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resource source identifier t4 ligase neb m0202 critical  (New England Biolabs)


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    New England Biolabs resource source identifier t4 ligase neb m0202 critical
    Resource Source Identifier T4 Ligase Neb M0202 Critical, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 33702 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/resource+source+identifier+critical/T4+DNA+Ligase/pm41546867-315-2-7
    Average 99 stars, based on 33702 article reviews
    resource source identifier t4 ligase neb m0202 critical - by Bioz Stars, 2026-10
    99/100 stars

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    Multiplex Assay:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Article Title: Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains Prevotella sp. nov. strain PINT (referred to as Prevotella intestinalis) This study DSMZ, Cat#DSM103738 Prevotella sp. nov. strain PROD (referred to as Prevotella rodentium) This study DSMZ, Cat#DSM103721 Prevotella sp. nov. strain PMUR (referred to as Prevotella muris) This study DSMZ, Cat#DSM103722 Chemicals, Peptides, and Recombinant Proteins Carboxymethyl Cellulose Megazyme Cat#P-CMC4M Pectin from Apples Fluka Cat#76282 Rhamnogalacturonan from soy bean Megazyme Cat#P-RHAGN starch from potato Sigma-Aldrich Cat#33615-250G Wheat Arabinoxylan RS Megazyme Cat#P-WAXYRS D-(+)-Glucose Sigma-Aldrich Cat#G8270-1KG D-(-)-Fructose Sigma-Aldrich Cat#F0127-100G L-(+)-Arabinose Sigma-Aldrich Cat#A3256-25G D-(+)-Xylose Sigma-Aldrich Cat#W360600 Brain Heart Infusion Oxoid Cat#CM1135 Bacto Agar BD Bioscience Cat#214010 Fetal Bovine Serum Sigma-Aldrich Cat#F7524 Menadione crystalline Sigma-Aldrich Cat#M5625-25G Sheep blood defibrinated Thermo Fisher Scientific Cat#SR0051E Bacto Casitone BD Bioscience Cat#225930 Yeast extract Carl Roth Cat#2363,3 NaCl Carl Roth Cat#3957,2 MgSO4 x 7H20 Carl Roth Cat#P027.2 Cacl2 Sigma-Aldrich Cat#223506-500G Hemin Sigma Cat#H9039-1G KH2PO4 Carl Roth Cat#3904,1 K2HPO4 Merck Cat#7758-11-4 NaHCO3 Merck Cat#6329 (NH4)2SO4 Sigma Cat#A4418-100G Biotin Sigma-Aldrich Cat#B4501-100MG Vitamin B12 Sigma Cat#V2876-250MG 4-Aminobenzoic acid Sigma Cat#A9878-5G Folic acid Sigma Cat#F7876-1G Pyrodoxine hydrochloride Sigma-Aldrich Cat#47862 thiamine Sigma Cat#T-4625 Riboflavin Sigma Cat#R-4500 Acetic acid Carl Roth Cat#3738,5 Propionic acid Sigma-Aldrich Cat#402907-100ML Isobutyric acid Sigma Cat#I1754-100ML Isovaleric acid Sigma-Aldrich Cat#129542-100ML n-valeric acid Sigma-Aldrich Cat#240370-100ML (Continued on next page) e1 Cell Host & Microbe 28, 1–15.e1–e6, December 9, 2020 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical Commercial Assays NEBNext Ultra DNA Library Prep Kit for Illumina New England Biolabs Cat#E7370S NEBNext Ultra Directional RNA Library Prep Kit for Illumina New England Biolabs Cat#E7420S NEBNext Multiplex Oligos for Illumina (Index Primers Set 1) New England Biolabs Cat#E7335S Ribo-Zero Gold rRNA Removal Kit (Epidemiology) (24 reactions) Illumina Cat#MRZE724 Agencourt AMPure XP Beads Beckman Coulter, Inc. Cat#A63880 Deposited Data Mouse Prevotella isolate genomes This study NCBI-BioProject: NCBI:PRJNA630669 Raw sequencing data This study NCBI-BioProject: NCBI:PRJNA630669 Code repository This study https://github.com/strowig-lab/galvez_ et_al_2020/ Human gut metagenome from distinct diets De Filippis et al., 2019 NCBI SRA: SRP126540 and SRP083099. ..

