Key Resources Table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Goat Iba1 antibody | Abcam | Cat# ab5076, RRID: AB_2224402 |
| Rabbit Iba1 antibody | Wako | Cat# 019-19741, RRID:AB_839504 |
| Rabbit GFP antibody | Invitrogen | Cat# A11122, RRID: AB_268094 |
| Chicken GFP antibody | Aves | Cat# GFP-1010, RRID: AB_2307313 |
| Rat P2RY12 antibody | BioLegend | Cat#848002, RRID: AB_2650634 |
| Rabbit anti-Mouse P2RY12 antibody | AnaSpec | Cat#55043A, RRID: AB_2298886 |
| Rabbit anti-Green Fluorescent Protein (GFP) Polyclonal Antibody | Invitrogen | Cat#A11122, RRID: AB_221569 |
| Recombinant Anti-Smad3 (phospho S423 + S425) antibody | Abcam | Cat# ab52903, RRID: AB_882596 |
| GFAP | Sigma Aldrich | Cat# G3893, RRID: AB_477010 |
| CD68 | BioRad | Cat# MCA1957T, RRID: AB_2074849 |
| NEUN | BioLegend | Cat# 834501, RRID: AB_2796508 |
| Tgfb1 FACS antibody (clone TW7-16B4) | Biolegend | Cat# 141404, RRID:AB_10943504 |
| Anti-mouse CD16/32 antibody | ThermoFisher | Cat#14-0161-86, RRID:AB_467135 |
| CD45 antibody (clone 30-F11) | Biolegend | Cat# 103108, RRID:AB_312973 |
| CD11b antibody (clone M1/70) | Biolegend | Cat# 101236, RRID:AB_312784 |
| ASCA2 antibody, anti-mouse, APC | Miltenyi Biotec | Cat# 130-123-284, RRID: AB_2811488 |
| Donkey anti-Goat IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor™ Plus 488 | Thermo Fisher Scientific | Cat# A32814, RRID: AB_2762838 |
| Donkey anti-Goat IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor™ 555 | Thermo Fisher Scientific | Cat# A-21432, RRID: AB_2535853 |
| Cy3-AffiniPure Donkey Anti-Rat IgG (H+L) | Jackson ImmunoResearch | Cat# 712-165-153, RRID: AB_234066 |
| Alexa Fluor 647-AffiniPure Donkey Anti-Rat IgG (H+L) | Jackson ImmunoResearch | Cat# 712-605-153, RRID: AB_2340694 |
| Cy3-AffiniPure Donkey Anti-Rabbit IgG (H+L) | Jackson ImmunoResearch | Cat#715-165-152 |
| Alexa Fluor 647-AffiniPure Donkey Anti-Rabbit IgG (H+L) | Jackson ImmunoResearch | Cat# 711-605-152, RRID: AB_2492288 |
| Chemicals, peptides, and recombinant proteins | ||
| Tamoxifen | Sigma | T5648-5G |
| Sunflower seed oil | Sigma | S5007 |
| 100% Ethanol | Sigma | 493546-1L |
| Percoll | GE | 17-0891-01 |
| 10x HBSS | Thermo Fisher Scientific | 14185052 |
| 1x HBSS | Thermo Fisher Scientific | 14175079 |
| DAPI | Sigma | D9542 |
| DNaseI | Roche | 10104159001 |
| Bovine Serum Albumin | Sigma | 9048-46-8 |
| Normal Donkey Serum | Jackson ImmunoResearch | 017-000-121 |
| Triton-100x | Sigma | T8787 |
| Deposited data | ||
| RNA-seq data | This paper | GEO: GSE236032 |
| Experimental Models: Organisms/strains | ||
| Mouse: B6.129P2(Cg)-Cx3cr1tm2.1(cre/ERT2)Litt/WganJ | The Jackson Laboratory | IMSR Cat# 021160 RRID: IMSR_JAX:021160 |
| Mouse: B6.129P2(C)-Cx3cr1tm2.1(cre/ERT2)Jung/J | The Jackson Laboratory | IMSR Cat# 020940 RRID: IMSR_JAX:020940 |
| Mouse: B6(129S6)-P2ry12em1(icre/ERT2)Tda/J | The Jackson Laboratory | IMSR Cat# 034727 RRID: IMSR_JAX:034727 |
| Mouse: C57BL/6-Tmem119em1(cre/ERT2)Gfng/J | The Jackson Laboratory | IMSR Cat# 031820 RRID: IMSR_JAX:031820 |
