KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-Sirt1(Sir2) Antibody (Rabbit Polyclonal Antibody) | EMD Millipore | Cat# 07-131; RRID:AB_11214517 |
| Anti-PARP1 Antibody (Rabbit Polyclonal Antibody) | Cell Signaling Technology | Cat# 9542; RRID:AB_2160739 |
| Anti-PGC-1α (H-300) Antibody (Rabbit Polyclonal Antibody) | Santa Cruz Biotechnology | Cat# sc-13067; RRID:AB_2166218 |
| Anti-Acetylated-Lysine Antibody (Rabbit Polyclonal Antibody) | Cell Signaling Technology | Cat# 9441; RRID:AB_331805 |
| ITPR1-specific antibody (Rabbit Polyclonal Antibody) | Proteintech Group | Cat# 19962-1-AP; RRID:AB_10638786 |
| ITPKA-specific antibody (Rabbit Polyclonal Antibody) | Proteintech Group | Cat# 14270-1-AP; RRID:AB_2129841 |
| Anti-Poly(ADP-ribose) Monoclonal Antibody, Unconjugated, Clone 10H | Enzo Life Sciences | Cat# ALX-804-220-R100; RRID:AB_2052275 |
| Mouse Anti-Actin, beta Monoclonal Antibody, Unconjugated, Clone mAbcam 8226 | Abcam | Cat# ab8226; RRID:AB_306371 |
| Monoclonal Anti-Calbindin-D-28K antibody produced in mouse | Sigma Aldrich | Cat# C9848; RRID:AB_476894 |
| Rabbit anti-Calbindin (D1I4Q) | Cell Signaling | Cat# 13176; RRID:AB_2687400 |
| Anti-Glial Fibrillary Acidic Protein antibody produced in rabbit | Sigma Aldrich | Cat# G9269; RRID:AB_477035 |
| Mouse anti-Cav3.1 | Neuromab | Cat# 75-206; RRID:AB_2069421 |
| Rabbit anti-α-Tubulin (11H10) | Cell Signaling | Cat# 2125; RRID:AB_2619646 |
| Goat anti-mouse IgG (H+L) Cross-Absorbed Secondary Antibody, Alexa Fluor 594 | ThermoFisher | Ref# A-11005; RRID:AB_2534073 |
| Goat anti-rabbit IgG (H+L) Cross-Absorbed Secondary Antibody, Alexa Fluor 488 | ThermoFisher | Ref# A-11008; RRID:AB_143165 |
| Goat-anti mouse IgG (H+L) Superclonal™ Secondary Antibody, Alexa Fluor 488 | ThermoFisher | Cat# A28175; RRID:AB 2536161 |
| Goat anti-Rabbit IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 | ThermoFisher | Cat# A-11012; RRID:AB_2534079 |
| Peroxidase AffiniPure goat anti-rabbit IgG (H+L) | Jackson ImmunoResearch | Cat# 111-035-003; RRID:AB_2313567 |
| Peroxidase AffiniPure goat anti-mouse IgG (H+L) | Jackson ImmunoResearch | Cat# 115-035-003; RRID:AB_10015289 |
| Bacterial and Virus Strains | ||
| AAV2/5 CMVeGFP/BK | University of Iowa Viral Vector Core | UIowa-138 |
| AAV2/5 CMVmSlo1 | University of Iowa Viral Vector Core | Custom |
| pHage-SIRT1 lentivirus | University of California San Diego / Bennett and La Spada labs | N/A |
| pHage-SIRT1HY (enzymatically inactive) lentivirus | University of California San Diego / Bennett and La Spada labs | N/A |
| Biological Samples | ||
| Human SCA7 cerebellar brain sections | NAF Brain Bank | https://ataxia.org/ |
| Human healthy cerebellar brain sections | The University of Michigan Brain Bank | http://www.brainbank.umich.edu/ |
| Chemicals, Peptides, and Recombinant Proteins | ||
| TRIzol | ThermoFisher | Cat#15596026 |
| Tetrodotoxin citrate | Tocris | Cat# 1069; CAS: 18660-81-6 |
| Iberiotoxin | Alomone Labs | Cat# STI-400; CAS: 129203-60-7 |
| Picrotoxin | Sigma Aldrich | Cat# P1675; CAS: 124-87-8 |
| Mibefradil dihydrochloride hydrate | Sigma Aldrich | Cat# M5441; CAS: 116666-63-8 |
| Igepal CA-630 | Sigma Aldrich | Cat# I8896 |
| PhosSTOP | Sigma Aldrich | Cat# 4906845001 |
| cOmplete, EDTA-free Protease Inhibitor Cocktail | Sigma Aldrich | Cat# 4693132001 |
| cOmplete ULTRA mini protease inhibitor Cocktail | Roche | Cat# 5892791001 |
| Western Lightning ECL Pro | Perkin Elmer | Cat# NEL121001EA |
| GE Healthcare Amersham ECL Prime Western Blotting Detection Reagent | Denville Scientific | Cat #E3018 |
| Neurobasal-A Media | ThermoFisher | Cat# 10888022 |
| B27 serum-free supplement | ThermoFisher | Cat# 17504044 |
| Matrigel | BD Biosciences | Cat# 356234 |
| Prolong Gold anti-fade reagent | ThermoFisher | Cat# P36930 |
| 0.25% Trypsin- EDTA | ThermoFisher | Cat# 25200056 |
| Accutase | ThermoFisher | Cat# A1110501 |