    Isolation:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Sample Prep:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Cell Isolation:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    SYBR Green Assay:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Polymerase Chain Reaction:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    CyQUANT Assay:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    LDH Cytotoxicity Assay:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Sequencing:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Article Title: Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains Prevotella sp. nov. strain PINT (referred to as Prevotella intestinalis) This study DSMZ, Cat#DSM103738 Prevotella sp. nov. strain PROD (referred to as Prevotella rodentium) This study DSMZ, Cat#DSM103721 Prevotella sp. nov. strain PMUR (referred to as Prevotella muris) This study DSMZ, Cat#DSM103722 Chemicals, Peptides, and Recombinant Proteins Carboxymethyl Cellulose Megazyme Cat#P-CMC4M Pectin from Apples Fluka Cat#76282 Rhamnogalacturonan from soy bean Megazyme Cat#P-RHAGN starch from potato Sigma-Aldrich Cat#33615-250G Wheat Arabinoxylan RS Megazyme Cat#P-WAXYRS D-(+)-Glucose Sigma-Aldrich Cat#G8270-1KG D-(-)-Fructose Sigma-Aldrich Cat#F0127-100G L-(+)-Arabinose Sigma-Aldrich Cat#A3256-25G D-(+)-Xylose Sigma-Aldrich Cat#W360600 Brain Heart Infusion Oxoid Cat#CM1135 Bacto Agar BD Bioscience Cat#214010 Fetal Bovine Serum Sigma-Aldrich Cat#F7524 Menadione crystalline Sigma-Aldrich Cat#M5625-25G Sheep blood defibrinated Thermo Fisher Scientific Cat#SR0051E Bacto Casitone BD Bioscience Cat#225930 Yeast extract Carl Roth Cat#2363,3 NaCl Carl Roth Cat#3957,2 MgSO4 x 7H20 Carl Roth Cat#P027.2 Cacl2 Sigma-Aldrich Cat#223506-500G Hemin Sigma Cat#H9039-1G KH2PO4 Carl Roth Cat#3904,1 K2HPO4 Merck Cat#7758-11-4 NaHCO3 Merck Cat#6329 (NH4)2SO4 Sigma Cat#A4418-100G Biotin Sigma-Aldrich Cat#B4501-100MG Vitamin B12 Sigma Cat#V2876-250MG 4-Aminobenzoic acid Sigma Cat#A9878-5G Folic acid Sigma Cat#F7876-1G Pyrodoxine hydrochloride Sigma-Aldrich Cat#47862 thiamine Sigma Cat#T-4625 Riboflavin Sigma Cat#R-4500 Acetic acid Carl Roth Cat#3738,5 Propionic acid Sigma-Aldrich Cat#402907-100ML Isobutyric acid Sigma Cat#I1754-100ML Isovaleric acid Sigma-Aldrich Cat#129542-100ML n-valeric acid Sigma-Aldrich Cat#240370-100ML (Continued on next page) e1 Cell Host & Microbe 28, 1–15.e1–e6, December 9, 2020 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical Commercial Assays NEBNext Ultra DNA Library Prep Kit for Illumina New England Biolabs Cat#E7370S NEBNext Ultra Directional RNA Library Prep Kit for Illumina New England Biolabs Cat#E7420S NEBNext Multiplex Oligos for Illumina (Index Primers Set 1) New England Biolabs Cat#E7335S Ribo-Zero Gold rRNA Removal Kit (Epidemiology) (24 reactions) Illumina Cat#MRZE724 Agencourt AMPure XP Beads Beckman Coulter, Inc. Cat#A63880 Deposited Data Mouse Prevotella isolate genomes This study NCBI-BioProject: NCBI:PRJNA630669 Raw sequencing data This study NCBI-BioProject: NCBI:PRJNA630669 Code repository This study https://github.com/strowig-lab/galvez_ et_al_2020/ Human gut metagenome from distinct diets De Filippis et al., 2019 NCBI SRA: SRP126540 and SRP083099. ..

    RNA Sequencing:

