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hybridization kits  (TaKaRa)


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    Structured Review

    TaKaRa hybridization kits
    Hybridization Kits, supplied by TaKaRa, used in various techniques. Bioz Stars score: 95/100, based on 3734 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/in+solution+hybridization+kit/ExpressHyb+Hybridization+Solution/us12372530-294-5-12
    Average 95 stars, based on 3734 article reviews
    hybridization kits - by Bioz Stars, 2026-09
    95/100 stars

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    Related Articles

    Hybridization:

    Article Title: β-amylase and method for utilization and production thereof
    Article Snippet: .. The stringent conditions are commonly known by those skilled in the art, and examples thereof include conditions of hybridization at 68° C. in a commercially available hybridization solution, ExpressHyb Hybridization Solution (Takara Bio Inc.), or conditions of hybridization at about 65° C. in the presence of 0.7 M to 1.0 M NaCl and washing at about 65° C. with a 0.1 to 2×SSC solution (1×SSC solution: 150 mM NaCl, 15 mM sodium citrate, pH 7.0), using DNA immobilized on a filter. ..

    Article Title: YBX1 downregulation links to impaired spermatogonial stem cells function potentially through inhibiting miRNAs production
    Article Snippet: DNA oligonucleotides complementary to the target miRNAs were 5′-end 539 labeled with [γ-32P]ATP using T4 polynucleotide kinase (NEB). .. Hybridization was carried out at 58 °C in 540 ExpressHybTM Hybridization Solution (Takara). .. Subsequently, the membrane was washed with pre-warmed 541 buffer (2× SSC, 0.1% SDS) at 58 °C and exposed to a phosphor storage screen (GE).

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain
    Article Snippet: Clarity TM Western ECL Substrate , Bio-Rad , Cat# 1705060. .. ExpressHyb Hybridization Solution , Takara Bio , Cat# 636833. .. 10% Mini-PROTEAN , Bio-Rad , Cat# 4566033.

    Article Title: Antibody-pyrrolobenzodiazepine derivative conjugate which binds caludin-6 and claudin-9
    Article Snippet: .. In the present invention, “hybridize under stringent conditions” refers to hybridization in the commercially available hybridization solution ExpressHyb Hybridization Solution (Clontech) at 68° C., or hybridization using a filter with DNA fixed thereto in the presence of 0.7 to 1.0 M NaCl at 68° C. and washing at 68° C. with 0.1 to 2×SSC solution (1×SSC solution contains 150 mM NaCl and 15 mM sodium citrate), or hybridization under conditions equivalent thereto. ..

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    other:

    Article Title: tRF-3021a, a tRNA-Ala-TGC derived 3’ fragment, promotes glioblastoma cell invasion, suppresses apoptosis, and is required for normal levels of protein synthesis
    Article Snippet: Eluates were cleared using Costar Spin-X centrifuge tube filters (0.22 μm) (29442-752) and RNA was precipitated with isopropanol in the presence of GlycoBlue (Thermo Fisher Scientific, AM9516), then washed with 80% ethanol.

    Staining:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Blocking Assay:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Western Blot:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Membrane:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Single Cell:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Polymerase Chain Reaction:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    RNA Sequencing:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Sequencing:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Mass Spectrometry:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).

    Control:

