Table 1.
Key reagents.
| Name | Source | Identifier |
|---|---|---|
| Antibodies | ||
| ATG16L1 | MBL | M150-3 |
| ATG4B | Sigma | A2981 |
| ATP5F1A/ATP5α | abcam | Ab14748 |
| CASP3 | Cell Signaling Technology | 9662 |
| Cleaved CASP3 | Cell Signaling Technology | 9664 |
| CASP7 | Cell Signaling Technology | 9492 |
| CD63 (WB) | Thermo Fisher | Ts63 |
| CD63 (IF, WB) | Santa Cruz Biotechnology | sc-MX-49.129.5 |
| CD9 (Mouse) | Santa Cruz Biotechnology | sc-13,118 |
| CD9 (Rabbit) | Cell Signaling Technology | 13174S |
| GAPDH | Novus Biologicals | NB100–56,875 |
| HSP90AA1 | Abcam | ab13492 |
| ERN1/IRE1a | Cell Signaling Technology | 3294S |
| LMNA/lamin A/C | Cell Signaling Technology | 2032 |
| LAMP2 (IF, WB) | Hybridoma bank | H4B4 |
| SDCBP/syntenin-1 | Abcam | Ab133267 |
| TAX1BP1 | Cell Signaling Technology | 5105S |
| TSG101 | Sigma | T5701 |
| GABARAP (IF, WB) | MBL | M135–3 |
| GABARAPL2 | Abcam | Ab126607 |
| NDP52 | Abcam | 68,588 |
| MAP1LC3A | Cell Signaling Technology | 4599S |
| MAP1LC3B (LC3B) (WB) | Abcam | AB48394 |
| MAP1LC3B (LC3B) (IF) | Cell Signaling Technology | 3868 |
| SQSTM1/p62 | Sigma | P0067 |
| ULK1 | Cell Signaling Technology | 8054S |
| ACTB/β-actin | Abcam | Ab6276 |
| Anti-Mouse IgG, HRP-linked | Cell Signaling Technology | 7076S |
| Anti-Rabbit IgG, HRP-linked | Cell Signaling Technology | 7074S |
| Alexa Fluor 488 Goat anti-rabbit IgG | Invitrogen | A-11034 |
| Alexa Fluor 568 Goat anti-rabbit IgG | Invitrogen | A-11011 |
| Alexa Fluor 647 Goat anti-rabbit IgG | Invitrogen | A-21244 |
| Alexa Fluor 488 Goat anti-mouse IgG | Invitrogen | A-11001 |
| Alexa Fluor 568 Goat anti-mouse IgG | Invitrogen | A-11004 |
| Alexa Fluor 647 Goat anti-mouse IgG | Invitrogen | A-21235 |
| Oligonucleotides | ||
| ATG4B CRISPR gRNA1: TCCTGTCGATGAATGCGTTG | Addgene | 1000000048 |
| ATG4B CRISPR gRNA2: TCCTCAACGCATTCATCGAC | Addgene | 1000000048 |
| ATG16L1 CRISPR gRNA1: CTTCCCAAAGCTTAACCCTG | Addgene | 1000000048 |
| ATG16L1 CRISPR gRNA2: GAATAACCAAATGCAGCGGA | Addgene | 1000000048 |
| GABARAP CRISPR gRNA1: CCTGGACAAAAAGAAATACC | Addgene | 1000000048 |
| GABARAP CRISPR gRNA2: GGATCTTCTCGCCCTCAGAG | Addgene | 1000000048 |
| MAP1LC3B CRISPR gRNA1: TTCAAGCAGCGCCGCACCTT | Addgene | 1000000048 |
| MAP1LC3B CRISPR gRNA2: GTGAGCTCATCAAGATAATT | Addgene | 1000000048 |
| ULK1 CRISPR gRNA: AGCCATGCGCACGCTGAGCG | Addgene | 1000000048 |
| Recombinant DNA | ||
| pSpCas9(BB)-2A-Puro (PX459) | Addgene | 48139 |
| pLENTI-hATG16L1β | [26] | N/A |
| pLENTI-hATG16L1α | [26] | N/A |
| pLENTI-hATG16L1 aa1-249 | [26] | N/A |
| psPAX2 | Addgene | 12260 |
| pCMV-VSV-G | Addgene | 8454 |
| pCT-CD63-GFP | Dr. Cathie Garnis, BCCRI | N/A |
Note: Addgene 1000000048 and 48,39 were deposited by Feng Zhang; Addgene 12260 was deposited by Didier Trono; Addgene 8454 was deposited by Bob Weinberg.