    Article Title: IL-15-dependent immune crosstalk between natural killer cells and dendritic cells in HIV-1 elite controllers.
    Article Snippet: Ragon Institute Biobank and MGH Blood Bank ragon.partners.org Chemicals, peptides, and recombinant proteins Concanavalin-A coated magnetic beads Bangs Labooratory Cat #: BP531 Digitonin Millipore Cat #: 300410 CUTANATM pAG-MNase for ChIC/CUT&RUN 50 Rxns Epicypher Cat #: 15-1016 IL-15 Miltenyi Cat #: 130-095-764 Brefeldin A BioLegend Cat #: 420601 Monensin BD Biosciences Cat #: 554724 Venetoclax Selleckchem Cat #: S8048 Poly(I:C) Invivogen Cat #: tlrl-pic-5 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific Cat #: L23105 FcR Blocking Reagent, human Miltenyi Cat #: 130-059-901 FOXP3 / Transcription factor staining buffer set Invitrogen/eBioscience Cat #: 00-5523-00 Paraformaldehyde solution 4% in PBS Affymetrix Cat #: 4243418 Distilled, deionized or RNAse-free H2O Promega Cat #: P1197 Manganese Chloride (MnCl2) Sigma Aldrich Cat #: 203734-5g Calcium Chloride (CaCl2) Fisher Scientific Cat #: BP510-100g Potassium Chloride (KCl) Sigma Aldrich Cat #: P3911-25g Hydroxyethyl piperazineethanesulfonic acid Sigma Aldrich Cat #: H3375-25g Sodium chloride (NaCl) Sigma Aldrich Cat #: S5150-1L Ethylenediaminetetraacetic acid (EDTA) Sigma Aldrich Cat #: E7889 Ethylene glycol-bis(b-aminoethyl ether)-N,N,N,N-tetraacetic acid (EGTA) Sigma Aldrich Cat #: E3889-10G Roche Complete Protease Inhibitor EDTA-Free tablets Sigma Aldrich Cat #: 11873580001 RNase A, DNase and protease-free (10 mg/ml) Thermo Fisher Scientific Cat #: EN0531 Agencourt AMPure XP magnetic beads Beckman Coulter Cat #: A63880 Sodium dodecyl sulfate (SDS) Sigma Aldrich Cat #: L4509-25G Proteinase K Thermo Fisher Scientific Cat #: EO0491 Phenol-chloroform-isoamyl alcohol Thermo Fisher Scientific Cat #: 15593031 Chloroform Sigma Aldrich Cat #: 366919-1L 1 M Tris-HCl pH 8.0 Fisher Scientific Cat #: AAJ22638AP 20 mg/ml Glycogen Sigma Aldrich Cat #: 10901393001 Agencourt RNAClean XP Beckman Coulter Cat #: A63987 SUPERase, InTM RNase Inhibitor (20 U/mL) Life Technologies Cat #: AM2696 SuperScriptTM III Reverse Transcriptase Life Technologies Cat #: 18080085 dNTP Mix (10 mM ea) Life Technologies Cat #: 18427088 Ethanol 200 Proof Decon Labs Cat #: 2716 Poly-D-Lysine Thermo Fisher Scientific Cat #: A3890401 (Continued on next page) 14 Cell Reports 42, 113530, December 26, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NEBNext Ultra II DNA Library prep Kit New England Biolabs Cat #: E7645S NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) New England Biolabs Cat #: E7600S NextSeq 500/550 High Output v2.5 kit Illumina Cat #: 20024906 PicoPure RNA isolation kit Applied Biosystems Cat #: KIT0204 Nextera XT DNA Sample Preparation Kit Illumina Cat #: FC-131-1096 Nextera XT Index kit Illumina Cat #: FC-131-1002 NK cell isolation kit Miltenyi Cat #: 130-092-657 Myeloid Dendritic Cells Isolation kit, Human Miltenyi Cat #: 130-094-487 Seahorse Glycolysis Stress Test Agilent Cat #: 103020-100 Quantitect SYBR Green PCR kit Qiagen Cat #: 204145 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat #: Q33231 High Sensitivity D1000 Reagents Agilent Technologies Cat #: 5067-5585 High Sensitivity D5000 Reagents Agilent Technologies Cat #: 5067-5593 CyQuant LDH Cytotoxicity Assay Invitrogen Cat #: C20301 Deposited data Cut&Run sequencing data This paper Omnibus GSE232916 RNA sequencing data This paper Omnibus GSE232916 Experimental models: Cell lines .. Oligonucleotides Primer: Il-15 Forward: CCGGA GATGCAAGTATTCATG This paper N/A Primer: Il-15 Reverse: CCTCA CATTCTTTGCATCCAG This paper N/A Primer: ACTB Forward: CTGGA ACGGTGAAGGTGACA This paper N/A Primer: ACTB Reverse: CGGC CACATTGTGAACTTTG This paper N/A Software and algorithms BD FACS Diva BD Biosciences N/A MACS2 Langmead et al.67 N/A DeepTools Zhang et al.68 N/A Diffbind Ramı́rez et al.69 N/A DESeq2 Risso et al.70 N/A Ingenuity Pathway Analysis Qiagen version 90348151 FlowJo Tree Star LLC version 10.5.3 Wave Agilent Technologies version 2.6.0 QuantStudioTM Real-Time PCR Software Thermo Fisher Scientific version 1.3 GraphPad Prism version 9.5.1 Other Biorender https://biorender.com N/A