| STEMdiff Neural Induction Medium | StemCell Technologies | Cat# 05835 |
| STEMdiff Neural Progenitor Medium | StemCell Technologies | Cat# 05833 |
| Hoechst 33342 | Life Technologies | Cat# H3570 |
| Thapsigargin | Sigma Aldrich | Cat# T9033; CAS# 67526-95-8 |
| L-ornithine | Sigma Aldrich | Cat# P4957; CAS# 27378-49-0 |
| Laminin | Sigma Aldrich | Cat# L4544-100 |
| RIPA Buffer | ThermoFisher | Cat# 89900 |
| Critical Commercial Assays | ||
| RNeasy Mini Kit | Qiagen | Cat# 74104 |
| Turbo DNA-free Kit | ThermoFisher | Cat# AM1907 |
| High-Capacity cDNA Reverse Transcriptase Kit | ThermoFisher | Cat# 4368814 |
| iScript cDNA Synthesis Kit | Bio-Rad | Cat# 1708890 |
| TaqMAN Universal Master Mix II | ThermoFisher | Cat# 4440040 |
| iQ SYBR Green Supermix | Bio-Rad | Cat# 1708882 |
| Pierce BCA Protein Assay Kit | ThermoFisher | Cat# 23225 |
| Fluo-4AM NW Calcium Assay Kit | ThermoFisher | Cat# F36206 |
| Dako EnVision Dual Link System-HRP | Agilent | Cat# K406189-2 |
| Dako DAB solution | Agilent | Cat# K346811-2 |
| Hematoxylin Stain+ | Fisher Scientific | Cat#220-100 |
| Deposited Data | ||
| Raw and analyzed RNA-Seq data | This paper | GEO: GSE139090 |
| Experimental Models: Cell Lines | ||
| Human: IPSC-derived neuron progenitor cells | Ward et al., 2019 | N/A |
| Experimental Models: Organisms/Strains | ||
| Mouse: mPRP-BAC-fxSCA92Q mice | Furrer et al., 2011 | N/A |
| Mouse: SCA7 266Q mice | Yoo et al., 2003 | N/A |
| Mouse: Sirt1STOP | Firestein et al., 2008 | N/A |
| Oligonucleotides | ||
| Kcnma1 SYBR Probe 5’- AGC CAA CGA TAA GCT GTG GT -3’ | IDT | N/A |
| Kcnma1 SYBR Probe 5’- AAT CTC AAG CCA AGC CAA CT -3’ | IDT | N/A |
| Cacna1g SYBR Probe 5’- GTC GCT TTG GGT ATC TTT GG -3’ | IDT | N/A |
| Cacna1g SYBR Probe 5’- TAC TCC AGC ATC CCA GCA AT -3’ | IDT | N/A |
| Gng13 Taqman Probe | ThermoFisher | Mm00458153_g1 |
| Atp2a3 Taqman Probe | ThermoFisher | Mm00443898_m1 |
| Itpr1 Taqman Probe | ThermoFisher | Mm004399907_m1 |
| Dagla Taqman Probe | ThermoFisher | Mm00813830_m1 |
| Itpka Taqman Probe | ThermoFisher | Mm00525139_m1 |
| Cacna1g Taqman Probe | ThermoFisher | Mm00486572_m1 |
| Grid2ip Taqman Probe | ThermoFisher | Mm00504815_m1 |
| Sirt1 Taqman Probe | ThermoFisher | Mm00490758_m1 |
| Nmnat1 Taqman Probe | ThermoFisher | Mm01257929_m1 |
| Nmnat2 Taqman Probe | ThermoFisher | Mm00615393_m1 |
| Nmnat3 Taqman Probe | ThermoFisher | Mm00513791_m1 |
| SIRT1 SYBR Probe 5’- CCT GGA CAA TTC CAG CCA TCT -3’ | IDT | N/A |
| SIRT1 SYBR Probe 5’- CAA CCT GTT CCA GCG TGT CT -3’ | IDT | N/A |
| PGC-1a SYBR Probe 5’- GTG GAC GCA AGC AAT TTT TC -3’ | IDT | N/A |
| PGC-1a SYBR Probe 5’- TTA CCT GCG CAA GCT TCT CT -3’ | IDT | N/A |
| Recombinant DNA | ||
| PPARGC1A Human shRNA Plasmid Kit (Locus ID 10891) | Origene | TG310260 |
| pBScMXT containing mSlo1 MBr5/3 | Larry Salkoff (through Addgene) | Cat# 16149 |
| pFBAAVCMVmcsBgHpA | University of Iowa Viral Vector Core | Cat# G0347 |
| Software and Algorithms | ||
| TopHat | Trapnell et al, 2009 | https://ccb.jhu.edu/software/tophat/index.shtml |
| Cufflinks | Trapnell et al, 2010 | http://cole-trapnell-lab.github.io/cufflinks/ |
| Genesis | Sturn et al, 2002 | https://genome.tugraz.at/genesisclient/genesisclient_download.shtml |
| NIS Elements | Nikon | https://www.microscope.healthcare.nikon.com/products/software/nis-elements |
| pClamp-10 | Molecular Devices | https://www.moleculardevices.com/ |
| Clampfit 10.2 | Molecular Devices | https://www.moleculardevices.com/ |
| SigmaPlot | Systat Software | https://systatsoftware.com/products/sigmaplot/ |
| oPPOSSUM 3.0 | Ho-Sui et al, 2005 | http://opossum.cisreg.ca/oPOSSUM3/ |
| OriginPro | OriginLab | https://www.originlab.com/index.aspx?go=Products/Origin |
| GraphPad Prism 6.0 | GraphPad | https://www.graphpad.com/scientific-software/prism/ |
| Fiji distribution of ImageJ | Schindelin et al, 2012 | https://fiji.sc/#download |
| FlowJo | FlowJo, LLC, Ashland, OR | https://www.flowjo.com/ |
| Other | ||