Virus:Article Title: Divergent outputs of the ventral lateral geniculate nucleus mediate visually evoked defensive behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit polyclonal anti-DsRed Takara Bio Cat# 632496; RRID: AB_10013483 Mouse monoclonal anti-SMI-32 Covance Cat# SMI-32P; RRID: AB_2314912 Rabbit polyclonal anti-melanopsin Advanced Targeting Systems Cat# AB-N39; RRID: AB_1608076 Guinea pig polyclonal anti-VAChT Millipore Cat# AB1588; RRID: AB_2187981 Goat polyclonal anti-ChAT Millipore Cat# AB144P; RRID: AB_2079751 Bacterial and virus strains AAV2-hSyn-DIO-hM4Di-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44362-AAV2 AAV2-hSyn-DIO-hM3Dq-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV2 AAV2-hSyn-hM4Di-mCherry Addgene Addgene viral prep # 50475-AAV2 AAV2-hSyn-hM3Dq-mCherry Addgene Addgene viral prep # 50474-AAV2 AAVDJ-hSyn-fDIO-hM4Di-mCherry Stanford Vector Core N/A AAVDJ-hSyn-fDIO-hM3Dq-mCherry Stanford Vector Core N/A AAV2-hSyn-DIO-mCherry Addgene Addgene viral prep # 50459-AAV2 AAVretro-EF1a-Nuc-flox(mCherry)-eGFP Addgene; Bäck et al., 2019 Addgene viral prep # 112677-AAVrg AAVretro-hSyn-GFP Addgene Addgene viral prep # 50465-AAVrg AAVretro-hSyn-mCherry Stanford Vector Core N/A AAVretro-hSyn-Cre Addgene Addgene viral prep # 105553-AAVrg AAVretro-hSyn-HI-GFP-Cre Addgene Addgene viral prep # 105540-AAVrg AAVretro-pEF1a-DIO-FLPo Addgene; Zingg et al., 2017 Addgene viral prep # 87306-AAVrg AAV-DJ-EF1a-DIO-hChR2(C128S/D156A)-mCherry Stanford Vector Core N/A AAV-DJ-EF1a-DIO-ChR2(H134R)-eYFP Stanford Vector Core N/A AAV-DJ-EF1a-DIO-GCaMP6m Stanford Vector Core N/A AAV8-hSyn-flex-TVA-P2A-EGFP-2A-oG Salk Vector Core Cat# 85225 ENVA-DG-Rabies-mCherry Salk Vector Core Cat# 32636 Chemicals, peptides, and recombinant proteins Alexa Fluor 647-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34778 Alexa Fluor 594-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34777 Clozapine N-oxide (CNO) Tocris Cat# 4936 Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory JAX: 000664 Mouse: Ai9 The Jackson Laboratory JAX: 007909 Mouse: Gad2-IRES-cre The Jackson Laboratory JAX: 028867 Mouse: Vgat-ires-cre The Jackson Laboratory JAX: 028862 Mouse: Vglut2-ires-cre The Jackson Laboratory JAX: 028863 Software and algorithms MATLAB MathWorks https://www.mathworks.com/ R v.3.6.3. .. R Foundation https://www.r-project.org/ ImageJ NIH https://imagej.nih.gov/ij Prism 9 GraphPad Software https://www.graphpad.com/ e1 Cell Reports 37, 109792, October 5, 2021
Article Title: Cardiovascular baroreflex circuit moonlights in sleep control.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-GFP for immunochemistry Aves Labs GFP-1020; RRID: AB_10000240 Rat anti-mCherry for immunochemistry Thermo Fisher Scientific Cat# M11217; RRID: AB_2536611 Rabbit anti-cFos for immunochemistry Synaptic System Cat# 226003; RRID: AB_2231974 Bacterial and virus strains AAV2-EF1a-DIO-ChR2-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-iC++-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-hM3D(Gq)-mCherry UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-mCherry UNC Chapel Hill Vector Core N/A AAV2-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep # 44361-AAV2; RRID: Addgene_44361 AAV2-hSyn-DIO-mCherry Addgene (from Bryan Roth) Addgene viral prep # 50459-AAV2; RRID: Addgene_50459 AAV2-EF1a-DIO-taCasp3-TEVp UNC Chapel Hill Vector Core N/A AAV9-CAG-FLEX-GCaMP6s-WPRE.SV40 Chen et al., 2013 Addgene viral prep # 100842-AAV9; RRID: Addgene_100842 AAV8-hSyn-FLEx-TVA-P2A-eGFP-2A-oG Gene Transfer, Targeting and Therapeutics Facility of Salk Institute N/A G-Deleted rabies-mCherry Gene Transfer Targeting and Therapeutics Core of Salk Institute N/A AAV2-CAG-FLEx-TC66T Gift from Liquan Luo lab, Stanford University N/A AAV2-CAG-FLEx-RG Gift from Liquan Luo lab, Stanford University N/A CVS N2c dG Histone-eGFP (H2BeGFP) from A. Cetin and H. Zeng in the Allen Institute for Brain Science N/A Chemicals, peptides, and recombinant proteins Clozapine-N-oxide Sigma-Aldrich C0832 Phenylephrine Sigma-Aldrich P1240000 4-hydroxytamoxifen Sigma-Aldrich H6278 Sodium nitroprusside Sigma-Aldrich PHR1423 Critical commercial assays RNAscope Manual Fluorescent Multiplex kit V2 Advanced Cell Diagnostics 323100 Experimental models: Organisms/strains Mouse, TRAP2 The Jackson Laboratory 030323 Mouse, Ai14 The Jackson Laboratory 007914 Mouse, EGFP-L10a The Jackson Laboratory 024750 Mouse, Gad2-Cre The Jackson Laboratory 010802 Mouse, ChAT-Cre The Jackson Laboratory 006410 Mouse, Tac1-Cre The Jackson Laboratory 021877 Mouse, Cartpt-Cre from H. Zeng, Allen Institute for Brain Science Jax stock no. 009615 Mouse, Th-Cre European Mouse Mutant Archive EM:00254 (Continued on next page) e1 Neuron 110, 3986–3999.e1–e6, December 7, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides eGFP In situ hybridization probe Advanced Cell Diagnostics 400281 Slc17a6 In situ hybridization probe Advanced Cell Diagnostics 319171 Slc32a1 In situ hybridization probe Advanced Cell Diagnostics 319191 Chat In situ hybridization probe Advanced Cell Diagnostics 408731 tdTomato In situ hybridization probe Advanced Cell Diagnostics 317041 Cartpt In situ hybridization probe Advanced Cell Diagnostics 432001 Adcyap In situ hybridization probe Advanced Cell Diagnostics 405911 Nos1 In situ hybridization probe Advanced Cell Diagnostics 437651 Pdyn In situ hybridization probe Advanced Cell Diagnostics 318771 Gal In situ hybridization probe Advanced Cell Diagnostics 400961 Tac1 In situ hybridization probe Advanced Cell Diagnostics 410351 Cre In situ hybridization probe Advanced Cell Diagnostics 312281 mCherry In situ hybridization probe Advanced Cell Diagnostics 431201 Piezo1 In situ hybridization probe Advanced Cell Diagnostics 500511 Piezo2 In situ hybridization probe Advanced Cell Diagnostics 400191 Th In situ hybridization probe Advanced Cell Diagnostics 317621 Gad2 In situ hybridization probe Advanced Cell Diagnostics 415071 Software and algorithms MATLAB MathWorks R2016b, R2020a OpenEx software Tucker-Davis Technologies N/A Synapse Tucker-Davis Technologies N/A ImageJ NIH https://imagej.nih.gov/ij/ KlustaKwik Kenneth D. Harris http://klustakwik.sourceforge.net Ponemah DSI v 5.20 Bonsai Neurophotometrics FP3003 system QuickNII Puchades et al., 2019 https://www.nitrc.org/projects/quicknii; RRID:SCR_016854 Ilastik Berg et al., 2019 https://www.ilastik.org/ Nutil Quantifier Groeneboom et al., 2020; Yates et al., 2019 https://www.nitrc.org/projects/nutil/ Meshview Groeneboom et al., 2020 https://www.nitrc.org/projects/meshview; SCR_017222
