KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
|
| ||
| mouse monoclonal anti-GST tag | In-house | 15TF21D10 |
| mouse IgG | Jackson ImmunoResearch | 015-000-003; RRID: AB_2337188 |
| rabbit IgG | Jackson ImmunoResearch | 011-000-003; RRID: AB_2337118 |
| rabbit polyclonal anti-GFP tag | Abcam | ab290; RRID: AB_303395 |
| rabbit polyclonal anti-YEATS2 | In-house | 2783; Nagy et al.8 |
| rabbit polyclonal anti-YEATS2 | Abcam | ab254895 |
| rabbit polyclonal anti-ZZZ3 | In-house | 2616; Nagy et al.8 |
| rabbit polyclonal anti-CSRP2BP (ATAC2) | In-house | 2734; Nagy et al.8 |
| rabbit polyclonal anti-MBIP | In-house | 2786; Nagy et al.8 |
| rabbit polyclonal anti-WDR5 | Abcam | ab22512; RRID: AB_2215559 |
| mouse monoclonal anti-WDR5 | Abcam | 2C2-ab56919; RRID: AB_946146 |
| rabbit polyclonal anti-NC2b | In-house | Malecova et al.84 |
| mouse monoclonal anti-TADA2A | In-house | 2AD2A1; Nagy et al.8 |
| mouse monoclonal anti-KAT2A | In-house | 2GC2C11; Brand et al.85 |
| rabbit polyclonal anti-TADA3 | In-house | 2678; Nagy et al.8 |
| rabbit polyclonal anti-TADA2B | In house | 3122; Fischer et al.86 |
| rabbit polyclonal anti-SUPT3H | In house | 3118; Bardot et al.87 |
| rabbit polyclonal anti-SUPT20H | In house | 3006; Krebs et al.37 |
| rabbit polyclonal anti-ATXN7L3 | In-house | 2325; Zhao et al.88 |
| mouse monoclonal anti-alpha tubulin | Sigma Aldrich | T9026; RRID: AB_477593 |
| rabbit polyclonal anti-GAPDH | Sigma Aldrich | MAB374; RRID: AB_2107445 |
| rabbit polyclonal anti-histone H3 | Abcam | ab1791; RRID: AB_302613 |
| rabbit polyclonal anti-acetylated lysine | Cell Signaling Technology | 9441; RRID: AB_331805 |
| rabbit polyclonal anti-alpha synculein | Cell Signaling Technology | 2642; RRID: AB_2192679 |
| mouse monoclonal anti-S100A11 | Invitrogen | PA5-110338; RRID: AB_2855749 |
| mouse monoclonal anti-RPB1 | In-house | 1PG7G5; Lebedeva et al.89 |
| Alexa Fluor (AF) 488-labelled goat anti-mouse mAb | Life Technologies | Cat# A11001; RRID: AB_2534069 |
| Peroxidase AffiniPure Goat Anti-Rabbit IgG (H + L) | Jackson ImmunoResearch | Cat# 111-035-144; RRID: AB_2307391 |
| Peroxidase AffiniPure F(ab’)2 Fragment Goat Anti-Mouse IgG, Fcγ fragment specific | Jackson ImmunoResearch | Cat# 115-036-071; RRID: AB_2338524 |
| rabbit polyclonal anti-GFP tag | Sigma Aldrich | G1544; RRID: AB_439690 |
| mouse monoclonal anti-Vinculin | Santa Cruz | sc-73614; RRID: AB_1131294 |
| mouse monoclonal anti-Tubulin | Calbiochem | CP06; RRID: AB_2617116 |
| mouse monoclonal anti-Flag M2 | Sigma Aldrich | F1804; RRID: AB_262044 |
|
| ||
| Chemicals, Peptides, and Recombinant Proteins | ||
|
| ||
| GFP-Trap® Agarose | Chromotek | gta |
| Vectashield | Vector Laboratories | H-1000 |
| FLAG peptides | PI230 | Fournier et al.32 |
|
| ||
| Critical Commercial Assays | ||
|
| ||
| PTMScan Acetyl-lysine Motif [Ac-K] kit | Cell Signaling | Cat# 13416S |
| NucleoSpin RNA XS, RNA extraction kit | Macherey-Nagel | Cat# 740902.50 |
| SuperScript IV Reverse Transcriptase, cDNA synthesis kit | Thermo Fischer Scientific | Cat# 18090010 |
| NuPAGE™ 4 to 12%, Bis-Tris, 1.0-1.5 mm, Mini Protein Gels | Thermo Fischer Scientific | Cat# NP0321BOX |
| PierceTM ECL Western Blotting Substrate | Thermo Fischer Scientific | Cat# 32209 |
| Lipofectamine RNAiMax | Invitrogen | Cat# 13778150 |
|
| ||
| Deposited Data | ||
|
| ||
| Mass spectrometry proteomics SAGA complex IPs | This paper | PRIDE: PXD038695 |
| Mass spectrometry proteomics ATAC complex IPs | This paper | PRIDE: PXD038695 |
| Mass spectrometry proteomics anti-acetylated lysine IP | This paper | PRIDE: PXD038695 |
|
| ||