    Article Title: The RNA exosome maintains cellular RNA homeostasis by controlling transcript abundance in the brain.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Rrp40 Pacific Immunology N/A Rabbit anti-Arc1 73 N/A Mouse anti-GAPDH ProteinTech Cat# 60004-1-Ig; RRID: AB_2107436 Mouse 4F3 anti-discs large Developmental Studies Hybridoma Bank RRID: AB_528203 Mouse 1D4 anti-Fasciclin II Developmental Studies Hybridoma Bank (Goodman, C.) N/A Mouse anti-nc82 Developmental Studies Hybridoma Bank (Buchner, E.) N/A Rabbit anti-GFP Cell Signaling Cat# 2956S Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21245; RRID: AB_2535813 Goat anti-Rabbit IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11034; RRID: AB_2576217 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 647 Thermo Fisher Scientific Cat# A-21236; RRID: AB_2535805 Goat anti-Mouse IgG (H + L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor TM 488 Thermo Fisher Scientific Cat# A-11029; RRID: AB_2534088 Goat Anti-Mouse IgG (H + L)-HRP Conjugate Bio-Rad Cat# #1706516 Goat anti-Rabbit IgG (H + L) Secondary Antibody, HRP Invitrogen Cat# 31466 Bacterial and virus strains NEB® Turbo Competent E. coli (High Efficiency) New England Biolabs Cat# C2984H DH5α Competent Cells Thermo Scientific Cat# EC0112 Chemicals, peptides, and recombinant proteins UltraPure TM 1M Tris-HCI, pH 8.0 Thermo Fisher Scientific Cat# 15568025 KCl (2 M), RNase-free Thermo Fisher Scientific Cat# AM9640G MgCl2 (1 M) Thermo Fisher Scientific Cat# AM9530G Triton TM X-100 Millipore Sigma Cat# T9284-100ML RNasin® Plus Ribonuclease Inhibitor Promega Cat# N2611 Protease Inhibitor Cocktail, 50X Promega Cat#G6521 DL-Dithiothreitol solution Millipore Sigma Cat# 43816-10ML Albumin, Bovine Serum, Fraction V, Fatty Acid-Free, Nuclease- and Protease-Free EMD Millipore Cat# 126609-5GM Debris Removal Solution Miltenyi Biotec Cat# 30-109-398 32% Paraformaldehyde (formaldehyde) aqueous solution, (1) 100 mL bottle Electron Microscopy Sciences Cat#15714-S Corning® 10X PBS, pH 7.4 VWR Cat# 45001-130 Tween® 20 Millipore Sigma Cat# P9416-100ML SSC Buffer, 20X Solution, 1 L Research Products International Cat# S24022–1000.0 ProLong TM Gold Antifade Mountant Thermo Fisher Scientific Cat# P36934 Trizol TM Reagent Thermo Scientific Cat# 15596026 E. coli Poly(A) Polymerase New England Biolabs Cat# #M0276S Sucrose ACS 500g EMD Millipore Cat# SX1075-1 Caffeine Powder Sigma Aldrich Cat# CO750-500G (Continued on next page) Cell Reports 45, 116729, January 27, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER 4–20% Mini-PROTEAN® TGX Stain-Free TM Protein Gels, 12 well, 20 μL #4568095 Bio-Rad Cat# 456-8095 Everyblot Blocking Buffer Bio-Rad Cat# 12010020 Clarity TM Western ECL Substrate Bio-Rad Cat# 1705060 ExpressHyb Hybridization Solution Takara Bio Cat# 636833 10% Mini-PROTEAN Bio-Rad Cat# 4566033 Hybond-N+ membrane Cytiva Cat# RPN119B Licor IRDye 800CW DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50000 Licor IRDye 680RD DBCO Infrared Dye, 0.5 mg LICORbio Cat# 929-50005 Invitrogen ambion SDS, 20% Solution Thermo Scientific Cat# AM9820 Critical commercial assays Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10X Genomics PN-1000213 Qubit TM RNA BR Assay Kit Thermo Fisher Scientific Q33216 HCR TM Probe (v3.0) Organism: Fruit Fly Target: Arc1 CDS Molecular Instruments N/A HCR TM IF Kit 2 ◦ Antibody Probe Donkey Anti-Mouse Molecular Instruments N/A Methyl Alcohol, Anhydrous Avantor Cat# 3041-10 PCR-cDNA barcoding kit Oxford Nanopore Technologies Cat# SQK-PCB114.24 Trans-Blot Turbo RTA Mini 0.2 μm Nitrocellulose Transfer Kit, for 40 blots Bio-Rad Cat# #1704270 Deposited data FASTQ reads for single-nucleus RNA-seq of Drosophila fly heads This study GSE280166 FASTQ reads for Nanopore PCR-cDNA sequencing of Drosophila fly heads This study PRJNA1179429 Raw and processed mass spectrometry data This study MSV000099840; PXD070589 Experimental models: Organisms/strains D. melanogaster: R13F02-Gal4 BDSC RRID: BDSC_68383 D. melanogaster: elav-Gal4 BDSC RRID: BDSC_458 D. melanogaster: nSyb-Gal4 BDSC RRID: BDSC_51635 D. melanogaster: UAS-Arc1.WT BDSC RRID: BDSC_37532 D. melanogaster: UAS-EXOSC3.WT Morton et al. 39 N/A D. melanogaster: attP40 (control TRiP RNAi) BDSC RRID: BDSC_36304 D. melanogaster: 40XUAS-IVS-mCD8:GFP BDSC RRID: BDSC_32195 D. melanogaster: UAS-Rrp40 RNAi BDSC RRID: BDSC_62834 D. melanogaster: UAS-Arc1 RNAi BDSC RRID: BDSC_25954 D. melanogaster: Arc1 esm113 BDSC RRID: BDSC_37531 D. melanogaster: Rrp40-G11A/G11A Bestgene Inc. N/A D. melanogaster: Rrp40-G146C/G146C Bestgene Inc. N/A D. melanogaster: Rrp40-WT/WT Bestgene Inc. N/A Oligonucleotides Primer: Rrp40 upstream -Forward: GGC AGT GTT GGA AAG TCC T This study N/A Primer: Rrp40 upstream -Reverse: GAA GAA GAA TCC ATC GGT GAG G Primer: Rrp40 downstream -Forward: TTT ACG CGA GAG TCC TGA ATG Primer: Rrp40 downstream -Reverse: CTT CCA TCT GCT CAT CTC TGA TAG (Continued on next page) 18 Cell Reports 45, 116729, January 27, 2026 .. All crosses were maintained under standard conditions at 25 ◦ C using a standard agar/dextrose/corn meal/yeast media Stocks used in this study include: R13F02>Gal4, elav>Gal4 (BDSC #48571), nSyb>Gal4 (BDSC #51635), UAS-Arc1.WT (BDSC #37532), Arc1 esm113 (BDSC # 37531), UAS-EXOSC3-myc (generated at Bestgene, Inc. (CA)), UAS-GFP (BDSC #32195), and the RNA knockdown lines: Control TRiP RNAi (BDSC#36304), UAS-Rrp40 RNAi (TRiP HMJ23923, BDSC #62834), and UAS-Arc1 RNAi (TRiP JF01974, #25954) were obtained from the Bloomington Drosophila Stock Center (Indiana, US).



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