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. Author manuscript; available in PMC: 2020 Dec 12.
Published in final edited form as: Cell. 2019 Dec 5;179(7):1483–1498.e22. doi: 10.1016/j.cell.2019.11.016
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
anti-GFAP rabbit mAb Roche Cat#05269784001
Texas Red conjugated goat anti-rabbit IgG Thermo Fisher Scientific Cat# T-2767; RRID:AB_2556776
FITC anti-CD11b eBioscience Cat#11–0112–85; RRID: AB_464936
APC anti-CD45 eBioscience Cat#17–0451–83; RRID:AB_469393
PerCP anti-Ly-6C Biolegend Cat#128028; RRID:AB_10897805
PE anti-mouse CD45R/B220 BD Biosciences Cat#553089; RRID:AB_394619
PE anti-mouse TER-119 Biolegend Cat#116207; RRID:AB_313708
PE anti-O4 R&D systems Cat#FAB1326P; RRID:AB_664169
PE anti-CD105 eBioscience Cat#12–1051–82; RRID:AB_657524
PE anti-CD140a eBioscience Cat#12–1401–81; RRID:AB_657615
PE anti-Ly-6G Biolegend Cat#127608; RRID:AB_2129141
BV421 anti-CD3, BioLegend Cat#100227; RRID:AB_10900227
BV605 anti-CD4 BioLegend Cat#100547; RRID:AB_11125962
FITC anti-IFNγ BioLegend Cat#505806; RRID:AB_315400
PE anti-IL-17a eBioscience Cat#12–7177–81; RRID:AB_763582
APC anti-IL-10 BioLegend Cat#505010; RRID:AB_315364
PerCP-Cy5.5 anti-FoxP3 eBioscience Cat#45–5773–82; RRID:AB_914351
CD11b Microbead for mouse and human Miltenyi Cat#130–049–601
anti-Histone H3 rabbit polyclonal antibody Sigma-Aldrich Cat#07–690; RRID:AB_417398
anti-Lamin B1 rabbit mAb (HRP Conjugate) Cell Signaling Technology Cat#15068S; RRID:AB_2798695
anti-NF-κB p65 rabbit mAb Cell Signaling Technology Cat#8242S; RRID:AB_10859369
anti-Bsg rabbit mAb Thermo Fisher Scientific Cat#MA5–32534; RRID:AB_2809811
anti-Hk2 rabbit mAb Cell signaling Technology Cat#2867; RRID:AB_2232946
anti-p65 rabbit mAb Cell Signaling Technology Cat#8242; RRID:AB_10859369
control IgG isotype antibody Cell Signaling Technology Cat#3900S; RRID:AB_1550038
anti-MAVS rabbit mAb Cell Signaling Technology Cat#4983; RRID:AB_823566
anti-MAVS rabbit mAb Cell Signaling Technology Cat#24930S; RRID:AB_2798889
anti-MAVS mouse mAb Santa Cruz Biotechnology Cat#sc-365333; RRID:AB_10844335
anti-MAVS rabbit polyclonal Ab abcam Cat#ab189109
anti-cPLA2 (4–4B-3C) mouse mAb Santa Cruze Biotechnology Cat#sc-454; RRID:AB_627288
anti-cPLA2 rabbit mAb Cell Signaling Technology Cat#2832; RRID:AB_2164442
anti-HK2 rabbit mAb abcam Cat#ab228819
anti-HK2 rabbit mAb Cell Signaling Technology Cat#2867; RRID:AB_2232946
anti-HK2 (B8) mouse mAb Santa Cruz Biotechnology Cat#sc-374091; RRID:AB_10917915
anti-flag mouse mAb Sigma-Aldrich Cat#F1804; RRID:AB_262044
anti-flag rabbit polyclonal Ab Sigma-Aldrich Cat#F7425; RRID:AB_439687
anti-GFP rabbit polyclonal Ab abcam Cat#ab290; RRID:AB_303395
anti-rabbit IgG HRP-linked Ab Cell Signaling Technology Cat#7074S; RRID:AB_2099233
anti-mouse IgG HRP-linked Ab Cell Signaling Technology Cat#7076S; RRID:AB_330924
goat anti-rabbit IgG poly-HRP Invitrogen Cat#32260; RRID:AB_1965959