Article Title: Preoptic BRS3 neurons increase body temperature and heart rate via multiple pathways.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-DsRed/mCherry/tdTomato rabbit Takara Cat#632496; RRID: AB_10013483 Anti-GFP chicken Abcam Cat#13970; RRID: AB_300798 Goat anti-Chicken IgY (H+L) Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat#A-11039, RRID: AB_2534096 Goat anti-Rabbit IgG (H+L) CrossAdsorbed Secondary Antibody, Alexa Fluor 555 Thermo Fisher Scientific Cat#A-21428; RRID: AB_2535849 Bacterial and virus strains pAAV1-ef1a-DIO-ChR2-EYFP Gift from Karl Deisseroth Addgene viral prep 20298-AAV1; RRID: Addgene_20297 pAAV8-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep 44361-AAV8 RRID: Addgene_44361 pAAV8-hSyn-DIO-hM4D(Gi)-mCherry Krashes et al., 2011 Addgene viral prep 44362-AAV8; RRID: Addgene_44362 AAV9-Ef1a-DO-hChR2(H134R)-mCherry Gift from Bernardo Sabatini (Kozorovitskiy et al, 2012) packaged by Vigene Biosciences Addgene plasmid # 37082; RRID: Addgene_37082 AAV8-hSyn-DIO-mCherry Krashes et al., 2011 Addgene viral prep 50459-AAV8 RRID: Addgene_50459 AAV8-Ef1a-DIO-synaptophysin-mCherry Virovek N/A AAV-DJ-CMV-DIO-eGFP-2A-TeNT Similar to Campos et al. (2018) Stanford Viral Core GVVCAAV-71 AAV5-EF1a-DIO-EYFP-WPRE-pA gift from Karl Deisseroth Addgene viral prep 27056-AAV5; RRID: Addgene_27056 AAV8-Ef1a-FLEX-TVA-mCherry UNC vector core N/A EnvA-G-Deleted-Rabies-Egfp Gene Transfer, Targeting and Therapeutics Core at Salk Institute Cat#32635 Chemicals, peptides, and recombinant proteins CNO Sigma Cat#C0832-5MG Saline Medline Cat#DYND1000 MK-5046 MedChemExpress Cat#HY-14342 LPS Sigma Cat#L6511-25mg TTX Abcam Cat#ab120054 4-aminopyridine (4-AP) Sigma Cat#A7840 DMSO Sigma Cat#472301-100ML tamoxifen Sigma Cat#T5648-5G Propranolol Sigma Cat#P0884-5G Corn oil Sigma Cat#C8267-500ML Experimental models: Organisms/strains BRS3-Cre; B6.129S6(C3)Brs3tm3.1(cre/ERT2)Rei/J The Jackson Laboratory Cat#032614 Ai14 (Cre-dependent tdTomato); B6.CgGt(ROSA)26Sortm14(CAG-tdTomato)Hze/J The Jackson Laboratory Cat#007914 Ai6 (Cre-dependent GFP); B6.Cg-Gt(ROSA) 26Sortm6(CAG-ZsGreen1)Hze/J The Jackson Laboratory Cat#007906 Gad2-2a-NLS-mCherry (Gad2-mCherry); B6;129S-Gad2tm1.1Ksvo/J The Jackson Laboratory Cat#023140 C57BL/6J The Jackson Laboratory Cat#000664 (Continued on next page) e1 Cell Metabolism 33, 1–15.e1–e6, July 6, 2021 .. REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms Prism v9.0.2 Graphpad https://www.graphpad.com/ VitalView v5.0 Starr Life Sciences https://www.starrlifesciences.com/ Zen (Black) Zeiss https://www.zeiss.com/microscopy/us/ home.html Ponemah v6.30 Data Sciences International https://www.datasci.com/ EthoVision XT Noldus https://www.noldus.com/ Other E-mitter (body temperature telemetry system – Implants), Starr Life Sciences, Oakmont, PA, USA Starr Life Sciences Cat# G2 E-Mitter E-mitter receiver/energizer (body temperature telemetry system) Starr Life Sciences Cat# ER4000 Intra-arterial pressure telemetry probe Data Sciences International HD-X10 or HD-X11 PhysioTel RPC-1 receiver Data Sciences International RPC-1 CLAMS Columbus Instruments Sn# 110117
Bioprocessing:Article Title: Divergent outputs of the ventral lateral geniculate nucleus mediate visually evoked defensive behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit polyclonal anti-DsRed Takara Bio Cat# 632496; RRID: AB_10013483 Mouse monoclonal anti-SMI-32 Covance Cat# SMI-32P; RRID: AB_2314912 Rabbit polyclonal anti-melanopsin Advanced Targeting Systems Cat# AB-N39; RRID: AB_1608076 Guinea pig polyclonal anti-VAChT Millipore Cat# AB1588; RRID: AB_2187981 Goat polyclonal anti-ChAT Millipore Cat# AB144P; RRID: AB_2079751 Bacterial and virus strains AAV2-hSyn-DIO-hM4Di-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44362-AAV2 AAV2-hSyn-DIO-hM3Dq-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV2 AAV2-hSyn-hM4Di-mCherry Addgene Addgene viral prep # 50475-AAV2 AAV2-hSyn-hM3Dq-mCherry Addgene Addgene viral prep # 50474-AAV2 AAVDJ-hSyn-fDIO-hM4Di-mCherry Stanford Vector Core N/A AAVDJ-hSyn-fDIO-hM3Dq-mCherry Stanford Vector Core N/A AAV2-hSyn-DIO-mCherry Addgene Addgene viral prep # 50459-AAV2 AAVretro-EF1a-Nuc-flox(mCherry)-eGFP Addgene; Bäck et al., 2019 Addgene viral prep # 112677-AAVrg AAVretro-hSyn-GFP Addgene Addgene viral prep # 50465-AAVrg AAVretro-hSyn-mCherry Stanford Vector Core N/A AAVretro-hSyn-Cre Addgene Addgene viral prep # 105553-AAVrg AAVretro-hSyn-HI-GFP-Cre Addgene Addgene viral prep # 105540-AAVrg AAVretro-pEF1a-DIO-FLPo Addgene; Zingg et al., 2017 Addgene viral prep # 87306-AAVrg AAV-DJ-EF1a-DIO-hChR2(C128S/D156A)-mCherry Stanford Vector Core N/A AAV-DJ-EF1a-DIO-ChR2(H134R)-eYFP Stanford Vector Core N/A AAV-DJ-EF1a-DIO-GCaMP6m Stanford Vector Core N/A AAV8-hSyn-flex-TVA-P2A-EGFP-2A-oG Salk Vector Core Cat# 85225 ENVA-DG-Rabies-mCherry Salk Vector Core Cat# 32636 Chemicals, peptides, and recombinant proteins Alexa Fluor 647-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34778 Alexa Fluor 594-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34777 Clozapine N-oxide (CNO) Tocris Cat# 4936 Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory JAX: 000664 Mouse: Ai9 The Jackson Laboratory JAX: 007909 Mouse: Gad2-IRES-cre The Jackson Laboratory JAX: 028867 Mouse: Vgat-ires-cre The Jackson Laboratory JAX: 028862 Mouse: Vglut2-ires-cre The Jackson Laboratory JAX: 028863 Software and algorithms MATLAB MathWorks https://www.mathworks.com/ R v.3.6.3. .. R Foundation https://www.r-project.org/ ImageJ NIH https://imagej.nih.gov/ij Prism 9 GraphPad Software https://www.graphpad.com/ e1 Cell Reports 37, 109792, October 5, 2021
