REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
anti-GFP	Abcam	ab290; RRID:AB_303395
anti-myc	Cell Signaling Technology	#2276; RRID:AB_331783
anti-mCherry	Novus NBP1	#96752; RRID:AB_11034849
anti-alpha tubulin	Sigma-Aldrich	T5168; RRID:AB_477579
anti-acetyl lysine	Cell Signaling	#9441; RRID:AB_331805
anti-dSir2	DSHB	p4A10; RRID:AB_1553778
anti-mouse HRP	Thermo Scientific	#31450, #31460; RRID:AB_228341
Veriblot HRP-coupled for IP detection	Abcam	ab131366
anti-Cathepsin-L	Abcam	ab58991; RRID:AB_940826
Normal Rabbit IgG	Cell Signaling	#2729; RRID:AB_1031062
anti-Sequoia	Gift from Prof. Y Jan	N/A
Histone H3 Antibody	Cell Signaling	#9715; RRID:AB_331563
anti-GABARAP	Abcam	ab109364; RRID:AB_10861928
anti-Atg1	Gift from Gabor Juhasz, Eotvos Lorand University, Budapest. (Nagy et al., 2014)	N/A
a-actin	Abcam	ab8227; RRID:AB_2305186
Bacterial and Virus Strains
BL21(DE3) Competent E.Coli	New England Biolabs	Cat#C2527I
SoluBL21™ Competent E.Coli	Ambio	C700200
Rosetta2(DEM3) Singles Competent Cells	Novagen	71400
Chemicals, Peptides, and Recombinant Proteins
EDTA-free protease inhibitor cocktails	Roche	5892791001
Deactylation inhibitors	Santa Cruz	sc-362323
Sepharose-coupled G-beads	Sigma-Aldrich	Cat#28-9670-66
LysoTracker™ Deep Red	Thermo Fisher Scientific	L12492
Glutathione-Sepharose 4 Fast Flow beads	Amersham Biosciences	Cat#17513201
Formaldehyde	Sigma-Aldrich	Cat#F8775
Protein A beads	GE Healthcare	28967062
GoTaq qPCR Master Mix	Promega	A6002
Critical Commercial Assays
PureLink™ RNA mini kit	Life Technologies	Cat#12183025
RevertAid Kit	Thermo Scientific	Cat#K1622
QuickChange site-directed mutagenesis	Stratagene	200523
Phusion High-Fidelity DNA Polymerase	Thermo Scientific	Cat#F-530XL
EasyTag™ L-[35S]-methionine	PerkinElmer Life Sciences	NEG709A500UC
Experimental Models: Organisms/Strains
w1118	Bloomington Drosophila stock center	#3605
Cg-GAL4	Bloomington Drosophila stock center	#7011
UAS-YL-1-RNAi	Bloomington Drosophila stock center	#31938
UAS-Sir2-myc	Bloomington Drosophila stock center	#44216
UAS-Sequoia-RNAi	Vienna Drosophila Resource Centre	#50146
Atg7Δ77	Gift from Gabor Juhasz, Eotvos Lorand University, Budapest. (Juhász et al., 2007)	N/A
Atg7Δ14	Gift from Gabor Juhasz, Eotvos Lorand University, Budapest. Juhász et al., 2007)	N/A
Sir22A-7-11	Bloomington Drosophila stock center	#8838
yw hs-flp; UAS-mCherry-Atg8a;Ac > CD2 > GAL4	Tusco et al. (2017)	N/A
UAS-GFP-Sequoia-WT	This paper; generated by P-element-mediated transformation (BestGene Inc)	N/A
UAS-GFP-Sequoia-LIRm (Y313A/316A)	This paper; generated by P-element-mediated transformation (BestGene Inc)	N/A
UAS-GFP-YL-1	This paper; generated by P-element-mediated transformation (BestGene Inc)	N/A
Atg9B5/CyO	Gift from Gabor Juhasz, Eotvos Lorand University, Budapest. (Kiss et al., 2020)	N/A
Atg9DF(ED2487)/GFP twi CyO	Gift from Gabor Juhasz, Eotvos Lorand University, Budapest. (Kiss et al., 2020)	N/A
Atg8a [KG07569]	(Scott et al., 2007)	N/A
UAS-Sequoia-RNAi	Bloomington Drosophila stock center	#51923
Oligonucleotides
Primers for mRNA Atg expression, see Table S1	This paper	N/A
Primers for Atg promotor region, see Table S1	This paper	N/A
Recombinant DNA
Plasmid: pPGW	Drosophila Genomics Resource Centre	1077
Gateway pDONR221 Vector	Thermo Scientific	Cat#12536017
Gateway™ pENTR™	Thermo Scientific	SKU#A10467
Software and Algorithms
iLIR database	Kalvari et al. (2014)	http://repeat.biol.ucy.ac.cy/iLIR
AtgCOUNTER (ImageJ/Fiji macro)	Jacomin and Nezis (2016)	https://imagej.nih.gov/ij/
PyMol	The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC.	https://pymol.org/2/