| Gene (Drosophila melanogaster) |
BNIP3 |
GenBank |
FLYB:FBgn0037007 |
|
| Gene (Drosophila melanogaster) |
Atg18a |
GenBank |
FLYB:FBgn0035850 |
|
| Gene (Drosophila melanogaster) |
Atg17 (FIP200) |
GenBank |
FLYB:FBgn0037363 |
|
| Gene (Drosophila melanogaster) |
Stx17 |
GenBank |
FLYB:FBgn0035540 |
|
| Gene (Drosophila melanogaster) |
Atg101 |
GenBank |
FLYB:FBgn0030960 |
|
| Strain, strain background (Escherichia coli) |
DH5α |
Nippon Gene |
Cat# 314-06234 |
Competent cells |
| Antibody |
anti-ATP5A (Mouse monoclonal) |
Abcam |
Cat# ab14748, RRID:AB_301447
|
IF (1:300) |
| Antibody |
anti-HA (Rat monoclonal) |
Roche |
Cat# 11867423001, RRID:AB_390918
|
WB (1:1000) |
| Antibody |
anti-GFP (Rabbit polyclonal) |
MBL |
Cat#598, RRID:AB_591816
|
WB (1:2000) |
| Antibody |
anti- Fibrillarin (Rabbit polyclonal) |
Abcam |
Cat# ab5821, RRID:AB_2105785
|
IF (1:300) |
| Antibody |
anti-rabbit IgG Alexa Fluor 594 conjugate (Goat polyclonal) |
Thermo Fisher Scientific |
Cat# A11012, RRID:AB_2534079
|
IF (1:400) |
| Antibody |
anti-mouse IgG Alexa Fluor 488 conjugate (Goat polyclonal) |
Thermo Fisher Scientific |
Cat# A11001, RRID:AB_2534069
|
IF (1:400) |
| Antibody |
anti-mouse IgG Alexa Fluor 594 conjugate (Goat polyclonal) |
Thermo Fisher Scientific |
Cat# A11005, RRID:AB_2534073
|
IF (1:400) |
| Antibody |
HRP-conjugated AffiniPure Goat Anti-Rabbit IgG (Goat polyclonal) |
Jackson ImmunoResearch |
Cat# 111-035-144, RRID:AB_2307391
|
WB (1:10,000) |
| Antibody |
AffiniPure Donkey Anti-Rat IgG (Donkey polyclonal) |
Jackson ImmunoResearch |
Cat# 712-005-153, RRID:AB_2340631
|
WB (1:5000) |
| Recombinant DNA reagent |
RE48077 (plasmid) |
DGRC |
DGRC Stock Number:9148 RRID:DGRC_9148
|
BNIP3 cDNA |
| Recombinant DNA reagent |
pUASt-attB-GFP (plasmid) |
This paper |
|
Backbone for UAS constructs with GFP. |
| Recombinant DNA reagent |
pUASt-attB-GFP-BNIP3_full (plasmid) |
This paper |
|
Plasmid construct of GFP-tagged full-length BNIP3 under UAS control. |
| Recombinant DNA reagent |
pUAST-attB-BNIP3_ΔLIR (plasmid) |
This paper |
|
GFP-BNIP3 construct with mutations in LIR motif (W16A/L19A). |
| Recombinant DNA reagent |
pUAST-attB-BNIP3_MERmut (L49A) (plasmid) |
This paper |
|
GFP-BNIP3 construct with mutation in MER motif (L49A). |
| Recombinant DNA reagent |
pUAST-attB-BNIP3_ΔMER (plasmid) |
This paper |
|
GFP-BNIP3 construct with deletion in MER motif (G42 to Q53). |
| Recombinant DNA reagent |
pUAST-attB-BNIP3_ΔLIR+ΔMER (plasmid) |
This paper |
|
GFP-BNIP3 construct with mutations in LIR and deletion in MER motifs. |
| Recombinant DNA reagent |
pMRX-IRES-puro-GFP-BNIP3_full (plasmid) |
This paper |
|
Mammalian expression construct encoding full-length dmBNIP3. |
| Recombinant DNA reagent |
pMRX-IRES-puro-GFP-BNIP3_ΔMER (plasmid) |
This paper |
|
Mammalian expression construct encoding ΔMER dmBNIP3. |
| Recombinant DNA reagent |
LD38705 (plasmid) |
DGRC |
DGRC Stock Number:2722 RRID:DGRC_2722
|
Atg18a cDNA |
| Recombinant DNA reagent |
pMRX-IRES-puro-3xHA-mCh-Atg18a (plasmid) |
This paper |
|
Mammalian expression construct encoding 3xHA-mCherry-dmAtg18a. |
| Sequence-based reagent |
Forward primer for BNIP3 CDS |
This paper |
PCR primers |
5′-ATGTCTACGACACCAAAATCGAG-3′ |
| Sequence-based reagent |
Reverse primer for BNIP3 CDS |
This paper |
PCR primers |
5′-TCAGTCAATGACCACACGG-3′ |
| Sequence-based reagent |
Forward primer for plasmid construction of pUASt-attB-GFP-BNIP3_full |
This paper |
PCR primers |
5′-CGTGTGGTCATTGACTGAGCGGCCGCGGCTCGAGGGTACC-3′ |