Article Title: Preoptic BRS3 neurons increase body temperature and heart rate via multiple pathways.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-DsRed/mCherry/tdTomato rabbit Takara Cat#632496; RRID: AB_10013483 Anti-GFP chicken Abcam Cat#13970; RRID: AB_300798 Goat anti-Chicken IgY (H+L) Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat#A-11039, RRID: AB_2534096 Goat anti-Rabbit IgG (H+L) CrossAdsorbed Secondary Antibody, Alexa Fluor 555 Thermo Fisher Scientific Cat#A-21428; RRID: AB_2535849 Bacterial and virus strains pAAV1-ef1a-DIO-ChR2-EYFP Gift from Karl Deisseroth Addgene viral prep 20298-AAV1; RRID: Addgene_20297 pAAV8-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep 44361-AAV8 RRID: Addgene_44361 pAAV8-hSyn-DIO-hM4D(Gi)-mCherry Krashes et al., 2011 Addgene viral prep 44362-AAV8; RRID: Addgene_44362 AAV9-Ef1a-DO-hChR2(H134R)-mCherry Gift from Bernardo Sabatini (Kozorovitskiy et al, 2012) packaged by Vigene Biosciences Addgene plasmid # 37082; RRID: Addgene_37082 AAV8-hSyn-DIO-mCherry Krashes et al., 2011 Addgene viral prep 50459-AAV8 RRID: Addgene_50459 AAV8-Ef1a-DIO-synaptophysin-mCherry Virovek N/A AAV-DJ-CMV-DIO-eGFP-2A-TeNT Similar to Campos et al. (2018) Stanford Viral Core GVVCAAV-71 AAV5-EF1a-DIO-EYFP-WPRE-pA gift from Karl Deisseroth Addgene viral prep 27056-AAV5; RRID: Addgene_27056 AAV8-Ef1a-FLEX-TVA-mCherry UNC vector core N/A EnvA-G-Deleted-Rabies-Egfp Gene Transfer, Targeting and Therapeutics Core at Salk Institute Cat#32635 Chemicals, peptides, and recombinant proteins CNO Sigma Cat#C0832-5MG Saline Medline Cat#DYND1000 MK-5046 MedChemExpress Cat#HY-14342 LPS Sigma Cat#L6511-25mg TTX Abcam Cat#ab120054 4-aminopyridine (4-AP) Sigma Cat#A7840 DMSO Sigma Cat#472301-100ML tamoxifen Sigma Cat#T5648-5G Propranolol Sigma Cat#P0884-5G Corn oil Sigma Cat#C8267-500ML Experimental models: Organisms/strains BRS3-Cre; B6.129S6(C3)Brs3tm3.1(cre/ERT2)Rei/J The Jackson Laboratory Cat#032614 Ai14 (Cre-dependent tdTomato); B6.CgGt(ROSA)26Sortm14(CAG-tdTomato)Hze/J The Jackson Laboratory Cat#007914 Ai6 (Cre-dependent GFP); B6.Cg-Gt(ROSA) 26Sortm6(CAG-ZsGreen1)Hze/J The Jackson Laboratory Cat#007906 Gad2-2a-NLS-mCherry (Gad2-mCherry); B6;129S-Gad2tm1.1Ksvo/J The Jackson Laboratory Cat#023140 C57BL/6J The Jackson Laboratory Cat#000664 (Continued on next page) e1 Cell Metabolism 33, 1–15.e1–e6, July 6, 2021 .. REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms Prism v9.0.2 Graphpad https://www.graphpad.com/ VitalView v5.0 Starr Life Sciences https://www.starrlifesciences.com/ Zen (Black) Zeiss https://www.zeiss.com/microscopy/us/ home.html Ponemah v6.30 Data Sciences International https://www.datasci.com/ EthoVision XT Noldus https://www.noldus.com/ Other E-mitter (body temperature telemetry system – Implants), Starr Life Sciences, Oakmont, PA, USA Starr Life Sciences Cat# G2 E-Mitter E-mitter receiver/energizer (body temperature telemetry system) Starr Life Sciences Cat# ER4000 Intra-arterial pressure telemetry probe Data Sciences International HD-X10 or HD-X11 PhysioTel RPC-1 receiver Data Sciences International RPC-1 CLAMS Columbus Instruments Sn# 110117
Recombinant:Article Title: Divergent outputs of the ventral lateral geniculate nucleus mediate visually evoked defensive behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit polyclonal anti-DsRed Takara Bio Cat# 632496; RRID: AB_10013483 Mouse monoclonal anti-SMI-32 Covance Cat# SMI-32P; RRID: AB_2314912 Rabbit polyclonal anti-melanopsin Advanced Targeting Systems Cat# AB-N39; RRID: AB_1608076 Guinea pig polyclonal anti-VAChT Millipore Cat# AB1588; RRID: AB_2187981 Goat polyclonal anti-ChAT Millipore Cat# AB144P; RRID: AB_2079751 Bacterial and virus strains AAV2-hSyn-DIO-hM4Di-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44362-AAV2 AAV2-hSyn-DIO-hM3Dq-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV2 AAV2-hSyn-hM4Di-mCherry Addgene Addgene viral prep # 50475-AAV2 AAV2-hSyn-hM3Dq-mCherry Addgene Addgene viral prep # 50474-AAV2 AAVDJ-hSyn-fDIO-hM4Di-mCherry Stanford Vector Core N/A AAVDJ-hSyn-fDIO-hM3Dq-mCherry Stanford Vector Core N/A AAV2-hSyn-DIO-mCherry Addgene Addgene viral prep # 50459-AAV2 AAVretro-EF1a-Nuc-flox(mCherry)-eGFP Addgene; Bäck et al., 2019 Addgene viral prep # 112677-AAVrg AAVretro-hSyn-GFP Addgene Addgene viral prep # 50465-AAVrg AAVretro-hSyn-mCherry Stanford Vector Core N/A AAVretro-hSyn-Cre Addgene Addgene viral prep # 105553-AAVrg AAVretro-hSyn-HI-GFP-Cre Addgene Addgene viral prep # 105540-AAVrg AAVretro-pEF1a-DIO-FLPo Addgene; Zingg et al., 2017 Addgene viral prep # 87306-AAVrg AAV-DJ-EF1a-DIO-hChR2(C128S/D156A)-mCherry Stanford Vector Core N/A AAV-DJ-EF1a-DIO-ChR2(H134R)-eYFP Stanford Vector Core N/A AAV-DJ-EF1a-DIO-GCaMP6m Stanford Vector Core N/A AAV8-hSyn-flex-TVA-P2A-EGFP-2A-oG Salk Vector Core Cat# 85225 ENVA-DG-Rabies-mCherry Salk Vector Core Cat# 32636 Chemicals, peptides, and recombinant proteins Alexa Fluor 647-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34778 Alexa Fluor 594-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34777 Clozapine N-oxide (CNO) Tocris Cat# 4936 Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory JAX: 000664 Mouse: Ai9 The Jackson Laboratory JAX: 007909 Mouse: Gad2-IRES-cre The Jackson Laboratory JAX: 028867 Mouse: Vgat-ires-cre The Jackson Laboratory JAX: 028862 Mouse: Vglut2-ires-cre The Jackson Laboratory JAX: 028863 Software and algorithms MATLAB MathWorks https://www.mathworks.com/ R v.3.6.3. .. R Foundation https://www.r-project.org/ ImageJ NIH https://imagej.nih.gov/ij Prism 9 GraphPad Software https://www.graphpad.com/ e1 Cell Reports 37, 109792, October 5, 2021
Article Title: Cardiovascular baroreflex circuit moonlights in sleep control.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-GFP for immunochemistry Aves Labs GFP-1020; RRID: AB_10000240 Rat anti-mCherry for immunochemistry Thermo Fisher Scientific Cat# M11217; RRID: AB_2536611 Rabbit anti-cFos for immunochemistry Synaptic System Cat# 226003; RRID: AB_2231974 Bacterial and virus strains AAV2-EF1a-DIO-ChR2-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-iC++-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-hM3D(Gq)-mCherry UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-mCherry UNC Chapel Hill Vector Core N/A AAV2-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep # 44361-AAV2; RRID: Addgene_44361 AAV2-hSyn-DIO-mCherry Addgene (from Bryan Roth) Addgene viral prep # 50459-AAV2; RRID: Addgene_50459 AAV2-EF1a-DIO-taCasp3-TEVp UNC Chapel Hill Vector Core N/A AAV9-CAG-FLEX-GCaMP6s-WPRE.SV40 Chen et al., 2013 Addgene viral prep # 100842-AAV9; RRID: Addgene_100842 AAV8-hSyn-FLEx-TVA-P2A-eGFP-2A-oG Gene Transfer, Targeting and Therapeutics Facility of Salk Institute N/A G-Deleted rabies-mCherry Gene Transfer Targeting and Therapeutics Core of Salk Institute N/A AAV2-CAG-FLEx-TC66T Gift from Liquan Luo lab, Stanford University N/A AAV2-CAG-FLEx-RG Gift from Liquan Luo lab, Stanford University N/A CVS N2c dG Histone-eGFP (H2BeGFP) from A. Cetin and H. Zeng in the Allen Institute for Brain Science N/A Chemicals, peptides, and recombinant proteins Clozapine-N-oxide