REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
BV605 Anti-mouse/human CD11b, clone M1/70	BioLegend	Cat# 101257; RRID: AB_2565431
BV421 Mouse anti-human CD3, clone SP34	BD Biosciences	Cat# 562877; RRID AB_2737860
BV786 Mouse anti-human CD4, clone L200	BD Biosciences	Cat# 563914; RRID AB_2738485
PeCy7 Mouse anti-human CD8, clone RPAT8	BD Biosciences	Cat# 557746; AB_396852
ECD Mouse anti-human CD14, clone RM052	Beckman Coulter	Cat# IM2707U; RRID AB_130853
APCH7 Mouse anti-human CD16, clone 3G8	BD Biosciences	Cat# 560195; RRID AB_1645466
BV711 Mouse anti-human CD20, clone 2H7	BD Biosciences	Cat# 563126; RRID AB_2313579
Iba-1, rabbit polyclonal antibody	Fujifilm Wako Pure Chemical Corporation	Cat# 019-19741; RRID AB_839504
ImmPress – HRP Horse Anti-Rabbit IgG Polymer Reagent	Vector Laboratories	Cat# MP-7401; RRID AB_2336529
Bacterial and virus strains
SIVmac251 (passaged through brain microglia and Chinese origin rhesus macaques)	H.S Fox, UNMC, Omaha, NE	N/A
Chemicals, peptides, and recombinant proteins
Glacial Acetic Acid, HPLC grade	Thermo Fisher	A35-500
TRIzol	Life Technologies	Cat# 15596026
DNTPs	Invitrogen	Cat# 18091050
SuperaseIN	Invitrogen	Cat# AM2696
Superscript/5X Buffer/0.1M DTT: Kit	Invitrogen	Cat# 18090010
Red blood cell lysis buffer	Sigma Aldrich	Cat# 11814389001
Nova Red	Vector Laboratories	Cat# SK-4805
Hematoxylin QS	Vector Laboratories	Cat# H-3404
Flow cytometry Buffer	eBioscience	Cat# 00-422-26
Brilliant stain buffer	BD Biosciences	Cat# 563794
Critical commercial assays
nCounter NHP Immunology expression panel	NanoString	Cat#NS_NHP_IMMUNOLOGY_V2.0
Taqman RNA-to-CT One-Step Kit - RNA (qPCR)	Thermo Fisher Scientific	Cat# 4392938
one-step RT ddPCR Advanced kit for probes (500 rxns)	BioRad	Cat# 1864022
Qiagen RNeasy Mini Kit	Qiagen	Cat# 74106
QIAamp Viral RNA mini kit	QIAGEN	Cat# 52906
Live Dead assay UV blue	Invitrogen	Cat# L23105
2.5 HD RED Assay	Advanced Cell Diagnostics	Cat# 322360
Experimental models: Organisms/strains
Chinese origin rhesus macaques	PrimGen	http://www.primgen.com/
Oligonucleotides
Primer probe set MX1	Thermo Fisher Scientific	Cat# Rh02842279_m1
Primer probe set ALAS1	Thermo Fisher Scientific	Cat# Rh02829381_m1
Primer probe set CXCL11	Thermo Fisher Scientific	Cat# Rh02621763_m1
Primer probe set OAZ1	Thermo Fisher Scientific	Cat# Rh02809570_gH
Primer probe set IRF1	Thermo Fisher Scientific	Cat# #Rh00971962_m1
Primer probe set OAS2	Thermo Fisher Scientific	Cat# Rh02842591_m1
SIV qRT-PCR forward primer (5’-GTCTGCGT CATCTGGTGCATTC-3′)	Integrated DNA Technologies	Custom
SIV qRT-PCR reverse primer (5’-CACTAGGTG TCTCTGCACTATCTGTTTTG-3′)	Integrated DNA Technologies	Custom
SIV qRT-PCR probe (5’-/56-FAM/CTT CCT CAG/ZEN/TGT GTT TCA CTT TCT CTT CTG CG/3IABkFQ/- 3′)	Integrated DNA Technologies	Custom
TBP Forward: aaagaccattgcacttcgtg	Eurogentec	Custom
TBP Reverse: ggttcgctctcttatcc	Eurogentec	Custom
TBP Probe: tcccaagcggtttgctgcag	Eurogentec	Custom
RNAscope SIV probes	Advanced Cell Diagnostics	Cat# 317221
Software and algorithms
BD FACSDiva v9.0	BD Biosciences	https://www.bdbiosciences.com/en-eu/products/software/instrument-software/bd-facsdiva-software#Overview
FlowJo for Mac version 10.6	BD Biosciences	https://www.flowjo.com/citing-flowjo
Graph Pad Prism 9.0 software	Graph Pad	https://www.graphpad.com/scientific-software/prism/