goat anti-mouse IgG poly-HRP Invitrogen Cat#32230; RRID:AB_1965958
anti-Tom20 rabbit polyclonal Ab Santa Cruz Biotechnology Cat#sc-11415; RRID:AB_2207533
AF635 conjugated anti-mouse IgG goat Ab Life Technologies Cat#A31574; RRID:AB_1500640
biotinylated anti-rabbit immunoglobulins goat Ab Agilent/Dako Cat#E0432; RRID:AB_2313609
Cy3 conjugated mouse anti-human GFAP Sigma-Aldrich Cat#C9205; RRID:AB_476889
anti-GFAP mouse mAb Millipore Cat#MAB360; RRID:AB_11212597
anti-COX4-I1 goat polyclonal Ab R&D Systems Cat#AF5814; RRID:AB_2085286
anti-NF-κB p65 (acetyl-Lys310) rabbit polyclonal Ab Sigma-Aldrich Cat#SAB4502616; RRID:AB_10745506
anti-mouse c3d goat polyclonal antibody R&D Systems Cat#AF2655; RRID:AB_2066622
AF488 conjugated anti-rabbit IgG goat Ab Thermo Fisher Scientific Cat#A11008; RRID:AB_143165
AF488 conjugated anti-goat IgG donkey antibody Thermo Fisher Scientific Cat#A11055; RRID:AB_2534102
AF647 anti-rabbit IgG donkey fab fragment Jackson Immunoresearch Cat#711–607–003; RRID:AB_2340626
AF647 conjugated anti-mouse IgG donkey Ab abcam Cat#ab150107
Rhodamine anti-mouse IgG donkey fab fragment Jackson Immunoresearch Cat#715–297–003; RRID:AB_2340836
AF405 conjugated anti-mouse IgG goat antibody Thermo Fisher Scientific Cat#A31553; RRID:AB_221604
AF405 conjugated anti-rabbit IgG goat antibody Thermo Fisher Scientific Cat#A31556; RRID:AB_221605
Bacterial and Virus Strains
Non-viable desiccated M.Tuberculosis H-37Ra BD Bioscience Cat#231141
NEB Stable E. Coli New England Biolabs Cat#C3040
NEB 10-beta Competent E. coli New England Biolabs Cat#C3019
Biological Samples
Human fetal astrocytes Laboratory of Developmental Biology, Eunice Kennedy Shriver National Institute of Child Health and Human Development N/A
Human pathology samples University of Montreal Health Centre N/A
Paraffin-embedded brain sections Neuropathology Department of the Notre Dame Hospital N/A
Chemicals, Peptides, and Recombinant Proteins
MOG35–55 peptide Genemed Synthesis Cat#110582
Incomplete Freund’s adjuvant BD Bioscience Cat#263910
Miglustat hydrochloride MedChemExpress Cat#HY-17020A
Miglustat BOC Sciences Cat#72599–27–0
Pertussis toxin List biological Laboratories Cat#180
Papain Sigma-Aldrich Cat#P4762
Collagenase D Roche Cat#11088858001
DNase I Thermo Fisher Scientific Cat#90083
DNase I QIAGEN Cat#79254
Percoll GE Healthcare Cat#17–5445–01
UltraComp eBeads™ Compensation Beads Invitrogen Cat#01–2222–41
PMA (phorbol 12-myristate 13-acetate) Sigma-Aldrich Cat#P1585
Ionomycin Sigma-Aldrich Cat#I9657
GolgiSTOP BD Biosciences Cat#554724
Taqman Fast Universal PCR Master Mix Life Technologies Cat#4367846
Fast SYBR Green Master Mix Thermo Fisher Scientific Cat#4385612
Poly-L-Lysine Sigma-Aldrich Cat#P4707
Polybrene Sigma-Aldrich Cat#TR-1003-G
INTERFERin Polyplus transfection Cat#409
Mouse TNFα recombinant protein R&D systems Cat#410-MT-010