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    Chromatin Immunoprecipitation:

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    RNA sequencing:

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    Mutagenesis:

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    Article Title: Activity-driven synaptic translocation of LGI1 controls excitatory neurotransmission
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Lgi1/EPT antibody Abcam Cat# ab30868; RRID: AB_776017 Mouse anti-GRIA1 antibody UC Davis/NIH NeuroMab Facility Cat# 75-327; RRID: AB_2877405 Goat Anti-Rabbit IgG (H + L)-HRP Conjugate BioRad Cat# 1706515; RRID: AB_11125142 Goat Anti-Mouse IgG (H + L)-HRP Conjugate BioRad Cat# 1706516; RRID: AB_11125547 V5 Tag Monoclonal Antibody Invitrogen Cat# R960-25; RRID: AB_2556564 Beta Actin Polyclonal Antibody Thermo Fisher Scientific Cat# PA5-85271; RRID: AB_2792414 Bacterial and virus strains FSW-HRP-V5-LRRTM1 PF iVector-ICM Addgene #82536 FSW-HRP-V5-LRRTM2 PF iVector-ICM Addgene #82537 Biological samples Human LGI1 antibodies Jena University Hospital licence # 2019-1415 -Material Chemicals, peptides, and recombinant proteins Bafilomycin A1 Cayman Chemical Company Item #11038 EGTA-AM Thermo Fisher Scientific E1219 Tetrodotoxin citrate (TTX) Tocris Cat #1069 Biotin-XX Tyramide Reagent (BxxP) ApexBio Technology Cat #A8012 Tetanus toxin from Clostridium tetani Sigma T3194 Recombinant Enhanced GFP protein (His tag) Abcam ab134853 Papain Worthington Biochemical LK003178 DNase I Roche 10104159001 Poly-D-lysine Sigma P2636 MEM, no glutamine, no phenol red Thermo Fisher Scientific 51200038 N21-MAX Media Supplement (50X) Bio-Techne AR008 Transferrin Sigma 616420 Glutamax Thermo Fisher Scientific 35050038 Insulin Sigma I6634 Cytosine b-d-arabinofuranoside Sigma C1768 NeurobasalTM Medium Thermo Fisher Scientific 21103049 BrainPhysTM Neuronal Medium and SM1 Kit STEMCELL Technologies 05792 50-fluoro-20-deoxyuridine (FUDR) Fisher Scientific 10144760 6-cyano-7-nitroquinoxaline-2,3-dione (CNQX) Tocris 1045 D-( )-2-Amino-5-phosphonopentanoic acid (AP5) Tocris 0106 MES (2-(N-morpholino)ethanesulfonic acid) Sigma M3671 ProLongTM Glass Antifade Mountant Thermo Fisher Scientific P36982 LipofectamineTM 2000 Transfection Reagent Thermo Fisher Scientific 11668019 Chloroquine diphosphate salt, 98% Thermo Fisher Scientific 455245000 PierceTM Streptavidin Magnetic Beads Thermo Fisher Scientific 88817 Biotin Sigma B4501 DL-Dithiothreitol (DTT) Sigma D9779 ClarityTM Western ECL Substrate BioRad 1705060 Clarity Max Western ECL Substrate BioRad 1705062 (Continued on next page) 20 Cell Reports 43, 114186, May 28, 2024 Article ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Q5 Site-Directed Mutagenesis Kit New England Biolabs E0552 PierceTM High Sensitivity Streptavidin-HRP Thermo Fisher Scientific 21130 NEBuilder HiFi DNA Gibson Assembly Master Mix New England Biolabs E2621 p24 ZeptoMetrix Kit Sigma 0801111 Experimental models: Cell lines HEK293T cells ATCC CRL-11268 Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Strain: Crl:CD(SD) Oligonucleotides See Table S2 for oligonucleotides used for site-directed mutagenesis This paper N/A Recombinant DNA CamKII-LGI1-pHluorin This paper Addgene Plasmid #185537 CamKII-LGI1-S473L-pHluorin This paper Addgene Plasmid #185540 CamKII-LGI1-Y433A-pHluorin This paper Addgene Plasmid #185541 CamKII-LGI1-R474Q-pHluorin This paper Addgene Plasmid #185542 CamKII-LGI1-T380A-pHluorin This paper Addgene Plasmid #185543 CamKII-LGI1-E383A-pHluorin This paper Addgene Plasmid #185544 CamKII-LGI1-C200R-pHluorin This paper Addgene Plasmid #185545 CamKII-LGI1 (no tags) This paper N/A vGlut-pH Gift from Timothy A. Ryan34 N/A vGlut-mOrange-2 Hoppa et al., 201280 N/A iGluSnFR3 Aggarwal et al.58 Addgene Plasmid #178330 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pKanCMV-mRuby3-18aa-actin Bajar et al.86 Addgene plasmid #74255 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 CamKII-ADAM23-pHluorin This paper Addgene Plasmid #185539 pGP-AAV-syn-jGCaMP8f-WPRE Zhang et al.55 Addgene Plasmid #162376 CamKII-LGI1-pHmScarlet This paper Addgene Plasmid #185538 CamKII-LGI1-R474Q-pHmScarlet This paper N/A CamKII-LGI1-T380A-pHmScarlet This paper N/A CamKII-LGI1-E383A-pHmScarlet This paper N/A pCAGGS-SNAP25DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-SNAP29DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx1ADC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx4DC-IRES-mCherry Ibata et al., 201943 N/A CMV-IgK-pHluorin-TM-mRuby This paper Addgene Plasmid #185546 ER-pHluorin de Juan-Sanz et al., 201736 N/A FSW-HRP-V5-LRRTM2 Loh et al.52 Addgene Plasmid #82537 FSW-HRP-V5-LRRTM1 Loh et al.52 Addgene Plasmid #82536 pAAV-CaMKII-Archon1-EGFP Piatkevich et al.60 Addgene Plasmid #108417 hSyn-NPY-pHluorin Gift from Ruud F Toonen Persoon et al. 87 N/A VAMP2-pHmScarlet Gift from Pingyong Xu Liu et al.54 Addgene plasmid #166890 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 (Continued on next page) Cell Reports 43, 114186, May 28, 2024 21 Article ll OPEN ACCESS .. Plasmids generated in this study are available at Addgene.org, as indicated in the key resources table.

