| Antibodies |
|
|
|
| Rabbit anti-Active Caspase-3 |
BD PharMingen (San Jose, CA) |
Cat# 559565; RRID:AB_397274 |
| Mouse anti-Acetylated α-tubulin |
Sigma Aldrich (San Luis, MO) |
Cat# T6793; RRID:AB_477585 |
| Rabbit anti-Acetylated α-tubulin |
Abcam (Cambridge, UK) |
Cat# ab179484 |
| Lectin PNA |
Life Technologies (Carlsbad, CA) |
Cat# L32460
|
| Mouse anti-Rhodopsin (1D4) |
Abcam (Cambridge, UK) |
Cat# ab5417; RRID:AB_304874 |
| Rabbit anti-Red/Green (L/M) Opsin |
Merck Millipore (Burlington, MA) |
Cat# AB5405; RRID:AB_177456 |
| Rabbit anti-Ataxin-3 (MJD) |
Kind gift from Dr. Paulson |
N/A |
| Rabbit anti-GCAP1 |
Kind gift from Dr. Mendez |
N/A |
| Mouse anti-Ezrin |
Abcam (Cambridge, UK) |
Cat# ab4069; RRID:AB_304261 |
| Rabbit anti-Dynamin-2 |
ThermoFisher Scientific (Waltham, MA) |
Cat# PA1–661; RRID:AB_2293040 |
| Mouse anti-GRK1 (D11) |
Abcam (Cambridge, UK) |
Cat# ab2776; RRID:AB_303289 |
| Rabbit anti-Cone Arrestin |
Merck Millipore (Burlington, MA) |
Cat# AB15282; RRID:AB_1163387 |
| Rabbit anti-PDE6C |
Abgent (San Diego, CA) |
Cat# AP9728c; RRID:AB_10616160 |
| Mouse anti-HA |
BioLegend (San Diego, CA) |
Cat# 901502; RRID:AB_2565007 |
| Mouse anti-GAPDH |
Abcam (Cambridge, UK) |
Cat# ab9484; RRID:AB_307274 |
| Rabbit anti-KEAP1 |
Proteintech (Rosemont, IL) |
Cat# 10503–2-AP; RRID:AB_2132625 |
| Rabbit anti-CUL3 |
Proteintech (Rosemont, IL) |
Cat# 11107–1-AP; RRID:AB_2086429 |
| Mouse anti-SQSTM1/p62 |
Abcam (Cambridge, UK) |
Cat# ab56416; RRID:AB_945626 |
| Mouse anti-α-tubulin |
Sigma Aldrich (San Luis, MO) |
Cat# T5168; RRID:AB_477579 |
| Rat anti-NRF2 |
Merck Millipore (Burlington, MA) |
Cat# MABE1799 |
| Rabbit anti-GFP |
Abcam (Cambridge, UK) |
Cat# ab290; RRID:AB_303395 |
| Rabbit anti-EEA1 |
Abcam (Cambridge, UK) |
Cat# ab2900; RRID:AB_2262056 |
| Mouse anti-RAB7 |
Abcam (Cambridge, UK) |
Cat# ab50533; RRID:AB_882241 |
| Rabbit anti-Dynein-2 |
Abcam (Cambridge, UK) |
Cat# ab122525; RRID:AB_11133051 |
| Alexa Fluor 633 Phalloidin |
Life Technologies (Carlsbad, CA) |
Cat# A22284 |
| Mouse anti-γ-tubulin |
Sigma Aldrich (San Luis, MO) |
Cat# T6557; RRID:AB_477584 |
|
| Experimental Models: Cell Lines |
|
|
|
| Human HEK293T |
ATCC |
Cat# CRL_3216; RRID:CVCL_0063 |
| Human ARPE-19 |
ATCC |
Cat# CRL_2302; RRID:CVCL_0145 |
|
| Experimental Models: Organisms/Strains |
|
|
|
| Mouse (Mus musculus): Atxn3 KO |
Reina et al., 2012
|
N/A |
| Zebrafish (Danio rerio): atxn3 WT |
This study |
N/A |
| Zebrafish (Danio rerio): atxn3 KD |
This study |
N/A |
| Mouse (Mus musculus): Atxn3 WT |
Reina et al., 2012
|
N/A |
|
| Oligonucleotides |
|
|
|
| Morpholino antisense oligonucleotide (MO-ATXN3) |
GeneTools (Philomath, OR) |
N/A |
| Morpholino antisense oligonucleotide (MO-SCR) |
GeneTools (Philomath, OR) |
N/A |
| siATXN3 |
Dharmacon (Lafayette, CO) |
J-012013–05–0002 |
| siATXN3 |
Dharmacon (Lafayette, CO) |
J-012013–06–0002 |
| siATXN3 |
Dharmacon (Lafayette, CO) |
J-012013–07–0002 |
| siATXN3 |
Dharmacon (Lafayette, CO) |
J-012013–08–0002 |
| SiSCR |
Dharmacon (Lafayette, CO) |
D-001810–01–05 |
| SiSCR |
Dharmacon (Lafayette, CO) |
D-001810–02–05 |
| Primer DNA oligos |
Merck KGaA (Germany) (for sequences, see Table S1) |
N/A |
|
| Software and Algorithms |
|
|
|
| GraphPad Prism (7.03) |
GraphPad Software (San Diego, CA) |
N/A |
| Statgraphics Centurion XVII Statistics |
Statgraphics Technologies, Inc. (The Plains, VA) |
N/A |
| Fiji software |
Schindelin et al., 2012
|
N/A |
| Imaris software |
Oxford Instruments plc (UK) |
N/A |
| Proteome Discoverer (v2.1) |
Thermo Fisher (Waltham, MA) |
N/A |