Human TNFα recombinant protein R&D systems Cat#210-TA-020
Mouse IFNγ recombinant protein R&D systems Cat#485-MI-100
Human IFNγ recombinant protein R&D systems Cat#285-IF-100
Accutase solution Sigma-Aldrich Cat#A6964
Pyrrophenone Santa Cruz Biotechnology Cat#sc-296161
N-acetyl cysteine Sigma-Aldrich Cat#A7250
HBEGF Sigma-Aldrich Cat#E4643
Rat II-1α recombinant protein Sigma-Aldrich Cat#I3901
Human TNFα recombinant protein Cell Signaling Technology Cat#8902SF
Human Complement Component C1q, Native Protein MyBioSource Cat#MBS143105
transferrin Sigma-Aldrich Cat#T-1147
BSA Sigma-Aldrich Cat#A8806
putrescine Sigma-Aldrich Cat#P5780
progesterone Sigma-Aldrich Cat#P8783
sodium selenite Sigma-Aldrich Cat#S5261
Formaldehyde solution, molecular grade Sigma-Aldrich Cat#F8775
Halt Protease and Phosphatase Inhibitor Cocktail Thermo Fisher Scientific Cat#78441
SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat#34095
KwikQuant Ultra Digital-ECL Substrate Solution Kindle Biosciences Cat#R1002
Protein A-Dynabeads magnetic beads Thermo Fisher Scientific Cat#10001D
Protein G-Dynabeads magnetic beads Thermo Fisher Scientific Cat#10003D
SeaKem GOLD agarose Lonza Cat#50152
Laminin Sigma-Aldrich Cat#L2020
MitoTracker™ Red CMXRos Thermo Fisher Scientific Cat#M7512
donkey serum Sigma-Aldrich Cat#D9663
goat serum Sigma-Aldrich Cat#G9023
mouse serum Sigma-Aldrich Cat#M5905
DAPI Fluoromount-G SouthernBiotech Cat#0100–20
NuPAGE LDS sample buffer Invitrogen Cat#NP0007
Hot Start Taq 2X Master Mix New England Biolabs Cat#M0496
FuGENE HD Transfection Reagent Promega Cat#E2311
UK-5099 Tocris Bioscience Cat#4186
methylglyoxal solution Sigma-Aldrich Cat#M0252
Tyramide-AF488 Invitrogen Cat#B40953
DAPI Sigma-Aldrich Cat#1.24653
Mowiol Sigma-Aldrich Cat#81381
OCT Sakura Cat#4583
2-DG Sigma-Aldrich Cat#D6134
Critical Commercial Assays
Intracellular antibody labeling kit eBioscience Cat#00–5523
Aqua LIVE/DEAD cell stain kit Thermo Fisher Scientific Cat#L34966
RNeasy Mini Kit QIAGEN Cat#74106
custom-made astrocyte-targeted nCounter Gene Expression code set NanoString; (Rothhammer et al., 2017) N/A
High-Capacity cDNA Reverse Transcription Kit Life Technologies Cat#4368813
ViraPower Packaging mix Thermo Fisher Scientific Cat#K497500
Lenti-X concentrator kit Clontech Cat#631231
CytoTox 96 Nonradioactive Cytotoxicity Assay kit Promega Cat#G1780
Cell Fractionation kit Cell Signaling Technology Cat#9038S
NucleoSpin® Gel and PCR Clean-up kit Macherey-Nagel Cat#740609.250
Mitochondria Isolation Kit abcam Cat#ab110170
Q5® Site-Directed Mutagenesis Kit New England Biolabs Cat#E0554S
Dual-Luciferase® Reporter Assay System Promega Cat#E1910
cellular reactive oxygen species detection assay kit abcam Cat#ab113851
CyQUANT cell proliferation assay kit Invitrogen Cat#C7026
L-lactate assay kit Biomedical Research Service & Clinical Application Cat#A-108
Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat#23225