    Software:

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    Methylation:

    Article Title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Epitect bisulfite conversion kit Qiagen E7335S NEB Next II library preparation kit NEB E7645 Scriptseq RNA-seq kit Epicentre SSV21124 Ribo-zero kit Illumina MRZPL1224 NEB next indexing primers NEB E7335S charge switch genomic DNA columns Thermo-Fisher CS11203 Epitect fast bisulfite conversion kit Qiagen 59802 Deposited data ChIP-seq data (Choi et al.)49 GSE179796 met1 and h1met1 bs-seq data (Choi et al.)49 GSE122394 Bisulfite and RNA-sequencing This study GSE197718 h1 bs-seq and nucleosome data (Lyons and Zilberman)47 GSE96994 H2A.W ChIP, ddm1 x Col-0 bs-seq, and RNA-seq (Osakabe et al.)59 GSE150436 ddm1 G9 (F10) bs-seq data (Ito et al.)68 DRS019614 Experimental models: Organisms/strains h1.1 tDNA mutant Arabidopsis thaliana ABRC SALK_128430C h1.2 tDNA mutant Arabidopsis thaliana GABI-KAT GABI_406H11 ddm1.10 tDNA mutant Arabidopsis thaliana ABRC SALK_093009.30.45.x cmt2-3 tDNA mutant Arabidopsis thaliana ABRC SALK_012874 cmt3-11 tDNA mutant Arabidopsis thaliana ABRC SALK 148381 drm2-2 tDNA mutant Arabidopsis thaliana ABRC SALK 150863 Software and algorithms bsmap (Xi and Li)86 N/A bismark (Krueger and Andrews)87 N/A bedtools (Quinlan and Hall)88 N/A kallisto (Bray et al.)89 N/A sleuth (Pimentel et al.)58 N/A hisat2 (Kim et al.)90 N/A IGV (Robinson et al.)91 N/A Stringtie (Pertea et al.)56 N/A TE methylation simulation code This study https://doi.org/10.5281/ zenodo.7308320 ..

    other:

