Key Resources Table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| PARP-1 | Active Motif | Cat# 39559 RRID: AB_2793257 |
| Anti-poly-ADP-ribose binding reagent | Millipore | Cat# MABE1031 RRID: AB_2665467 |
| Phospho-histone H2B Ser36 | ECM Biosciences | Cat# HP4331 |
| Phospho-histone H2B Ser32 | Invitrogen | Cat# PA5–40148 RRID: AB_ 2608946 |
| Histone H2B | Abcam | Cat# ab1790 RRID: AB_302612 |
| FLAG | Sigma-Aldrich | Cat# F3165 RRID: AB_259529 |
| HPF1 | Atlas | Cat# HPA043467 RRID: AB_10793949 |
| PARG | Millipore | Cat# MABS61 RRID: AB_10806473 |
| H3K27me3 | Active Motif | Cat# 39055 RRID: AB_ 2561020 |
| Phospho-AMPKα Thr172 | Cell Signaling | Cat# 2531 RRID: AB_330330 |
| AMPKα | Cell Signaling | Cat# 2532 RRID: AB_330331 |
| Phospho-p70 S6 Kinase Thr389 | Cell Signaling | Cat# 9205 RRID: AB_330944 |
| p70 S6 Kinase | Cell Signaling | Cat# 9202 RRID: AB_331676 |
| GFP | Abcam | Cat# ab13970 RRID: AB_300798 |
| Perilipin | Fitzgerald | Cat# 20R-PP004 RRID: AB_1288416 |
| SNRP70 | Abcam | Cat# ab51266 RRID: AB_882630 |
| β-actin | Cell Signaling | Cat# 4967 RRID: AB_330288 |
| Goat anti-rabbit HRP-conjugated IgG | ThermoFisher | Cat# 31460 RRID: AB_228341 |
| Goat anti-mouse HRP-conjugated IgG | ThermoFisher | Cat# 31430 RRID: AB_10960845 |
| Alexa fluor 488-conjugated goat anti-chicken IgG | Invitrogen | Cat# 3 A-11039 RRID: AB_ 2534096 |
| Alexa fluor 647-conjugated goat anti-guinea pig IgG | Invitrogen | Cat# A-21450 RRID: AB_ 2735091 |
| Alexa fluor 405-conjugated goat anti-rabbit | Abcam | Cat# ab175654 |
| Rabbit IgG | ThermoFisher | Cat# 10500C RRID: AB_2532981 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Histone H2B peptides, wild-type and mutants | Elim Biopharmaceuticals | Peptide ID 8015, 7959, 9351, and 9936 |
| Recombinant human AMPK | Abcam | Cat# ab79803 |
| Mouse Flag-tagged PARP-1, wild-type and mutant | This study | N/A |
| Human Flag-tagged PARP-1 | This study | N/A |
| Mouse His-tagged NMNAT-1, wild-type and mutant | This study | N/A |
| Human His-tagged NMNAT-1, wild-type and mutant | This study | N/A |
| Mouse His-tagged HPF1 | This study | N/A |
| Critical Commercial Assays | ||
| EZ-10 DNAaway RNA Kit | Bio Basic | Cat# BS88133 |
| RNA Screen Tape | Agilent | Cat# 5067–5578 |
| Deposited Data | ||
| 3T3-L1 RNA-seq and ChIP-seq data sets | This study | GEO: GSE136055 |
| Experimental Models: Cell Lines | ||
| 3T3-L1 | ATCC | Cat# CL-173 |
| MDA-MB-436 | ATCC | Cat# HTB-130 |
| 293T | ATCC | Cat# CRL-3216 |
| Recombinant DNA | ||
| pLKO.1-PARP-1 shRNA | This study | N/A |
| pLKO.1-NMNAT-1 shRNA | This study | N/A |
| pINDUCER20-FLAG-PARP-1, wild-type and mutant | This study | N/A |
| pINDUCER20-FLAG- NMNAT-1, wild-type and mutant | This study | N/A |
| pINDUCER20-FLAG-H2B, wild-type and mutants | This study | N/A |
| pINDUCER20-GFP | This study | N/A |
| pCDH-FLAG-H2B, wild-type and mutants | This study | N/A |
| pET19b-His-NMNAT-1, wild-type and mutants | This study | N/A |
| pET19b-His-HPF1 | This study | N/A |
| pcDNA3.1 Snora7a, Snord16a, Snord22, and Snora64 | This study | N/A |
| pcDNA3.1 SNORA15, SNORA37, and SNORA65 | This study | N/A |
| LentiCRISPR v2 sgRNAs for Snora7a, Snord16a, Snord22, Snora64, and non-targeting sgRNA | This study | N/A |
| pLKO.1 | Addgene | Plasmid no. 10878 |
| pINDUCER20 | Addgene | Plasmid no. 44012 |
| pCDH-EF1α-MCS-IRES-Puro | System Biosciences | Cat# CD532A-2 |
| pET19b | EMD Millipore | Cat# 69677 |
| LentiCRISPR v2 | Addgene | Plasmid no. 52961 |
| pCMV-VSV-G | Addgene | Plasmid no. 8454 |
| pAdVAntage | Promega | Cat# TB207 |
| psPAX2 | Addgene | Plasmid no. 12260 |
| Sequence-Based Reagents | ||
| Primers for RT-qPCR | See STAR Methods | N/A |
| Primers for ChIP-qPCR | See STAR Methods | N/A |
| Primers for molecular cloning | See STAR Methods | N/A |
| Software and Algorithms | ||
| FastQC | Babraham Bioinformatics | http://www.bioinformatics.babraham.ac.uk/projects/fastqc/ |
| Tophat | Trapnell et al., 2009 | https://ccb.jhu.edu/software/tophat/index.shtml |
| Cufflinks | Trapnell et al., 2014 | http://cole-trapnell-lab.github.io/cufflinks/ |
| DAVID Bioinformatics Resources | LHRI | https://david.ncifcrf.gov/content.jsp?file=citation.htm |