Hexokinase Colorimetric Assay Kit BioVision Cat#K789
EnzyChrom Pyruvate Assay Kit BioAssay Systems Cat#EPYR-100
Seahorse XF Cell Mito Stress Test Kit Agilent Technologies Cat#103015–100
avidin-biotin blocking kit Thermo Fisher Scientific Cat#004303
Deposited Data
RNA-seq This paper GEO:GSE139531
Experimental Models: Cell Lines
Human: HEK-293FT Invitrogen Cat#R70007
Human: HEK-293 ATCC Cat#CRL-1573
Mouse: N2A neuronal cells ATCC Cat#CCL-131
Experimental Models: Organisms/Strains
Mouse: C57BL/6J The Jackson Laboratory JAX: 000664
Mouse: NOD/ShiLtJ The Jackson Laboratory JAX: 001976
Mouse: B6;129-Mavstm1Zjc/J The Jackson Laboratory JAX: 008634
Oligonucleotides
See Table S1 This paper N/A
Recombinant DNA
pLenti-Gfap-GFP-shB4galt6 This paper N/A
pLenti-Gfap-GFP-shUgcg This paper N/A
pLenti-Gfap-GFP-shCers1 This paper N/A
pLenti-Gfap-GFP-shCers2 This paper N/A
pLenti-Gfap-GFP-shCers4 This paper N/A
pLenti-Gfap-GFP-shCers5 This paper N/A
pLenti-Gfap-GFP-shCers6 This paper N/A
pLenti-Gfap-GFP-shPla2g4a This paper N/A
pLenti-Gfap-GFP-shMavs This paper N/A
pLenti-Gfap-GFP-shBsg This paper N/A
pCMV3-C-His-PLA2G4A Sino Biological Cat#MG51714-CH
pCMV3-C-His-PLA2G4A (S111P) This paper N/A
pCMV3-C-His-PLA2G4A (I399A/L400A/L552A) This paper N/A
pCMV3-C-His-PLA2G4A (R485H) This paper N/A
pCMV3-C-His-PLA2G4A (D549A) This paper N/A
pCMV3-C-His-PLA2G4A (S505A) This paper N/A
pCMV3-C-His-PLA2G4A (S505E) This paper N/A
pCMV3-C-His-PLA2G4A (dC2) This paper N/A
pCMV3-C-His-PLA2G4A (dPL) This paper N/A
pEGFP-PLA2G4A (Casas et al., 2006) N/A
pEGFP-PLA2G4A (D43N) (Casas et al., 2006) N/A
pEGFP-N1-C2 (Movahedi Naini et al., 2015) N/A
pMP31–1 (flag-MAVS) (Patel et al., 2012) Addgene, Cat#45905; RRID:Addgene_45905
pMP31–1 (flag-MAVS, G67A/W68A/V69A) This paper N/A
pMP31–1 (flag-MAVS, W56A) This paper N/A
pcDNA3-flag-MAVS (M2–6L) (Qi et al., 2017) N/A
pcDNA3-flag-MAVS (M2) (Qi et al., 2017) N/A
pGL4.32(luc2P/NF-kB-RE/Hygro) Promega Cat#E8491
pRL Renilla luciferase Promega Cat#E2241
Software and Algorithms
R v3.3.3 The R Foundation https://www.r-project.org/
DESeq2 (Love et al., 2014); RRID:SCR_015687 https://bioconductor.org/packages/release/bioc/html/DESeq2.html
GENE-E Broad Institute https://software.broadinstitute.org/GENE-E/
Ingenuity pathway analysis QIAGEN; RRID:SCR_008653 http://www.ingenuity.com/products/pathways_analysis.html
Fiji (Schindelin et al., 2012); RRID:SCR_002285 http://fiji.sc
Ensembl (Yates et al., 2016); RRID:SCR_002344 http://www.ensembl.org/
JASPAR (Sandelin et al., 2004); RRID:SCR_003030 http://jaspar.genereg.net
NEBaseChanger New England Biolabs http://nebasechanger.neb.com/
Primer3 (Untergasser et al., 2012); RRID:SCR_003139 http://bioinfo.ut.ee/primer3-0.4.0/
Primer-Blast (Ye et al., 2012); RRID:SCR_003095 https://www.ncbi.nlm.nih.gov/tools/primer-blast/
TraceFinder 3.1 software Thermo Fisher Scientific N/A
Prism 8 software GraphPad N/A
Other