    Article Title: Activity-driven synaptic translocation of LGI1 controls excitatory neurotransmission.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER CamKII vector Gift from Edward Boyden Chow et al. 88 Addgene Plasmid #22217 Vesicular stomatitis virus G glycoprotein Gift from Irving WeissmanHaselmann et al. 89 Addgene Plasmid #14888 Software and algorithms ImageJ NIH Schneider et al. 90 https://imagej.nih.gov/ij/ GraphPad Prism 8 GraphPad Software https://www.graphpad.com/ scientific-software/prism/ R R-project https://www.r-project.org RStudio RStudio https://www.rstudio.com Biorender Biorender https://www.biorender.com/ Other ChemiDocTM Touch Imaging System BioRad 1708374 Custom-built laser illuminated epifluorescence Microscope Axio Observer 3 ZEISS N/A iXon Ultra camera Andor - Oxford Instruments #DU-897U-CSO-#BV OasisTM UC160 Cooling System Solid State Cooling Systems UC160 Imaging chamber Warner Instruments RC-21BRFS Feedback loop temperature controller Warner Instruments TC-344C

    Recombinant:

    Article Title: Activity-driven synaptic translocation of LGI1 controls excitatory neurotransmission
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Lgi1/EPT antibody Abcam Cat# ab30868; RRID: AB_776017 Mouse anti-GRIA1 antibody UC Davis/NIH NeuroMab Facility Cat# 75-327; RRID: AB_2877405 Goat Anti-Rabbit IgG (H + L)-HRP Conjugate BioRad Cat# 1706515; RRID: AB_11125142 Goat Anti-Mouse IgG (H + L)-HRP Conjugate BioRad Cat# 1706516; RRID: AB_11125547 V5 Tag Monoclonal Antibody Invitrogen Cat# R960-25; RRID: AB_2556564 Beta Actin Polyclonal Antibody Thermo Fisher Scientific Cat# PA5-85271; RRID: AB_2792414 Bacterial and virus strains FSW-HRP-V5-LRRTM1 PF iVector-ICM Addgene #82536 FSW-HRP-V5-LRRTM2 PF iVector-ICM Addgene #82537 Biological samples Human LGI1 antibodies Jena University Hospital licence # 2019-1415 -Material Chemicals, peptides, and recombinant proteins Bafilomycin A1 Cayman Chemical Company Item #11038 EGTA-AM Thermo Fisher Scientific E1219 Tetrodotoxin citrate (TTX) Tocris Cat #1069 Biotin-XX Tyramide Reagent (BxxP) ApexBio Technology Cat #A8012 Tetanus toxin from Clostridium tetani Sigma T3194 Recombinant Enhanced GFP protein (His tag) Abcam ab134853 Papain Worthington Biochemical LK003178 DNase I Roche 10104159001 Poly-D-lysine Sigma P2636 MEM, no glutamine, no phenol red Thermo Fisher Scientific 51200038 N21-MAX Media Supplement (50X) Bio-Techne AR008 Transferrin Sigma 616420 Glutamax Thermo Fisher Scientific 35050038 Insulin Sigma I6634 Cytosine b-d-arabinofuranoside Sigma C1768 NeurobasalTM Medium Thermo Fisher Scientific 21103049 BrainPhysTM Neuronal Medium and SM1 Kit STEMCELL Technologies 05792 50-fluoro-20-deoxyuridine (FUDR) Fisher Scientific 10144760 6-cyano-7-nitroquinoxaline-2,3-dione (CNQX) Tocris 1045 D-( )-2-Amino-5-phosphonopentanoic acid (AP5) Tocris 0106 MES (2-(N-morpholino)ethanesulfonic acid) Sigma M3671 ProLongTM Glass Antifade Mountant Thermo Fisher Scientific