| Sequence-based reagent |
Reverse primer for plasmid construction of pUASt-attB-GFP-BNIP3_full |
This paper |
PCR primers |
5′-TTGGTGTCGTAGACATGGTGAAGGGGGCGGCCGCGGAG-3′ |
| Sequence-based reagent |
Forward primer for ΔLIR in BNIP3 |
This paper |
PCR primers |
5′-CTGCGATCGAAGCGAGCACAACAGCTGCGATG-3′ |
| Sequence-based reagent |
Reverse primer for ΔLIR in BNIP3 |
This paper |
PCR primers |
5′-CTCGCTTCGATCGCAGATTCGCCCAGCAAATC-3′ |
| Sequence-based reagent |
Forward primer for MER mut (L49A) in BNIP3 |
This paper |
PCR primers |
5′-AGACTTGCGCGCGAGGCCCAGCGCGAG-3′ |
| Sequence-based reagent |
Reverse primer for MER mut (L49A) in BNIP3 |
This paper |
PCR primers |
5′-CTCGCGCGCAAGTCTCAGGTACTCCTC-3′ |
| Sequence-based reagent |
Forward primer for ΔMER in BNIP3 |
This paper |
PCR primers |
5′-CAACAATCGCGAGTCGAACCAGTCG-3′ |
| Sequence-based reagent |
Reverse primer for ΔMER in BNIP3 |
This paper |
PCR primers |
5′-GACTCGCGATTGTTGAATGGCAACGG-3′ |
| Sequence-based reagent |
Upstream gRNA for BNIP3 KO |
This paper |
gRNA |
5′-CGTCAACACCAAAGATAACT[TGG]-3′ |
| Sequence-based reagent |
Downstream gRNA for BNIP3 KO |
This paper |
gRNA |
5′-CTTTCAGTCAATGACCACAC[GGG]-3′ |
| Sequence-based reagent |
Upstream gRNA for Atg101 KO |
This paper |
gRNA |
5′-GTCCACCTGACGACCCTCCA[TGG]-3′ |
| Sequence-based reagent |
Downstream gRNA for Atg101 KO |
This paper |
gRNA |
5′-CTCGCAATGTGACGGGCTGT[CGG]-3′ |
| Commercial assay or kit |
ReliaPrep RNA Miniprep Systems |
Promega |
Cat#: Z6111 |
|
| Commercial assay or kit |
MEGAscript T7 kit |
Thermo Fisher Scientific |
Cat#: AM1334 |
|
| Commercial assay or kit |
RNA 6000 Pico Kit |
Agilent |
Cat#: 5067–1513 |
|
| Commercial assay or kit |
FluorSave reagent |
Merck Millipore |
Cat#: 345789 |
|
| Commercial assay or kit |
KOD One PCR Master Mix |
TOYOBO |
Cat#: KMM-101 |
|
| Commercial assay or kit |
PrimeSTAR GXL Premix |
Takara Bio |
Cat#: R051A |
|
| Commercial assay or kit |
Can Get Signal Solution 1 |
TOYOBO |
Cat#: NKB-201 |
|
| Commercial assay or kit |
Clarity Western ECL Substrate |
Bio-Rad |
Cat#: 1705060 |
|
| Commercial assay or kit |
jetPRIME transfection reagent |
Polyplus-transfection |
Cat#: 101000015 |
|
| Chemical compound, drug |
Epon 812 |
TABB |
Cat#: 342 |
|
| Chemical compound, drug |
Protease Inhibitor Cocktail |
Nacalai Tesque |
Cat#: 03969-34 |
|
| Software, algorithm |
HISAT2 |
Johns Hopkins University |
RRID:SCR_015530
|
|
| Software, algorithm |
featureCounts |
PMID:24227677
|
RRID:SCR_012919
|
|
| Software, algorithm |
UMI-tools |
PMID:28100584
|
RRID:SCR_017048
|
|
| Software, algorithm |
DESeq2 |
Bioconductor |
RRID:SCR_015687
|
|
| Software, algorithm |
pheatmap |
CRAN |
RRID:SCR_016418
|
|
| Software, algorithm |
prcomp |
R base package |
|
|
| Software, algorithm |
Mfuzz |
Bioconductor |
RRID:SCR_000523
|
|
| Software, algorithm |
FLUOVIEW |
EVIDENT |
|
|
| Software, algorithm |
ImageJ |
NIH |
RRID:SCR_003070
|
|
| Software, algorithm |
PyMOL |
Schrödinger |
RRID:SCR_000305
|
|
| Software, algorithm |
R programming language |
CRAN |
RRID:SCR_001905
|
|
| Software, algorithm |
AlphaFold Server |
DeepMind |
|
|
| Software, algorithm |
GraphPad Prism |
GraphPad |
RRID:SCR_002798
|
Version 9.5.1 |
| Other |
Alexa Fluor 633 Phalloidin |
Thermo Fisher Scientific |
Cat#: A22284 |
(1:200). |
| Other |
Bisbenzimide H33342 Fluorochrome Trihydrochloride DMSO Solution |
Nacalai Tesque |
Cat#: 04915-81 |
(1:10,000 dilution) |
| Other |
GFP-Trap Agarose |
Chromotek |
Cat#: gta |
|
