REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
APC anti-mouse CD45.2	eBioscience	Cat#558702; RRID: AB_1645215
FITC anti-mouse CD11b	BD Biosciences	Cat#11-0112-85; RRID: AB_464936
PE anti-mouse Ly6G	BD Pharmingen	Cat#551461; RRID: AB_394208
PerCP-Cy 5.5 anti-mouse Ly6C	eBioscience	Cat#45-5932-82 RRID: AB_2723343
V450 anti-mouse CD45.2	BD Biosciences	Cat#560697; RRID: AB_1727495
FITC Rat anti-mouse I-A/I-E	BD Pharmingen	Cat#553623; RRID: AB_394958
PE/Cy7 anti-mouse CD11b	BD Pharmingen	Cat#552850; RRID: AB_394491
PerCP-Cy™5.5 anti-mouse CD11c	BD Biosciences	Cat#560584; RRID: AB_1727422
AlexaFluor 657 anti-mouse SiglecF	BD Pharmingen	Cat#562680; RRID: AB_2687570
FITC anti-mouse CD3e	Tonbo	Cat#35-0031-U100; RRID: AB_2621659
PE/Cy7 anti-mouse CD4	Biolegend	Cat#100528; RRID: AB_312729
V450 Rat anti-mouse CD8a	Beckton Dickinson	Cat#560469; RRID: AB_1645281
APC anti-mouse CD25	TonboBio	Cat#20-0251-U100; RRID: AB_2621567
PE anti-mouse CD4 (GK1.5)	TonboBio	Cat#50-0041-U100; RRID: AB_2621736
PE-Cyanine7 anti-mouse CD45R (B220)	Thermofisher	Cat# 14-0452-82; RRID: AB_467254
Brilliant Violet 605™ anti-mouse/human CD11b	eBioscience (LabClinics)	Cat# 101237; RRID: AB_11126744
FITC anti-mouse Ly6C	BD Biosciences	Cat# 561085; RRID: AB_10584332
APC anti-mouse/rat Ly6g	BD Biosciences	Cat# 560599; RRID: AB_1727560
PE Rat anti-mouse CD117	BD Pharmigen	Cat# 553355; RRID: AB_394806
PE-Cy7 Rat anti-mouse Ly-6A/E	BD Pharmigen	Cat# 558162; RRID: AB_647253
Biotin Mouse Lineage Panel	BD Pharmigen	Cat# 559971; RRID: AB_10053179
APC-Cy7 anti-mouse CD48	Biolegend	Cat# 103431; RRID: AB_2561462
Brilliant Violet 605™ anti-mouse CD150	Biolegend	Cat# 115927; RRID: AB_11204248
Brilliant Violet 650™ anti-mouse CD11c	Biolegend	Cat# 117339; RRID: AB_2562414
BV421 Rat anti-mouse CD103	BD Biosciences	Cat# 562771; RRID: AB_2737783
Brilliant Violet 711™ anti-mouse Ly-6C	Biolegend	Cat# 128037; RRID: AB_2562630
Anti-Mouse CD45 APC-eFluor® 780	eBioscience	Cat# 47-0451-82; RRID: AB_1548781
PERCP/Cy5.5 anti-mouse CD8a	Biolegend	Cat# 100734; RRID: AB_2075238
PE/Cy7 anti-mouse CD4	Biolegend	Cat# 100421; RRID: AB_312706
BV786 Rat anti-mouse CD45R/B220	BD Biosciences	Cat# 563894;RRID: AB_2738472
BV786 Rat Anti-Mouse CD90.2	BD Biosciences	Cat#740841; RRID: AB_2740495
PE/Cy7 anti-mouse CD24	Biolegend	Cat# 101822; RRID: AB_756048
PerCP/Cy5.5 anti-mouse F4/80	Biolegend	Cat# 123128;RRID: AB_893484
Alexa Fluor® 700 anti-mouse I-A/I-E [M5/114.15.2]	BioLegend	Cat# 107622; RRID: AB_493727
FITC anti-mouse/rat Foxp3 FJK-16s	eBioscience	Cat#11-5773-82; RRID: AB_465243
Hoechst 33258	ThermoFisher	Cat# H3569; RRID: AB_2651133
anti-mouse CD16/CD32, clone 2.4G2	Tonbo	Cat# 70-0161; RRID: AB_2621487
Bacterial and virus strains
Western Reserve (WR) strain Vaccinia virus (VACV)	(Iborra et al., 2016)	N/A
Influenza A/Puerto Rico/8/34	(Iborra et al., 2016)	N/A