Sigma-Aldrich C0832 Phenylephrine Sigma-Aldrich P1240000 4-hydroxytamoxifen Sigma-Aldrich H6278 Sodium nitroprusside Sigma-Aldrich PHR1423 Critical commercial assays RNAscope Manual Fluorescent Multiplex kit V2 Advanced Cell Diagnostics 323100 Experimental models: Organisms/strains Mouse, TRAP2 The Jackson Laboratory 030323 Mouse, Ai14 The Jackson Laboratory 007914 Mouse, EGFP-L10a The Jackson Laboratory 024750 Mouse, Gad2-Cre The Jackson Laboratory 010802 Mouse, ChAT-Cre The Jackson Laboratory 006410 Mouse, Tac1-Cre The Jackson Laboratory 021877 Mouse, Cartpt-Cre from H. Zeng, Allen Institute for Brain Science Jax stock no. 009615 Mouse, Th-Cre European Mouse Mutant Archive EM:00254 (Continued on next page) e1 Neuron 110, 3986–3999.e1–e6, December 7, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides eGFP In situ hybridization probe Advanced Cell Diagnostics 400281 Slc17a6 In situ hybridization probe Advanced Cell Diagnostics 319171 Slc32a1 In situ hybridization probe Advanced Cell Diagnostics 319191 Chat In situ hybridization probe Advanced Cell Diagnostics 408731 tdTomato In situ hybridization probe Advanced Cell Diagnostics 317041 Cartpt In situ hybridization probe Advanced Cell Diagnostics 432001 Adcyap In situ hybridization probe Advanced Cell Diagnostics 405911 Nos1 In situ hybridization probe Advanced Cell Diagnostics 437651 Pdyn In situ hybridization probe Advanced Cell Diagnostics 318771 Gal In situ hybridization probe Advanced Cell Diagnostics 400961 Tac1 In situ hybridization probe Advanced Cell Diagnostics 410351 Cre In situ hybridization probe Advanced Cell Diagnostics 312281 mCherry In situ hybridization probe Advanced Cell Diagnostics 431201 Piezo1 In situ hybridization probe Advanced Cell Diagnostics 500511 Piezo2 In situ hybridization probe Advanced Cell Diagnostics 400191 Th In situ hybridization probe Advanced Cell Diagnostics 317621 Gad2 In situ hybridization probe Advanced Cell Diagnostics 415071 Software and algorithms MATLAB MathWorks R2016b, R2020a OpenEx software Tucker-Davis Technologies N/A Synapse Tucker-Davis Technologies N/A ImageJ NIH https://imagej.nih.gov/ij/ KlustaKwik Kenneth D. Harris http://klustakwik.sourceforge.net Ponemah DSI v 5.20 Bonsai Neurophotometrics FP3003 system QuickNII Puchades et al., 2019 https://www.nitrc.org/projects/quicknii; RRID:SCR_016854 Ilastik Berg et al., 2019 https://www.ilastik.org/ Nutil Quantifier Groeneboom et al., 2020; Yates et al., 2019 https://www.nitrc.org/projects/nutil/ Meshview Groeneboom et al., 2020 https://www.nitrc.org/projects/meshview; SCR_017222
Article Title: Maladaptive Downregulation of Autonomous Subthalamic Nucleus Activity following the Loss of Midbrain Dopamine Neurons
Article Snippet: Vector Core Addgene viral prep # 105539-AAV9 AAV9.hSyn.HI.eGFP-Cre.WPRE.SV40 U. Penn. .. Vector Core Addgene viral prep # 105540-AAV9 AAV8-hSyn-DIO-hM3D(Gq)-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV8 Chemicals, Peptides, and Recombinant Proteins Apamin Sigma-Aldrich Cat#A9459 Catalase-polyethylene glycol Sigma-Aldrich Cat#C4963 6-Hydroxydopamine hydrobromide Tocris Bioscience Cat#2547 CGP 55845 hydrochloride Abcam Inc Cat#ab120337 Clozapine N-oxide Tocris Bioscience Cat#4936 D-APV Abcam Inc Cat#ab120003 Desipramine hydrochloride Sigma-Aldrich Cat#P3900 DNQX disodium salt Abcam Inc Cat#ab120169 Glibenclamide Sigma-Aldrich Cat#G0639 L-Glutathione Sigma-Aldrich Cat#G4251 N-Methyl D-aspartic acid Tocris Bioscience Cat#0114 Pargyline hydrochloride Sigma-Aldrich Cat#P8013 Sodium pyruvate Sigma-Aldrich Cat#P2256 SR95531 (Gabazine) Abcam Inc Cat#ab120042 Deposited Data Raw and analyzed data This paper https://doi.org/10.17605/OSF.IO/7KWD2 Experimental Models: Organisms/Strains C57BL/6 mice The Jackson Laboratory RRID:IMSR_JAX:000664 B6.Cg-Tg(Adora2a-Chrm3*,-mCherry) AD6Blr/J mice The Jackson Laboratory RRID:IMSR_JAX:017863 B6.129S4-Grin1tm2Stl/J mice The Jackson Laboratory RRID:IMSR_JAX:005246 Tg(Gabrr3-cre)KC112Gsat mice Mutant Mouse Resource & Research Centers RRID:MGI:5528400 Software and Algorithms Clampfit (version 10.5) Molecular Devices N/A Igor Pro (version 6.37) Wavemetrics Inc RRID: SCR_000325 Neurolucida (version 11.03) MBF Bioscience RRID: SCR_001775 (Continued on next page) Cell Reports 28, 992–1002.e1–e4, July 23, 2019 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Neurolucida Explorer (version 11.08) MBF Bioscience N/A NIH ImageJ (version 1.47) NIH RRID: SCR_003070 OriginPro (version 2015) OriginLab Co. RRID: SCR_014212 pClamp (version 10.5) Molecular Device RRID: SCR_011323 Prism (version 6.0h) Graphpad software Inc RRID: SCR_002798 R (version 3.3.1) http://www.R-project.org/ RRID: SCR_001905
Article Title: Preoptic BRS3 neurons increase body temperature and heart rate via multiple pathways.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-DsRed/mCherry/tdTomato rabbit Takara Cat#632496; RRID: AB_10013483 Anti-GFP chicken Abcam Cat#13970; RRID: AB_300798 Goat anti-Chicken IgY (H+L) Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat#A-11039, RRID: AB_2534096 Goat anti-Rabbit IgG (H+L) CrossAdsorbed Secondary Antibody, Alexa Fluor 555 Thermo Fisher Scientific Cat#A-21428; RRID: AB_2535849 Bacterial and virus strains pAAV1-ef1a-DIO-ChR2-EYFP Gift from Karl Deisseroth Addgene viral prep 20298-AAV1; RRID: Addgene_20297 pAAV8-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep 44361-AAV8 RRID: Addgene_44361 pAAV8-hSyn-DIO-hM4D(Gi)-mCherry Krashes et al., 2011 Addgene viral prep 44362-AAV8; RRID: Addgene_44362 AAV9-Ef1a-DO-hChR2(H134R)-mCherry Gift from Bernardo Sabatini (Kozorovitskiy et al, 2012) packaged by Vigene Biosciences Addgene plasmid # 37082; RRID: Addgene_37082 AAV8-hSyn-DIO-mCherry Krashes et al., 2011 Addgene viral prep 50459-AAV8 RRID: Addgene_50459 AAV8-Ef1a-DIO-synaptophysin-mCherry Virovek N/A AAV-DJ-CMV-DIO-eGFP-2A-TeNT Similar to Campos et al. (2018) Stanford Viral Core GVVCAAV-71 AAV5-EF1a-DIO-EYFP-WPRE-pA gift from Karl Deisseroth Addgene viral prep 27056-AAV5; RRID: Addgene_27056 AAV8-Ef1a-FLEX-TVA-mCherry UNC vector core N/A EnvA-G-Deleted-Rabies-Egfp Gene Transfer, Targeting and Therapeutics Core at Salk Institute Cat#32635 Chemicals, peptides, and recombinant proteins CNO Sigma Cat#C0832-5MG Saline Medline Cat#DYND1000 MK-5046 MedChemExpress Cat#HY-14342 LPS Sigma Cat#L6511-25mg TTX Abcam Cat#ab120054 4-aminopyridine (4-AP) Sigma Cat#A7840 DMSO Sigma Cat#472301-100ML tamoxifen Sigma Cat#T5648-5G Propranolol Sigma