KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Goat Iba1 antibody | Abcam | Cat# ab5076; RRID: AB_2224402 |
| 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 (1:200, host: rabbit) | Abcam | Cat# ab52903; RRID: AB_882596 |
| DCX (1:1000, host: rabbit) | Cell Signaling | Cat#4604s |
| LYVE1 (1:600, host: rabbit) | Abcam | Cat#ab14917; RRID: AB_301509 |
| CD206 (1:200, host: rat) | Biorad | Cat#mca2235; RRID: AB_324622 |
| 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 |
| Critical commercial assays | ||
| Papain dissociation kit | Worthington | Cat#LK003150 |
| 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 |
| Deposited data | ||
| (Cx3cr1CreER Littman) + TAM RNA-seq | Sahasrabuddhe and Ghosh14 | GEO: GSE190207 |
| (Tgbfr2 fl/fl;Cx3cr1Creat P15) RNA-seq | Arnold et al.30 | GEO: GSE124868 |
| 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:034724 |
| Mouse: C57BL/6-Tmem119em1(cre/ERT2)Gfng/J | The Jackson Laboratory | IMSR Cat# 031820; RRID: IMSR_JAX:031820 |
| Mouse: B6.Cg-Gt(ROSA)26Sortm9(CAG-tdTomato)Hze/J | The Jackson Laboratory | IMSR Cat# 007909; RRID: IMSR_JAX:007909 |
| Mouse: B6.129X1-Gt(ROSA)26Sortm1(EYFP)Cos/J | The Jackson Laboratory | IMSR Cat# 006148; RRID: IMSR_JAX:006148 |
| Mouse: STOCK Tgfbr1tm1.1Karl/KulJ | The Jackson Laboratory | IMSR Cat# 028701; RRID: IMSR_JAX:028701 |
| Mouse: C57BL/6J-Tgfb1em2Lutzy/Mmjax | The Jackson Laboratory | IMSR Cat# 065809-JAX; RRID: MMRRC_065809-JAX |
| Mouse: DCXCreER | Gift from Dr. Zhi-qi Xiong, Chinese academy of sciences | MGI: 5438982 (Not commercially available) |
| Mouse: iSuReCre | Gift from Dr. Rui Benedito, CNIC, Spain | Fernández-Chacón et al.19 (Not commercially available) |
| Oligonucleotides | ||
| Primers: Hbms (Probe #79) F: TCC CTG AAG GAT GTG CCT AC |
Integrated DNA Technologies | N/A |
| Primers: Hbms (Probe #79) R: ACA AGG GTT TTC CCG TTT G |
Integrated DNA Technologies | N/A |
| Primers: PGK1 (Probe #108) F: TAC CTG CTG GCT GGA TGG |
Integrated DNA Technologies | N/A |
| Primers: PGK1 (Probe #108) R: CAC AGC CTC GGC ATA TTT CT |
Integrated DNA Technologies | N/A |
| Primers: Iba1 (Probe #3) F: GGA TTT GCA GGG AGG AAA A |
Integrated DNA Technologies | N/A |
| Primers: Iba1 (Probe #3) R: TGG GAT CAT CGA GGA ATT G |
Integrated DNA Technologies | N/A |
| 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 |
| Other | ||
| Microscope | Leica | DM5000B |
| Confocal Microscope | Leica | Stellaris 8 |
| FACS | BD Biosciences | BD/FACSAria II |