | Cat#322415; CAS: 67-56-1 |
| Paraformaldehyde | Sigma-Aldrich | Cat#441244; CAS: 30525-89-4 |
| Glutaraldehyde | Polyscience | Cat#00216; CAS: 111-30-8 |
| Glycerol | Sigma-Aldrich | Cat#G7757; CAS: 56-81-5 |
| Formamide | Sigma-Aldrich | Cat#F7503; CAS: 75-12-7 |
| X-Gal | GoldBio | Cat#X4281C; CAS: 7240-90-6 |
| Potassium ferrocyanide | Sigma-Aldrich | Cat#P3289; CAS: 14459-95-1 |
| Potassium ferricyanide | Sigma-Aldrich | Cat#702587; CAS: 13746-66-2 |
| BM-Purple | Sigma-Aldrich | Cat#11442074001 |
| NBT | Sigma-Aldrich | Cat#11383213001; CAS: 298-83-9 |
| BCIP | Sigma-Aldrich | Cat#11383221001; CAS: 6578-06-9 |
| Benzyl alcohol | Sigma-Aldrich | Cat#108006; CAS: 100-51-6 |
| Benzyl benzoate | Sigma-Aldrich | Cat#B6630; CAS: 120-51-4 |
| NuPAGE LDS Sample Buffer (4X) | ThermoFisher Scientific | Cat#NP0007 |
| cOmplete, Mini Protease Inhibitor Cocktail | Sigma-Aldrich | Cat# 11836153001 |
| Critical Commercial Assays | ||
| in situ Hybridization Chain Reaction v3.0 | Molecular Instruments (Choi et al., 2018) | N/A |
| NuPAGE 3 to 8%, Tris-Acetate protein gels | ThermoFisher Scientific | Cat# EA0378BOX |
| Experimental Models: Organisms/Strains | ||
| Mouse: Shhflox/flox | The Jackson Laboratory | Cat#004293; RRID:IMSR_JAX:004293 |
| Mouse: ShhCre/+ | The Jackson Laboratory | Cat#005622; RRID:IMSR_JAX:005622 |
| Mouse: ShhCreER/+ | The Jackson Laboratory | Cat#005623; RRID:IMSR_JAX:005623 |
| Mouse: Gli1CreER/+ | The Jackson Laboratory | Cat#007913; RRID:IMSR_JAX:007913 |
| Mouse: Baxflox/flox;Bak−/− | The Jackson Laboratory | Cat#006329; RRID:IMSR_JAX:006329 |
| Mouse: Prrx-Cre tg | The Jackson Laboratory | Cat#005584; RRID:IMSR_JAX:005584 |
| Mouse: Rosa-EYFP tg | The Jackson Laboratory | Cat#006148; RRID:IMSR_JAX:006148 |
| Mouse: Rosa-SmoM2 | The Jackson Laboratory | Cat#005130; RRID:IMSR_JAX:005130 |
| Mouse: Shh+/− | Chiang et al., 1996 | N/A |
| Mouse: Gli3XtJ/+ | Buscher et al., 1998 | N/A |
| Mouse: Gli1LacZ/+ | Bai et al., 2002 | N/A |
| Mouse: Rosa-LacZ | Soriano, 1999 | N/A |
| Mouse: Hoxb6-CreER tg | Nguyen et al., 2009 | N/A |
| Mouse: Bax+/− | This study – see STAR method; Table 1 | N/A |
| Oligonucleotides | ||
| Genotyping primers for Bax-deleted allele | This study; 300bp PCR product | F:
5′-GAACCCTAGGACCCCTCCG-3′ R: 5′-CAACTCCTACCGCAAGTCCTGG-3′ |
| Genotyping primers for other mouse lines | Integrated DNA Technologies | Sequence information available from the Jackson Lab website and original published papers |
| Recombinant DNA | ||
| pBluescript-mGli1 | Gift from Dr. A. Joyner; Dev. Biol. Program, Sloan Kettering Institute, NY, NY |
N/A |
| pGEMT-mPtch1 | Gift from Dr. H. Arnheiter; NINDS, NIH, Bethesda, MD |
N/A |
| pBluescript-mHand2 | Gift from Dr. M. Ros; IBBTEC, Univ. Cantabria, Santander, Spain |
N/A |
| pBluescript-mFgf8 | Gift from Dr. G. Martin; UCSF, San Francisco, CA |
N/A |
| pBluescript-mGremlin1 | Gift from Dr. Y. Yang; Dept. Dev. Biol., Harvard Sch. Dental Medicine, Boston, MA |
N/A |
| mCyp26b1 ORF clone | Origene Technologies | Cat#MR222344 |
| pGEMT-mHoxd13 | Gift from Dr. D. Duboule; Dept. Genetics and Evolution, Univ. Geneva, Switzerland |
N/A |
| pGEMT-mHoxd11 | Gift from Dr. D. Duboule;as above | N/A |
| pXCMI-mHoxa13 | Gift from Dr. S. Stadler; Div. Skeletal Biology, Shriners Hospital for Children, Portland,OR |
N/A |
| pBluescript-mJagged1 | Gift from Dr. P. Koopman; Inst. Mol. Bioscience, Univ. Queensland, Brisbane, Australia |
N/A |
| pBluescript-mIrx3 | Gift from Dr. Kmita; Genetics and Dev. Res. Unit, Institut de Recherches Cliniques de Montréal, Québec, Canada |
N/A |
| pBluescript-mAlx4 | Gift from Dr. M. Ros; as above | N/A |
| pBluescript-mUncx4.1 | Gift from Dr. B. Herrmann; Max Planck Inst. for Molecular Genetics, Dept. Dev. Genetics, Berlin, Germany |
N/A |
| pBluescript-mSox9 | Gift from Dr. R.R. Behringer; Dept. Mol. Genetics, UT-MDACC, Houston, TX |
N/A |
| Software and Algorithms | ||
| LI-COR Odyssey Image Studio v5.2 | LI-COR | RRID: SCR_014579 |
| Imaris v9.1 | Bitplane/Oxford Instruments | RRID: SCR_007370 |
| Microsoft excel ver 16.59 | Microsoft | N/A |