Cat#P0884-5G Corn oil Sigma Cat#C8267-500ML Experimental models: Organisms/strains BRS3-Cre; B6.129S6(C3)Brs3tm3.1(cre/ERT2)Rei/J The Jackson Laboratory Cat#032614 Ai14 (Cre-dependent tdTomato); B6.CgGt(ROSA)26Sortm14(CAG-tdTomato)Hze/J The Jackson Laboratory Cat#007914 Ai6 (Cre-dependent GFP); B6.Cg-Gt(ROSA) 26Sortm6(CAG-ZsGreen1)Hze/J The Jackson Laboratory Cat#007906 Gad2-2a-NLS-mCherry (Gad2-mCherry); B6;129S-Gad2tm1.1Ksvo/J The Jackson Laboratory Cat#023140 C57BL/6J The Jackson Laboratory Cat#000664 (Continued on next page) e1 Cell Metabolism 33, 1–15.e1–e6, July 6, 2021 .. REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms Prism v9.0.2 Graphpad https://www.graphpad.com/ VitalView v5.0 Starr Life Sciences https://www.starrlifesciences.com/ Zen (Black) Zeiss https://www.zeiss.com/microscopy/us/ home.html Ponemah v6.30 Data Sciences International https://www.datasci.com/ EthoVision XT Noldus https://www.noldus.com/ Other E-mitter (body temperature telemetry system – Implants), Starr Life Sciences, Oakmont, PA, USA Starr Life Sciences Cat# G2 E-Mitter E-mitter receiver/energizer (body temperature telemetry system) Starr Life Sciences Cat# ER4000 Intra-arterial pressure telemetry probe Data Sciences International HD-X10 or HD-X11 PhysioTel RPC-1 receiver Data Sciences International RPC-1 CLAMS Columbus Instruments Sn# 110117
Software:Article Title: Divergent outputs of the ventral lateral geniculate nucleus mediate visually evoked defensive behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit polyclonal anti-DsRed Takara Bio Cat# 632496; RRID: AB_10013483 Mouse monoclonal anti-SMI-32 Covance Cat# SMI-32P; RRID: AB_2314912 Rabbit polyclonal anti-melanopsin Advanced Targeting Systems Cat# AB-N39; RRID: AB_1608076 Guinea pig polyclonal anti-VAChT Millipore Cat# AB1588; RRID: AB_2187981 Goat polyclonal anti-ChAT Millipore Cat# AB144P; RRID: AB_2079751 Bacterial and virus strains AAV2-hSyn-DIO-hM4Di-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44362-AAV2 AAV2-hSyn-DIO-hM3Dq-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV2 AAV2-hSyn-hM4Di-mCherry Addgene Addgene viral prep # 50475-AAV2 AAV2-hSyn-hM3Dq-mCherry Addgene Addgene viral prep # 50474-AAV2 AAVDJ-hSyn-fDIO-hM4Di-mCherry Stanford Vector Core N/A AAVDJ-hSyn-fDIO-hM3Dq-mCherry Stanford Vector Core N/A AAV2-hSyn-DIO-mCherry Addgene Addgene viral prep # 50459-AAV2 AAVretro-EF1a-Nuc-flox(mCherry)-eGFP Addgene; Bäck et al., 2019 Addgene viral prep # 112677-AAVrg AAVretro-hSyn-GFP Addgene Addgene viral prep # 50465-AAVrg AAVretro-hSyn-mCherry Stanford Vector Core N/A AAVretro-hSyn-Cre Addgene Addgene viral prep # 105553-AAVrg AAVretro-hSyn-HI-GFP-Cre Addgene Addgene viral prep # 105540-AAVrg AAVretro-pEF1a-DIO-FLPo Addgene; Zingg et al., 2017 Addgene viral prep # 87306-AAVrg AAV-DJ-EF1a-DIO-hChR2(C128S/D156A)-mCherry Stanford Vector Core N/A AAV-DJ-EF1a-DIO-ChR2(H134R)-eYFP Stanford Vector Core N/A AAV-DJ-EF1a-DIO-GCaMP6m Stanford Vector Core N/A AAV8-hSyn-flex-TVA-P2A-EGFP-2A-oG Salk Vector Core Cat# 85225 ENVA-DG-Rabies-mCherry Salk Vector Core Cat# 32636 Chemicals, peptides, and recombinant proteins Alexa Fluor 647-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34778 Alexa Fluor 594-conjugated Cholera Toxin Subunit B ThermoFisher Cat# C34777 Clozapine N-oxide (CNO) Tocris Cat# 4936 Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory JAX: 000664 Mouse: Ai9 The Jackson Laboratory JAX: 007909 Mouse: Gad2-IRES-cre The Jackson Laboratory JAX: 028867 Mouse: Vgat-ires-cre The Jackson Laboratory JAX: 028862 Mouse: Vglut2-ires-cre The Jackson Laboratory JAX: 028863 Software and algorithms MATLAB MathWorks https://www.mathworks.com/ R v.3.6.3. .. R Foundation https://www.r-project.org/ ImageJ NIH https://imagej.nih.gov/ij Prism 9 GraphPad Software https://www.graphpad.com/ e1 Cell Reports 37, 109792, October 5, 2021
RNAscope:Article Title: Cardiovascular baroreflex circuit moonlights in sleep control.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-GFP for immunochemistry Aves Labs GFP-1020; RRID: AB_10000240 Rat anti-mCherry for immunochemistry Thermo Fisher Scientific Cat# M11217; RRID: AB_2536611 Rabbit anti-cFos for immunochemistry Synaptic System Cat# 226003; RRID: AB_2231974 Bacterial and virus strains AAV2-EF1a-DIO-ChR2-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-iC++-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-hM3D(Gq)-mCherry UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-mCherry UNC Chapel Hill Vector Core N/A AAV2-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep # 44361-AAV2; RRID: Addgene_44361 AAV2-hSyn-DIO-mCherry Addgene (from Bryan Roth) Addgene viral prep # 50459-AAV2; RRID: Addgene_50459 AAV2-EF1a-DIO-taCasp3-TEVp UNC Chapel Hill Vector Core N/A AAV9-CAG-FLEX-GCaMP6s-WPRE.SV40 Chen et al., 2013 Addgene viral prep # 100842-AAV9; RRID: Addgene_100842 AAV8-hSyn-FLEx-TVA-P2A-eGFP-2A-oG Gene Transfer, Targeting and Therapeutics Facility of Salk Institute N/A G-Deleted rabies-mCherry Gene Transfer Targeting and Therapeutics Core of Salk Institute N/A AAV2-CAG-FLEx-TC66T Gift from Liquan Luo lab, Stanford University N/A AAV2-CAG-FLEx-RG Gift from Liquan Luo lab, Stanford University N/A CVS N2c dG Histone-eGFP (H2BeGFP) from A. Cetin and H. Zeng in the Allen Institute for Brain Science N/A Chemicals, peptides, and recombinant proteins Clozapine-N-oxide Sigma-Aldrich C0832 Phenylephrine Sigma-Aldrich P1240000 4-hydroxytamoxifen Sigma-Aldrich H6278 Sodium nitroprusside Sigma-Aldrich PHR1423 Critical commercial assays RNAscope Manual Fluorescent Multiplex kit V2 Advanced Cell Diagnostics 323100 Experimental models: Organisms/strains Mouse, TRAP2 The Jackson Laboratory 030323 Mouse, Ai14 The Jackson Laboratory 007914 Mouse, EGFP-L10a The Jackson Laboratory 024750 Mouse, Gad2-Cre The Jackson Laboratory 010802 Mouse, ChAT-Cre The Jackson Laboratory 006410 Mouse, Tac1-Cre The Jackson Laboratory 021877 Mouse, Cartpt-Cre from H. Zeng, Allen Institute for Brain Science Jax stock no. 009615 Mouse, Th-Cre European Mouse Mutant Archive EM:00254 (Continued on next page) e1 Neuron 110, 3986–3999.e1–e6, December 7, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides eGFP In situ hybridization probe Advanced Cell Diagnostics 400281 Slc17a6 In situ hybridization probe Advanced Cell Diagnostics 319171 Slc32a1 In situ hybridization probe Advanced Cell Diagnostics 319191 Chat In situ hybridization probe Advanced Cell Diagnostics 408731 