Candida albicans (strain SC5314, clinical isolate)	(Saz-Leal et al., 2018)	N/A
Biological samples
Buffy coats	Andalusian Biobank	N/A
Chemicals, peptides, and recombinant proteins
Metformin hydrochloride	Sigma-aldrich	PHR1084
Pargyline hydrochloride	Sigma-aldrich	P8013
5′-Deoxy-5′-(methylthio)adenosine	Sigma-aldrich	D5011
LPS-EK	Invivogen	tlrl-eklps
Oligomycin	Sigma	Cat# O4876
FCCP	Sigma	Cat# C2920
Rotenone	Sigma	Cat# R8875
Antimycin A	Sigma	Cat# A8674
DMEM	Gibco, Life Technologies	Cat#D5030
RPMI 1640 Media	Gibco, Life Technologies	Cat#61870150
PBS 1X pH 7.2	Gibco, Life Technologies	Cat#20012-019
Liberase TL	Roche	Cat#5401020001
TMB Stop Solution	SeraCare	Cat#5150-0020
IFNγ	BD Pharmingen™	Cat#554587
Critical commercial assays
Mouse TNFα Elisa Kit	BD OptEIA	Cat#555268
Human IL-6 DuoSet Elisa	R&D Systems	Cat#DY206-05
Human TNFα DuoSet Elisa	R&D Systems	Cat#DY210
Lactate assay kit	Sigma	Cat#MAK064
Illumina Tagment DNA Enzyme and Buffer	Illumina	Cat# 20034197
MinElute PCR Purification Kit (250)	Quiagen	Cat# 28006
AMPure XP	Beckman	Cat#A63880
Streptavidin Microbeads	Miltenyi	Cat# 130-048-101
LS Columns	Miltenyi	Cat# 130-042-401
NEBNext® High-Fidelity 2X PCR Master Mix	New Englands BioLabs	M0541S
Deposited data
Raw data files for ATAC sequencing	NCBI Gene Expression Omnibus	GEO: GSE183721
Experimental models: Cell lines
CV1	CSIC/Autónoma University	N/A
L929	(Saz-Leal et al., 2018)	N/A
Experimental models: Organisms/strains
C57BL/6	The Jackson Laboratory	RRID: IMSR_JAX:000664
B6.129S7-Rag1tm1Mom/J	The Jackson Laboratory	RRID: IMSR_JAX:002216
Ccr2-/- mice (B6 background)	Kindly supplied by Dr. F. Tacke (RW-TH-University Hospital Aachen, Germany)	N/A
Oligonucleotides
Adaptors for ATAC-Seq, see Table S1	(Buenrostro et al., 2015)	N/A
Software and algorithms
FlowJo	Flowjo	https://www.flowjo.com/
Graph Prism	GraphPad	https://www.graphpad.com/
Microsoft Excel	Microsoft	https://products.office.com/
FastQC	Babraham Bioinformatics	https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Cutadapt	(Martin, 2011)	https://cutadapt.readthedocs.io/en/stable/
Bowtie2	(Langmead and Salzberg, 2012)	http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
MACS3	(Zhang et al., 2008)	https://github.com/macs3-project/MACS
HOMER	(Heinz et al., 2010)	http://homer.ucsd.edu/homer/
DiffBind	(Stark and Brown, 2011)	https://bioconductor.org/packages/release/bioc/html/DiffBind.html
GSEA	(Subramanian et al., 2005)	https://www.gsea-msigdb.org
MSigDB (Hallmark gene set collection)	(Liberzon et al., 2015)	https://www.gsea-msigdb.org/gsea/msigdb/
Other
Excipient	Inmunotek	N/A
MV130	Inmunotek	N/A
Canto HTS	BD Biosciences	N/A
Fortessa	BD Biosciences	N/A
Aria Cell Sorter	BD Biosciences	N/A
Qubit® fluorometer	Life Technologies	N/A
Bioanalyzer	Agilent	N/A
NextSeq 2000 System	Illumina	N/A