Key resources table.
| Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Mus musculus; male and female) | Gdf11tm2a(EUCOMM)Hmgu | MMRRC | Cat. #037721-UCD; RRID: MMRRC_037721-UCD | Gdf11tm2b allele generated by breeding with Sox2-Cre; maintained on C57BL/6J background |
| Strain, strain background (Mus musculus; male and female) | MECP2-TG1 (Tg(MECP2)1Hzo) | The Jackson Laboratory | Cat. #008679; RRID: IMSR_JAX:008679 | Maintained on C57BL/6J background |
| Strain, strain background (Mus musculus; male and female) | Mecp2tm1.1Bird | The Jackson Laboratory | Cat. #003890; RRID: IMSR_JAX:003890 | Maintained on C57BL/6J background |
| Strain, strain background (Mus musculus; female) | Sox2-Cre | The Jackson Laboratory | Cat. #008454; RRID: IMSR_JAX:008454 | |
| Strain, strain background (Mus musculus; male and female) | C57BL/6J | The Jackson Laboratory | Cat. #000664; RRID: IMSR_JAX:000664 | |
| Antibody | Rabbit anti-MeCP2 (clone D4F3) (rabbit monoclonal) | Cell Signaling Technology | Cat. #3456; RRID: AB_2143894 | 1:100 |
| Antibody | Rabbit anti-Try-Methyl-Histone H3 (Lys27) (clone C36B11) (rabbit monoclonal) | Cell Signaling Technology | Cat. #9733; RRID: AB_2616029 | 1:100 |
| Antibody | Rabbit IgG (rabbit polyclonal) | Millipore | Cat. #12–370; RRID: AB_145841 | 1:100 |
| Antibody | Mouse anti-GFAP (mouse monoclonal) | Sigma-Aldrich | Cat. #G3893; RRID: AB_477010 | 1:1000 |
| Antibody | Rabbit anti-SOX2 (rabbit polyclonal) | Abcam | Cat. #ab97959; RRID: AB_2341193 | 1:500 |
| Antibody | Donkey anti-rabbit Alexa 488 (donkey polyclonal) | Jackson ImmunoResearch | Cat #711-545-152; RRID: AB_2313584 | 1:1000 |
| Antibody | Donkey anti-mouse Alexa 555 (donkey polyclonal) | ThermoFisher Scientific | Cat #A-31570; RRID: AB_2536180 | 1:1000 |
| Other | Concanavalin A magnetic beads | Bangs Laboratories Inc | Cat. #BP531 | See Materials and Methods, CUT&RUN |
| Other | pAG-MNase | Epicypher | Cat. #15–1016 | See Materials and Methods, CUT&RUN |
| Other | RNAse A | ThermoFisher Scientific | Cat. #EN0531 | See Materials and Methods, CUT&RUN |
| Other | E. coli spike-in | Epicypher | Cat. #18–1401 | See Materials and Methods, CUT&RUN |
| Other | MaXtract tubes | Qiagen | Cat. #129046 | See Materials and Methods, CUT&RUN |
| Commercial assay or kit | NEB Next II DNA Ultra Kit | New England Biolabs | Cat. #E7645S | |
| Commercial assay or kit | Unique Combinatorial Dual Index kit | New England Biolabs | Cat. #E6442S | |
| Other | SPRI select beads | Beckman Coulter | Cat. #B23318 | See Materials and Methods, CUT&RUN Next Generation Sequencing Library Preparation |
| Commercial assay or kit | KAPA library quantification kit | Roche | Cat. #5067 | |
| Other | 5-ethynyl-2’-deoxyuridine (EdU) | Invitrogen | Cat. #E10187 | See Materials and Methods, EdU and Immunofluorescnece staining |
| Commercial assay or kit | Click-iT EdU Imaging Kit with AlexaFluor 647 dye | Invitrogen | Cat. #C10340 | |
| Other | Alcian blue | Sigma-Aldrich | Cat. #A5268 | See Materials and Methods, Skeletal analysis |
| Other | Alizarin red | Sigma-Aldrich | Cat. #A5533 | See Materials and Methods, Skeletal analysis |
| Software, algorithm | GraphPad Prism 9 | GraphPad Software | https://www.graphpad.com | |
| Software, algorithm | Trimmomatic v 0.36 | GitHub | https://github.com/usadellab/Trimmomatic; RRID: SCR_011848 | Version 0.36 |
| Software, algorithm | Bowtie2-2.3.4.1 | GitHub | https://github.com/BenLangmead/bowtie2; RRID: SCR_016368 | Version 2.3.4.1 |
| Software, algorithm | Bedtools | GitHub |
https://github.com/arq5x/bedtools2; RRID: SCR_00646 |
Version v2.29.1 |
| Software, algorithm | deeptools | GitHub | https://github.com/deeptools/deepTools; RRID: SCR_016366 | Version 3.3.0 |
| Software, algorithm | MACSr | GitHub | https://github.com/macs3-project/MACSr; RRID: SCR_013291 | MACS peak calling using R wrapper; Version 1.0.0 |