tdTomato In situ hybridization probe Advanced Cell Diagnostics 317041 Cartpt In situ hybridization probe Advanced Cell Diagnostics 432001 Adcyap In situ hybridization probe Advanced Cell Diagnostics 405911 Nos1 In situ hybridization probe Advanced Cell Diagnostics 437651 Pdyn In situ hybridization probe Advanced Cell Diagnostics 318771 Gal In situ hybridization probe Advanced Cell Diagnostics 400961 Tac1 In situ hybridization probe Advanced Cell Diagnostics 410351 Cre In situ hybridization probe Advanced Cell Diagnostics 312281 mCherry In situ hybridization probe Advanced Cell Diagnostics 431201 Piezo1 In situ hybridization probe Advanced Cell Diagnostics 500511 Piezo2 In situ hybridization probe Advanced Cell Diagnostics 400191 Th In situ hybridization probe Advanced Cell Diagnostics 317621 Gad2 In situ hybridization probe Advanced Cell Diagnostics 415071 Software and algorithms MATLAB MathWorks R2016b, R2020a OpenEx software Tucker-Davis Technologies N/A Synapse Tucker-Davis Technologies N/A ImageJ NIH https://imagej.nih.gov/ij/ KlustaKwik Kenneth D. Harris http://klustakwik.sourceforge.net Ponemah DSI v 5.20 Bonsai Neurophotometrics FP3003 system QuickNII Puchades et al., 2019 https://www.nitrc.org/projects/quicknii; RRID:SCR_016854 Ilastik Berg et al., 2019 https://www.ilastik.org/ Nutil Quantifier Groeneboom et al., 2020; Yates et al., 2019 https://www.nitrc.org/projects/nutil/ Meshview Groeneboom et al., 2020 https://www.nitrc.org/projects/meshview; SCR_017222
Multiplex Assay:Article Title: Cardiovascular baroreflex circuit moonlights in sleep control.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-GFP for immunochemistry Aves Labs GFP-1020; RRID: AB_10000240 Rat anti-mCherry for immunochemistry Thermo Fisher Scientific Cat# M11217; RRID: AB_2536611 Rabbit anti-cFos for immunochemistry Synaptic System Cat# 226003; RRID: AB_2231974 Bacterial and virus strains AAV2-EF1a-DIO-ChR2-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-iC++-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-hM3D(Gq)-mCherry UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-mCherry UNC Chapel Hill Vector Core N/A AAV2-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep # 44361-AAV2; RRID: Addgene_44361 AAV2-hSyn-DIO-mCherry Addgene (from Bryan Roth) Addgene viral prep # 50459-AAV2; RRID: Addgene_50459 AAV2-EF1a-DIO-taCasp3-TEVp UNC Chapel Hill Vector Core N/A AAV9-CAG-FLEX-GCaMP6s-WPRE.SV40 Chen et al., 2013 Addgene viral prep # 100842-AAV9; RRID: Addgene_100842 AAV8-hSyn-FLEx-TVA-P2A-eGFP-2A-oG Gene Transfer, Targeting and Therapeutics Facility of Salk Institute N/A G-Deleted rabies-mCherry Gene Transfer Targeting and Therapeutics Core of Salk Institute N/A AAV2-CAG-FLEx-TC66T Gift from Liquan Luo lab, Stanford University N/A AAV2-CAG-FLEx-RG Gift from Liquan Luo lab, Stanford University N/A CVS N2c dG Histone-eGFP (H2BeGFP) from A. Cetin and H. Zeng in the Allen Institute for Brain Science N/A Chemicals, peptides, and recombinant proteins Clozapine-N-oxide Sigma-Aldrich C0832 Phenylephrine Sigma-Aldrich P1240000 4-hydroxytamoxifen Sigma-Aldrich H6278 Sodium nitroprusside Sigma-Aldrich PHR1423 Critical commercial assays RNAscope Manual Fluorescent Multiplex kit V2 Advanced Cell Diagnostics 323100 Experimental models: Organisms/strains Mouse, TRAP2 The Jackson Laboratory 030323 Mouse, Ai14 The Jackson Laboratory 007914 Mouse, EGFP-L10a The Jackson Laboratory 024750 Mouse, Gad2-Cre The Jackson Laboratory 010802 Mouse, ChAT-Cre The Jackson Laboratory 006410 Mouse, Tac1-Cre The Jackson Laboratory 021877 Mouse, Cartpt-Cre from H. Zeng, Allen Institute for Brain Science Jax stock no. 009615 Mouse, Th-Cre European Mouse Mutant Archive EM:00254 (Continued on next page) e1 Neuron 110, 3986–3999.e1–e6, December 7, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides eGFP In situ hybridization probe Advanced Cell Diagnostics 400281 Slc17a6 In situ hybridization probe Advanced Cell Diagnostics 319171 Slc32a1 In situ hybridization probe Advanced Cell Diagnostics 319191 Chat In situ hybridization probe Advanced Cell Diagnostics 408731 tdTomato In situ hybridization probe Advanced Cell Diagnostics 317041 Cartpt In situ hybridization probe Advanced Cell Diagnostics 432001 Adcyap In situ hybridization probe Advanced Cell Diagnostics 405911 Nos1 In situ hybridization probe Advanced Cell Diagnostics 437651 Pdyn In situ hybridization probe Advanced Cell Diagnostics 318771 Gal In situ hybridization probe Advanced Cell Diagnostics 400961 Tac1 In situ hybridization probe Advanced Cell Diagnostics 410351 Cre In situ hybridization probe Advanced Cell Diagnostics 312281 mCherry In situ hybridization probe Advanced Cell Diagnostics 431201 Piezo1 In situ hybridization probe Advanced Cell Diagnostics 500511 Piezo2 In situ hybridization probe Advanced Cell Diagnostics 400191 Th In situ hybridization probe Advanced Cell Diagnostics 317621 Gad2 In situ hybridization probe Advanced Cell Diagnostics 415071 Software and algorithms MATLAB MathWorks R2016b, R2020a OpenEx software Tucker-Davis Technologies N/A Synapse Tucker-Davis Technologies N/A ImageJ NIH https://imagej.nih.gov/ij/ KlustaKwik Kenneth D. Harris http://klustakwik.sourceforge.net Ponemah DSI v 5.20 Bonsai Neurophotometrics FP3003 system QuickNII Puchades et al., 2019 https://www.nitrc.org/projects/quicknii; RRID:SCR_016854 Ilastik Berg et al., 2019 https://www.ilastik.org/ Nutil Quantifier Groeneboom et al., 2020; Yates et al., 2019 https://www.nitrc.org/projects/nutil/ Meshview Groeneboom et al., 2020 https://www.nitrc.org/projects/meshview; SCR_017222