P36982 LipofectamineTM 2000 Transfection Reagent Thermo Fisher Scientific 11668019 Chloroquine diphosphate salt, 98% Thermo Fisher Scientific 455245000 PierceTM Streptavidin Magnetic Beads Thermo Fisher Scientific 88817 Biotin Sigma B4501 DL-Dithiothreitol (DTT) Sigma D9779 ClarityTM Western ECL Substrate BioRad 1705060 Clarity Max Western ECL Substrate BioRad 1705062 (Continued on next page) 20 Cell Reports 43, 114186, May 28, 2024 Article ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Q5 Site-Directed Mutagenesis Kit New England Biolabs E0552 PierceTM High Sensitivity Streptavidin-HRP Thermo Fisher Scientific 21130 NEBuilder HiFi DNA Gibson Assembly Master Mix New England Biolabs E2621 p24 ZeptoMetrix Kit Sigma 0801111 Experimental models: Cell lines HEK293T cells ATCC CRL-11268 Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Strain: Crl:CD(SD) Oligonucleotides See Table S2 for oligonucleotides used for site-directed mutagenesis This paper N/A Recombinant DNA CamKII-LGI1-pHluorin This paper Addgene Plasmid #185537 CamKII-LGI1-S473L-pHluorin This paper Addgene Plasmid #185540 CamKII-LGI1-Y433A-pHluorin This paper Addgene Plasmid #185541 CamKII-LGI1-R474Q-pHluorin This paper Addgene Plasmid #185542 CamKII-LGI1-T380A-pHluorin This paper Addgene Plasmid #185543 CamKII-LGI1-E383A-pHluorin This paper Addgene Plasmid #185544 CamKII-LGI1-C200R-pHluorin This paper Addgene Plasmid #185545 CamKII-LGI1 (no tags) This paper N/A vGlut-pH Gift from Timothy A. Ryan34 N/A vGlut-mOrange-2 Hoppa et al., 201280 N/A iGluSnFR3 Aggarwal et al.58 Addgene Plasmid #178330 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pKanCMV-mRuby3-18aa-actin Bajar et al.86 Addgene plasmid #74255 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 CamKII-ADAM23-pHluorin This paper Addgene Plasmid #185539 pGP-AAV-syn-jGCaMP8f-WPRE Zhang et al.55 Addgene Plasmid #162376 CamKII-LGI1-pHmScarlet This paper Addgene Plasmid #185538 CamKII-LGI1-R474Q-pHmScarlet This paper N/A CamKII-LGI1-T380A-pHmScarlet This paper N/A CamKII-LGI1-E383A-pHmScarlet This paper N/A pCAGGS-SNAP25DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-SNAP29DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx1ADC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx4DC-IRES-mCherry Ibata et al., 201943 N/A CMV-IgK-pHluorin-TM-mRuby This paper Addgene Plasmid #185546 ER-pHluorin de Juan-Sanz et al., 201736 N/A FSW-HRP-V5-LRRTM2 Loh et al.52 Addgene Plasmid #82537 FSW-HRP-V5-LRRTM1 Loh et al.52 Addgene Plasmid #82536 pAAV-CaMKII-Archon1-EGFP Piatkevich et al.60 Addgene Plasmid #108417 hSyn-NPY-pHluorin Gift from Ruud F Toonen Persoon et al. 87 N/A VAMP2-pHmScarlet Gift from Pingyong Xu Liu et al.54 Addgene plasmid #166890 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 (Continued on next page) Cell Reports 43, 114186, May 28, 2024 21 Article ll OPEN ACCESS .. Plasmids generated in this study are available at Addgene.org, as indicated in the key resources table.