| Experimental Models: Cell Lines | ||
|
| ||
| Human HeLa cells (W.S) | IGBMC | https://www.igbmc.fr/services-scientifiques/culture-de-cellules#c2202 |
| Human HEK293T | IGBMC | https://www.igbmc.fr/services-scientifiques/culture-de-cellules#c2202 |
| Mouse: ES E14tg2a.4 cells (129P2 genetic background) | BayGenomics | Fischer et al.86 |
| Sf9 insect cells | IGBMC | https://www.igbmc.fr/en/plateformes-technologiques/translate-to-english-baculovirus |
| HeLa Flp-In/T-REx-GFP-YEATS2 Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-ZZZ3 Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-ATAC2 Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-MBIP Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-WDR5 Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-NC2b Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-TAF5L Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-TAF9 Dox inducible cell line | This study | N/A |
| HeLa Flp-In/T-REx-GFP-TAF12 Dox inducible cell line | This study | N/A |
|
| ||
| Oligonucleotides | ||
|
| ||
| For primer sequences see Table S1 | This paper | N/A |
| For smiFISH probes see Table S2 | This paper | N/A |
| ON-TARGETplus human siTADA2A | Dharmacon | L-017516-00-0050 |
| ON-TARGETplus human siTADA2B | Dharmacon | L-024154-00-0050 |
| ON-TARGETplus human siKAT2A | Dharmacon | L-009722-02-0050 |
| ON-TARGETplus human siKAT2B | Dharmacon | L-005055-00-0050 |
| ON-TARGETplus human siNon-targeting | Dharmacon | D-001810-10-50 |
|
| ||
| Recombinant DNA | ||
|
| ||
| Plasmid: EGFP-alpha synuclein-WT | Addgene | plasmid ID: 40822 |
| Plasmid: GFP-S100A11 | Addgene | plasmid ID: 107201 |
| cDNA: human YEATS2 (1–1422) | the Kazusa DNA research institute (No KIAA1197) | N/A |
| cDNA: human ZZZ3 (1–903) | Origene | Cat# SC107046 |
| cDNA: human MBIP (1–344) | Yokohama City University | N/A |
| cDNA: Human NC2b (1–176) | T. Oelgeschläger | N/A |
| pFastBac baculovirus expression vector: HA-CSRP2BP (ATAC2) | This paper | Nagy et al.8; Vilhais-Neto et al.90 |
| pFastBac baculovirus expression vector: Flag-hWDR5 | This paper | Nagy et al.8; Vilhais-Neto et al.90 |
| pFastBac baculovirus expression vector: c-Myc-hMBIP | This paper | N/A |
| pFastBac baculovirus expression vector: hYEATS2 | This paper | N/A |
| pFastBac baculovirus expression vector: ZZZ3 | This paper | N/A |
| pFastBac baculovirus expression vector: NC2b | This paper | N/A |
| pFastBac baculovirus expression vector: KAT2A | This paper | Fournier et al.32 |
| pFastBac baculovirus expression vector: KAT2B | This paper | Fournier et al.32 |
| pFastBac baculovirus expression vector: KAT2A/2B dead mutants | This paper | Fournier et al.32 |
|
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| Software and Algorithms | ||
|
| ||
| Fiji | Schindelin et al., 2012 | https://imagej.net/software/fiji/downloads |
| Image lab | Biorad | https://www.bio-rad.com/en-us/product/image-lab-software?ID=KRE6P5E8Z |
| Prism | Graphpad | https://www.graphpad.com/features |
| Adobe Illustrator | Adobe | https://www.adobe.com |
| Proteome Discoverer 2.4 | Thermo Fisher Scientific | https://www.thermofisher.com/us/en/home/industrial/mass-spectrometry/liquid-chromatography-mass-spectrometry-lc-ms/lc-ms-software/multi-omics-data-analysis/proteome-discoverer-software.html |
| MetaMorph software | Molecular Devices | https://www.moleculardevices.com/products/cellular-imaging-systems/acquisition-and-analysis-software/metamorph-microscopy |
| Chromagnon | Matsuda et al., 2018 | https://github.com/macronucleus/Chromagnon |
| CellProfiler | Broad Institute | https://cellprofiler.org/ |