Mutagenesis:Article Title: Cardiovascular baroreflex circuit moonlights in sleep control.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-GFP for immunochemistry Aves Labs GFP-1020; RRID: AB_10000240 Rat anti-mCherry for immunochemistry Thermo Fisher Scientific Cat# M11217; RRID: AB_2536611 Rabbit anti-cFos for immunochemistry Synaptic System Cat# 226003; RRID: AB_2231974 Bacterial and virus strains AAV2-EF1a-DIO-ChR2-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-iC++-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-eYFP UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-hM3D(Gq)-mCherry UNC Chapel Hill Vector Core N/A AAV2-EF1a-DIO-mCherry UNC Chapel Hill Vector Core N/A AAV2-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep # 44361-AAV2; RRID: Addgene_44361 AAV2-hSyn-DIO-mCherry Addgene (from Bryan Roth) Addgene viral prep # 50459-AAV2; RRID: Addgene_50459 AAV2-EF1a-DIO-taCasp3-TEVp UNC Chapel Hill Vector Core N/A AAV9-CAG-FLEX-GCaMP6s-WPRE.SV40 Chen et al., 2013 Addgene viral prep # 100842-AAV9; RRID: Addgene_100842 AAV8-hSyn-FLEx-TVA-P2A-eGFP-2A-oG Gene Transfer, Targeting and Therapeutics Facility of Salk Institute N/A G-Deleted rabies-mCherry Gene Transfer Targeting and Therapeutics Core of Salk Institute N/A AAV2-CAG-FLEx-TC66T Gift from Liquan Luo lab, Stanford University N/A AAV2-CAG-FLEx-RG Gift from Liquan Luo lab, Stanford University N/A CVS N2c dG Histone-eGFP (H2BeGFP) from A. Cetin and H. Zeng in the Allen Institute for Brain Science N/A Chemicals, peptides, and recombinant proteins Clozapine-N-oxide Sigma-Aldrich C0832 Phenylephrine Sigma-Aldrich P1240000 4-hydroxytamoxifen Sigma-Aldrich H6278 Sodium nitroprusside Sigma-Aldrich PHR1423 Critical commercial assays RNAscope Manual Fluorescent Multiplex kit V2 Advanced Cell Diagnostics 323100 Experimental models: Organisms/strains Mouse, TRAP2 The Jackson Laboratory 030323 Mouse, Ai14 The Jackson Laboratory 007914 Mouse, EGFP-L10a The Jackson Laboratory 024750 Mouse, Gad2-Cre The Jackson Laboratory 010802 Mouse, ChAT-Cre The Jackson Laboratory 006410 Mouse, Tac1-Cre The Jackson Laboratory 021877 Mouse, Cartpt-Cre from H. Zeng, Allen Institute for Brain Science Jax stock no. 009615 Mouse, Th-Cre European Mouse Mutant Archive EM:00254 (Continued on next page) e1 Neuron 110, 3986–3999.e1–e6, December 7, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides eGFP In situ hybridization probe Advanced Cell Diagnostics 400281 Slc17a6 In situ hybridization probe Advanced Cell Diagnostics 319171 Slc32a1 In situ hybridization probe Advanced Cell Diagnostics 319191 Chat In situ hybridization probe Advanced Cell Diagnostics 408731 tdTomato In situ hybridization probe Advanced Cell Diagnostics 317041 Cartpt In situ hybridization probe Advanced Cell Diagnostics 432001 Adcyap In situ hybridization probe Advanced Cell Diagnostics 405911 Nos1 In situ hybridization probe Advanced Cell Diagnostics 437651 Pdyn In situ hybridization probe Advanced Cell Diagnostics 318771 Gal In situ hybridization probe Advanced Cell Diagnostics 400961 Tac1 In situ hybridization probe Advanced Cell Diagnostics 410351 Cre In situ hybridization probe Advanced Cell Diagnostics 312281 mCherry In situ hybridization probe Advanced Cell Diagnostics 431201 Piezo1 In situ hybridization probe Advanced Cell Diagnostics 500511 Piezo2 In situ hybridization probe Advanced Cell Diagnostics 400191 Th In situ hybridization probe Advanced Cell Diagnostics 317621 Gad2 In situ hybridization probe Advanced Cell Diagnostics 415071 Software and algorithms MATLAB MathWorks R2016b, R2020a OpenEx software Tucker-Davis Technologies N/A Synapse Tucker-Davis Technologies N/A ImageJ NIH https://imagej.nih.gov/ij/ KlustaKwik Kenneth D. Harris http://klustakwik.sourceforge.net Ponemah DSI v 5.20 Bonsai Neurophotometrics FP3003 system QuickNII Puchades et al., 2019 https://www.nitrc.org/projects/quicknii; RRID:SCR_016854 Ilastik Berg et al., 2019 https://www.ilastik.org/ Nutil Quantifier Groeneboom et al., 2020; Yates et al., 2019 https://www.nitrc.org/projects/nutil/ Meshview Groeneboom et al., 2020 https://www.nitrc.org/projects/meshview; SCR_017222
Article Title: Maladaptive Downregulation of Autonomous Subthalamic Nucleus Activity following the Loss of Midbrain Dopamine Neurons
Article Snippet: Vector Core Addgene viral prep # 105539-AAV9 AAV9.hSyn.HI.eGFP-Cre.WPRE.SV40 U. Penn. .. Vector Core Addgene viral prep # 105540-AAV9 AAV8-hSyn-DIO-hM3D(Gq)-mCherry Addgene; Krashes et al., 2011 Addgene viral prep # 44361-AAV8 Chemicals, Peptides, and Recombinant Proteins Apamin Sigma-Aldrich Cat#A9459 Catalase-polyethylene glycol Sigma-Aldrich Cat#C4963 6-Hydroxydopamine hydrobromide Tocris Bioscience Cat#2547 CGP 55845 hydrochloride Abcam Inc Cat#ab120337 Clozapine N-oxide Tocris Bioscience Cat#4936 D-APV Abcam Inc Cat#ab120003 Desipramine hydrochloride Sigma-Aldrich Cat#P3900 DNQX disodium salt Abcam Inc Cat#ab120169 Glibenclamide Sigma-Aldrich Cat#G0639 L-Glutathione Sigma-Aldrich Cat#G4251 N-Methyl D-aspartic acid Tocris Bioscience Cat#0114 Pargyline hydrochloride Sigma-Aldrich Cat#P8013 Sodium pyruvate Sigma-Aldrich Cat#P2256 SR95531 (Gabazine) Abcam Inc Cat#ab120042 Deposited Data Raw and analyzed data This paper https://doi.org/10.17605/OSF.IO/7KWD2 Experimental Models: Organisms/Strains C57BL/6 mice The Jackson Laboratory RRID:IMSR_JAX:000664 B6.Cg-Tg(Adora2a-Chrm3*,-mCherry) AD6Blr/J mice The Jackson Laboratory RRID:IMSR_JAX:017863 B6.129S4-Grin1tm2Stl/J mice The Jackson Laboratory RRID:IMSR_JAX:005246 Tg(Gabrr3-cre)KC112Gsat mice Mutant Mouse Resource & Research Centers RRID:MGI:5528400 Software and Algorithms Clampfit (version 10.5) Molecular Devices N/A Igor Pro (version 6.37) Wavemetrics Inc RRID: SCR_000325 Neurolucida (version 11.03) MBF Bioscience RRID: SCR_001775 (Continued on next page) Cell Reports 28, 992–1002.e1–e4, July 23, 2019 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Neurolucida Explorer (version 11.08) MBF Bioscience N/A NIH ImageJ (version 1.47) NIH RRID: SCR_003070 OriginPro (version 2015) OriginLab Co. RRID: SCR_014212 pClamp (version 10.5) Molecular Device RRID: SCR_011323 Prism (version 6.0h) Graphpad software Inc RRID: SCR_002798 R (version 3.3.1) http://www.R-project.org/ RRID: SCR_001905
other:Article Title: Elevation of hilar mossy cell activity suppresses hippocampal excitability and avoidance behavior.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER ImageJ ImageJ https://imagej.net Coreldarw X8 CorelDRAW https://www.coreldraw.com/en/ Other 1-site Fiber Photometry System Doric Cat# FPS_1S_405/GFP_400-0.57 Metal Fiber Optic Cannula Inper Cat# FOC-M-400-1.25-0.50-5.0 Fiberoptic Rotary Joint Doric Cat# FRJ_1x1_FC-FC Optical Fiber Thorlabs Cat# FT200UMT Multimode Ceramic Zirconia Ferrules Precision Fiber Products Cat# 165254857 589 nm DPSS Laser System OEM Laser Cat# MLG-F-589-50mW The microsyringe pump Kd Scientific Cat# KDS310 NanoFil 10 mL syringe World Precision Instruments Cat# NANOFIL 34G beveled NanoFil needle World Precision Instruments Cat# NF34BV-2 Microtome Leica Cat# SM2010R Microslicers Dosaka Cat# DTK-1000 ELC Amplifier npi electronic Cat# ELC-01MX MultiClamp 700B Microelectrode Amplifier Molecular Devices Cat# MULTICLAMP 700B Digitizer Molecular Devices Cat# Digidata 1440A Single-Barrel Borosilicate Capillary Glass with Microfilament A-M system Cat# 602000 Borosilicate Glass with Filament Harvard Apparatus Cat# GC150F-7.5