| Mouse: B6.129X1-Gt(ROSA)26Sortm1(EYFP)Cos/J | The Jackson Laboratory | IMSR Cat# 006148 RRID: IMSR_JAX:006148 |
| Mouse: C57BL/6J-Tgfb1em2Lutzy/Mmjax | The Jackson Laboratory | IMSR Cat# 065809-JAX RRID: MMRRC_065809-JAX |
| Oligonucleotieds | ||
| Primers: Hbms (Probe #79) | Integrated DNA Technologies | F: TCCCTGAAGGATGTGCCTAC R: ACAAGGGTTTTCCCGTTTG |
| Primers: Hprt1 (Probe #22) | Integrated DNA Technologies | F: TGATAGATCCATTCCTATGACTGTAGA R: AAGACATTCTTTCCAGTT AAA GTT GAG |
| Primers: Iba1 (Probe #3) | Integrated DNA Technologies | F: GGATTTGCAGGGAGGAAAA R: TGGGATCATCGAGGAATTG |
| Primers: Tmem119 (Probe #63) | Integrated DNA Technologies | F: AGGGAGCAAAGCCTGTGAA R: TGACCGCTGAGCACCTCT |
| Primers: P2ry12 (Probe #102) | Integrated DNA Technologies | F: CCCGGAGACACT CATATCCTT R: GTCCCAGGGGAGAAGGTG |
| Primers: S100β (Probe #78) | Integrated DNA Technologies | F: GACTCCAGCAGCAAAGGTG R: AGACATCAATGAGGGCA ACC |
| Primers: Glast (Probe #77) | Integrated DNA Technologies | F: CATTGCAGTGGACTGGTTTC R: CTGCTCCGAGGGAGTCAC |
| Primers: Glt1 (Probe #103) | Integrated DNA Technologies | F: GATGCCTTCCTGGATCTCATT R: TTGTCACTGTCTGAATCTG CTG |
| Primers: Atp1b2 (Probe#58) | Integrated DNA Technologies | F: AGCTCAACAAGTTCTTGGAACC R: CTGGACGGCAGACATCATT |
| Critical commercial assays | ||
| Papain dissociation kit | Worthington | Cat#LK003150 |
| LIVE/DEAD fixable dead cell stain kit | Invitrogen | Cat# L34960 |
| RNAqueous™-Micro Total RNA Isolation Kit | ThermoFisher | Cat#AM1931 |
| iScript cDNA Synthesis Kit | BioRad | Cat#1708890 |
| TaqMan fast advanced master mix | ThermoFisher | Cat#4444556 |
| Tgfbr1 qrtPCR assay (Mm00436965_m1) | ThermoFisher | Cat#4351372 |
| Tgfb1 qrtPCR assay (Mm03024053_m1) | ThermoFisher | Cat#4331182 |
| Roche Universal Probe Library #79 | Roche | Cat# UPL71THRU80 |
| Roche Universal Probe Library #108 | Roche | Cat# UPL101THRU110 |
| Roche Universal Probe Library #3 | Roche | Cat# UPL1THRU10 |
| Software and Algorithms | ||
| ImageJ | https://imagej.nih.gov/ij/ | https://doi.org/10.1038/nmeth.2089 RRID:SCR_003070 |
| Nikon Element | Nikon | V3.22, RRID: SCR_014329 |
| Stereo Investigator Image Software | MBF Bioscience | V2022.2.1, RRID:SCR_002526 |
| FlowJo X software | SciCrunch Registry | vX10, RRID:SCR_008520 |
| Trim Galore! | Babraham Bioinformatics | v0.4.2, RRID:SCR_011847 |
| Cutadapt | Martin, 2011 | v1.9.1, RRID:SCR_011841 |
| STAR | Dobin et al, 2012 | RRID:SCR_004463 |
| Sambamba | Tarasov et al. 2015 | v0.6.8, https://doi.org/10.1093/bioinformatics/btv098 |
| Subread | Liao et al. 2019 | v1.6.2, RRID:SCR_009803 |
| DESeq2 | Love et al. 2014 | v1.26.0, RRID:SCR_015687 |
| Ggplot2 | Wickham 2016 | RRID:SCR_014601 |
| GSEA | Subramanian et al. 2015 | v3.0, RRID:SCR_003199 |
| Biorender.com | Biorender | RRID:SCR_018361 |
| Other | ||
| Microscope | Leica | DM5000B |
| Confocal Microscope | Leica | Stellaris 8 |
| FACS | BD Biosciences | BD/FACSAria II |
| Flow Cytometry | BD Biosciences | BD Canto II |