    Plasmid Preparation:

    Article Title: Activity-driven synaptic translocation of LGI1 controls excitatory neurotransmission
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Lgi1/EPT antibody Abcam Cat# ab30868; RRID: AB_776017 Mouse anti-GRIA1 antibody UC Davis/NIH NeuroMab Facility Cat# 75-327; RRID: AB_2877405 Goat Anti-Rabbit IgG (H + L)-HRP Conjugate BioRad Cat# 1706515; RRID: AB_11125142 Goat Anti-Mouse IgG (H + L)-HRP Conjugate BioRad Cat# 1706516; RRID: AB_11125547 V5 Tag Monoclonal Antibody Invitrogen Cat# R960-25; RRID: AB_2556564 Beta Actin Polyclonal Antibody Thermo Fisher Scientific Cat# PA5-85271; RRID: AB_2792414 Bacterial and virus strains FSW-HRP-V5-LRRTM1 PF iVector-ICM Addgene #82536 FSW-HRP-V5-LRRTM2 PF iVector-ICM Addgene #82537 Biological samples Human LGI1 antibodies Jena University Hospital licence # 2019-1415 -Material Chemicals, peptides, and recombinant proteins Bafilomycin A1 Cayman Chemical Company Item #11038 EGTA-AM Thermo Fisher Scientific E1219 Tetrodotoxin citrate (TTX) Tocris Cat #1069 Biotin-XX Tyramide Reagent (BxxP) ApexBio Technology Cat #A8012 Tetanus toxin from Clostridium tetani Sigma T3194 Recombinant Enhanced GFP protein (His tag) Abcam ab134853 Papain Worthington Biochemical LK003178 DNase I Roche 10104159001 Poly-D-lysine Sigma P2636 MEM, no glutamine, no phenol red Thermo Fisher Scientific 51200038 N21-MAX Media Supplement (50X) Bio-Techne AR008 Transferrin Sigma 616420 Glutamax Thermo Fisher Scientific 35050038 Insulin Sigma I6634 Cytosine b-d-arabinofuranoside Sigma C1768 NeurobasalTM Medium Thermo Fisher Scientific 21103049 BrainPhysTM Neuronal Medium and SM1 Kit STEMCELL Technologies 05792 50-fluoro-20-deoxyuridine (FUDR) Fisher Scientific 10144760 6-cyano-7-nitroquinoxaline-2,3-dione (CNQX) Tocris 1045 D-( )-2-Amino-5-phosphonopentanoic acid (AP5) Tocris 0106 MES (2-(N-morpholino)ethanesulfonic acid) Sigma M3671 ProLongTM Glass Antifade Mountant Thermo Fisher Scientific P36982 LipofectamineTM 2000 Transfection Reagent Thermo Fisher Scientific 11668019 Chloroquine diphosphate salt, 98% Thermo Fisher Scientific 455245000 PierceTM Streptavidin Magnetic Beads Thermo Fisher Scientific 88817 Biotin Sigma B4501 DL-Dithiothreitol (DTT) Sigma D9779 ClarityTM Western ECL Substrate BioRad 1705060 Clarity Max Western ECL Substrate BioRad 1705062 (Continued on next page) 20 Cell Reports 43, 114186, May 28, 2024 Article ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays Q5 Site-Directed Mutagenesis Kit New England Biolabs E0552 PierceTM High Sensitivity Streptavidin-HRP Thermo Fisher Scientific 21130 NEBuilder HiFi DNA Gibson Assembly Master Mix New England Biolabs E2621 p24 ZeptoMetrix Kit Sigma 0801111 Experimental models: Cell lines HEK293T cells ATCC CRL-11268 Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Strain: Crl:CD(SD) Oligonucleotides See Table S2 for oligonucleotides used for site-directed mutagenesis This paper N/A Recombinant DNA CamKII-LGI1-pHluorin This paper Addgene Plasmid #185537 CamKII-LGI1-S473L-pHluorin This paper Addgene Plasmid #185540 CamKII-LGI1-Y433A-pHluorin This paper Addgene Plasmid #185541 CamKII-LGI1-R474Q-pHluorin This paper Addgene Plasmid #185542 CamKII-LGI1-T380A-pHluorin This paper Addgene Plasmid #185543 CamKII-LGI1-E383A-pHluorin This paper Addgene Plasmid #185544 CamKII-LGI1-C200R-pHluorin This paper Addgene Plasmid #185545 CamKII-LGI1 (no tags) This paper N/A vGlut-pH Gift from Timothy A. Ryan34 N/A vGlut-mOrange-2 Hoppa et al., 201280 N/A iGluSnFR3 Aggarwal et al.58 Addgene Plasmid #178330 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pKanCMV-mRuby3-18aa-actin Bajar et al.86 Addgene plasmid #74255 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 CamKII-ADAM23-pHluorin This paper Addgene Plasmid #185539 pGP-AAV-syn-jGCaMP8f-WPRE Zhang et al.55 Addgene Plasmid #162376 CamKII-LGI1-pHmScarlet This paper Addgene Plasmid #185538 CamKII-LGI1-R474Q-pHmScarlet This paper N/A CamKII-LGI1-T380A-pHmScarlet This paper N/A CamKII-LGI1-E383A-pHmScarlet This paper N/A pCAGGS-SNAP25DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-SNAP29DC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx1ADC-IRES-mCherry Ibata et al., 201943 N/A pCAGGS-Stx4DC-IRES-mCherry Ibata et al., 201943 N/A CMV-IgK-pHluorin-TM-mRuby This paper Addgene Plasmid #185546 ER-pHluorin de Juan-Sanz et al., 201736 N/A FSW-HRP-V5-LRRTM2 Loh et al.52 Addgene Plasmid #82537 FSW-HRP-V5-LRRTM1 Loh et al.52 Addgene Plasmid #82536 pAAV-CaMKII-Archon1-EGFP Piatkevich et al.60 Addgene Plasmid #108417 hSyn-NPY-pHluorin Gift from Ruud F Toonen Persoon et al. 87 N/A VAMP2-pHmScarlet Gift from Pingyong Xu Liu et al.54 Addgene plasmid #166890 CMV-mRuby-synapsin Gift from Timothy A. Ryan Addgene Plasmid #187896 pLKO-synapsin-BFP Gift from Timothy A. Ryan Addgene Plasmid #191567 pLKO-empty-mTagBFP Gift from Timothy A. Ryan Addgene Plasmid #191566 (Continued on next page) Cell Reports 43, 114186, May 28, 2024 21 Article ll OPEN ACCESS .. Plasmids generated in this study are available at Addgene.org, as indicated in the key resources table.



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