Plasmid Preparation:Article Title: Preoptic BRS3 neurons increase body temperature and heart rate via multiple pathways.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-DsRed/mCherry/tdTomato rabbit Takara Cat#632496; RRID: AB_10013483 Anti-GFP chicken Abcam Cat#13970; RRID: AB_300798 Goat anti-Chicken IgY (H+L) Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat#A-11039, RRID: AB_2534096 Goat anti-Rabbit IgG (H+L) CrossAdsorbed Secondary Antibody, Alexa Fluor 555 Thermo Fisher Scientific Cat#A-21428; RRID: AB_2535849 Bacterial and virus strains pAAV1-ef1a-DIO-ChR2-EYFP Gift from Karl Deisseroth Addgene viral prep 20298-AAV1; RRID: Addgene_20297 pAAV8-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep 44361-AAV8 RRID: Addgene_44361 pAAV8-hSyn-DIO-hM4D(Gi)-mCherry Krashes et al., 2011 Addgene viral prep 44362-AAV8; RRID: Addgene_44362 AAV9-Ef1a-DO-hChR2(H134R)-mCherry Gift from Bernardo Sabatini (Kozorovitskiy et al, 2012) packaged by Vigene Biosciences Addgene plasmid # 37082; RRID: Addgene_37082 AAV8-hSyn-DIO-mCherry Krashes et al., 2011 Addgene viral prep 50459-AAV8 RRID: Addgene_50459 AAV8-Ef1a-DIO-synaptophysin-mCherry Virovek N/A AAV-DJ-CMV-DIO-eGFP-2A-TeNT Similar to Campos et al. (2018) Stanford Viral Core GVVCAAV-71 AAV5-EF1a-DIO-EYFP-WPRE-pA gift from Karl Deisseroth Addgene viral prep 27056-AAV5; RRID: Addgene_27056 AAV8-Ef1a-FLEX-TVA-mCherry UNC vector core N/A EnvA-G-Deleted-Rabies-Egfp Gene Transfer, Targeting and Therapeutics Core at Salk Institute Cat#32635 Chemicals, peptides, and recombinant proteins CNO Sigma Cat#C0832-5MG Saline Medline Cat#DYND1000 MK-5046 MedChemExpress Cat#HY-14342 LPS Sigma Cat#L6511-25mg TTX Abcam Cat#ab120054 4-aminopyridine (4-AP) Sigma Cat#A7840 DMSO Sigma Cat#472301-100ML tamoxifen Sigma Cat#T5648-5G Propranolol Sigma Cat#P0884-5G Corn oil Sigma Cat#C8267-500ML Experimental models: Organisms/strains BRS3-Cre; B6.129S6(C3)Brs3tm3.1(cre/ERT2)Rei/J The Jackson Laboratory Cat#032614 Ai14 (Cre-dependent tdTomato); B6.CgGt(ROSA)26Sortm14(CAG-tdTomato)Hze/J The Jackson Laboratory Cat#007914 Ai6 (Cre-dependent GFP); B6.Cg-Gt(ROSA) 26Sortm6(CAG-ZsGreen1)Hze/J The Jackson Laboratory Cat#007906 Gad2-2a-NLS-mCherry (Gad2-mCherry); B6;129S-Gad2tm1.1Ksvo/J The Jackson Laboratory Cat#023140 C57BL/6J The Jackson Laboratory Cat#000664 (Continued on next page) e1 Cell Metabolism 33, 1–15.e1–e6, July 6, 2021 .. REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms Prism v9.0.2 Graphpad https://www.graphpad.com/ VitalView v5.0 Starr Life Sciences https://www.starrlifesciences.com/ Zen (Black) Zeiss https://www.zeiss.com/microscopy/us/ home.html Ponemah v6.30 Data Sciences International https://www.datasci.com/ EthoVision XT Noldus https://www.noldus.com/ Other E-mitter (body temperature telemetry system – Implants), Starr Life Sciences, Oakmont, PA, USA Starr Life Sciences Cat# G2 E-Mitter E-mitter receiver/energizer (body temperature telemetry system) Starr Life Sciences Cat# ER4000 Intra-arterial pressure telemetry probe Data Sciences International HD-X10 or HD-X11 PhysioTel RPC-1 receiver Data Sciences International RPC-1 CLAMS Columbus Instruments Sn# 110117
Saline:Article Title: Preoptic BRS3 neurons increase body temperature and heart rate via multiple pathways.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-DsRed/mCherry/tdTomato rabbit Takara Cat#632496; RRID: AB_10013483 Anti-GFP chicken Abcam Cat#13970; RRID: AB_300798 Goat anti-Chicken IgY (H+L) Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat#A-11039, RRID: AB_2534096 Goat anti-Rabbit IgG (H+L) CrossAdsorbed Secondary Antibody, Alexa Fluor 555 Thermo Fisher Scientific Cat#A-21428; RRID: AB_2535849 Bacterial and virus strains pAAV1-ef1a-DIO-ChR2-EYFP Gift from Karl Deisseroth Addgene viral prep 20298-AAV1; RRID: Addgene_20297 pAAV8-hSyn-DIO-hM3D(Gq)-mCherry Krashes et al., 2011 Addgene viral prep 44361-AAV8 RRID: Addgene_44361 pAAV8-hSyn-DIO-hM4D(Gi)-mCherry Krashes et al., 2011 Addgene viral prep 44362-AAV8; RRID: Addgene_44362 AAV9-Ef1a-DO-hChR2(H134R)-mCherry Gift from Bernardo Sabatini (Kozorovitskiy et al, 2012) packaged by Vigene Biosciences Addgene plasmid # 37082; RRID: Addgene_37082 AAV8-hSyn-DIO-mCherry Krashes et al., 2011 Addgene viral prep 50459-AAV8 RRID: Addgene_50459 AAV8-Ef1a-DIO-synaptophysin-mCherry Virovek N/A AAV-DJ-CMV-DIO-eGFP-2A-TeNT Similar to Campos et al. (2018) Stanford Viral Core GVVCAAV-71 AAV5-EF1a-DIO-EYFP-WPRE-pA gift from Karl Deisseroth Addgene viral prep 27056-AAV5; RRID: Addgene_27056 AAV8-Ef1a-FLEX-TVA-mCherry UNC vector core N/A EnvA-G-Deleted-Rabies-Egfp Gene Transfer, Targeting and Therapeutics Core at Salk Institute Cat#32635 Chemicals, peptides, and recombinant proteins CNO Sigma Cat#C0832-5MG Saline Medline Cat#DYND1000 MK-5046 MedChemExpress Cat#HY-14342 LPS Sigma Cat#L6511-25mg TTX Abcam Cat#ab120054 4-aminopyridine (4-AP) Sigma Cat#A7840 DMSO Sigma Cat#472301-100ML tamoxifen Sigma Cat#T5648-5G Propranolol Sigma Cat#P0884-5G Corn oil Sigma Cat#C8267-500ML Experimental models: Organisms/strains BRS3-Cre; B6.129S6(C3)Brs3tm3.1(cre/ERT2)Rei/J The Jackson Laboratory Cat#032614 Ai14 (Cre-dependent tdTomato); B6.CgGt(ROSA)26Sortm14(CAG-tdTomato)Hze/J The Jackson Laboratory Cat#007914 Ai6 (Cre-dependent GFP); B6.Cg-Gt(ROSA) 26Sortm6(CAG-ZsGreen1)Hze/J The Jackson Laboratory Cat#007906 Gad2-2a-NLS-mCherry (Gad2-mCherry); B6;129S-Gad2tm1.1Ksvo/J The Jackson Laboratory Cat#023140 C57BL/6J The Jackson Laboratory Cat#000664 (Continued on next page) e1 Cell Metabolism 33, 1–15.e1–e6, July 6, 2021 .. REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms Prism v9.0.2 Graphpad https://www.graphpad.com/ VitalView v5.0 Starr Life Sciences https://www.starrlifesciences.com/ Zen (Black) Zeiss https://www.zeiss.com/microscopy/us/ home.html Ponemah v6.30 Data Sciences International https://www.datasci.com/ EthoVision XT Noldus https://www.noldus.com/ Other E-mitter (body temperature telemetry system – Implants), Starr Life Sciences, Oakmont, PA, USA Starr Life Sciences Cat# G2 E-Mitter E-mitter receiver/energizer (body temperature telemetry system) Starr Life Sciences Cat# ER4000 Intra-arterial pressure telemetry probe Data Sciences International HD-X10 or HD-X11 PhysioTel RPC-1 receiver Data Sciences International RPC-1 CLAMS Columbus Instruments Sn# 110117
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