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. 2020 Jul 8;28(1):54–68.e7. doi: 10.1016/j.chom.2020.04.024
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

Mouse monoclonal anti-HLA-DR (cloneL243) Sigma-Aldrich Cat#SAB4700731
Mouse monoclonal anti-HLA-DR alpha chain (clone TAL.1B5) DAKO Cat#M0746; RRID: AB_2262753
Mouse monoclonal anti-DnaK (clone 8E2/2) ENZO Cat#ADI-SPA-880-F; RRID: AB_10619012
Goat polyclonal anti-Common Salmonella Antigens KPL Cat#01-91-99
Rabbit Monoclonal anti-GFP Invitrogen Cat#G10362
Mouse monoclonal anti anti-ubiquitin (clone P4D1) Santa Cruz Cat#sc-8017; RRID: AB_628423
Mouse monoclonal anti-tubulin DSHB Cat#E7
Rabbit polyclonal anti-actin Sigma-Aldrich Cat#A2066; RRID:AB_476693
Mouse monoclonal anti-CRISPR-Cas9 Novus Biological Cat#NBP2-36440
Mouse monoclonal anti-Golgin97 (clone CDF4) eBioscience Cat#14-9767-82
Mouse monoclonal anti-Transferrin receptor (H68.4) Zymed (S. Meresse) Cat#13-6800
Mouse monoclonal anti-FLAG (clone M2) Merck Cat#F3165-2MG
Rabbit polyclonal anti-FLAG Merck Cat#F7425
Mouse monoclonal anti-HA11 (clone 16B12) Biolegend Cat#901502; RRID: AB_2565007
Rabbit polyclonal anti-TMEM127 Bethyl laboratories Cat#A303-450A; RRID: AB_10952702
Rabbit polyclonal anti-WWP2 Abcam Cat#ab103527; RRID: AB_10710285
Mouse monoclonal anti-MHCII-APC (clone M5/114.15.2) Miltenyi Biotec Cat#130-102-898; RRID: AB_2660057
Hamster monoclonal anti-CD11c-VioBlue (clone N418) Miltenyi Biotec Cat#130-102-797; RRID: AB_2660157
Rat monoclonal anti-CD4-PerCP-Cy5.5 (clone RM4-5) BD Biosciences Cat#550954; RRID: AB_393977
Hamster monoclonal anti-CD3ε-PE-Vio770 (145-2C11) Miltenyi Biotec Cat#130-102-794; RRID: AB_2660399

Bacterial and Virus Strains

Salmonella enterica serovar Typhimurium 12023 NCTC NCTC 12023
Salmonella enterica serovar Typhimurium 12023 ΔsteD::km Bayer-Santos et al., 2016 N/A
Salmonella enterica serovar Typhimurium 12023 ΔsteD::km + pSteD-2HA-SrcA Godlee et al., 2019 N/A
Salmonella enterica serovar Typhimurium 12023 + pFCcGi This study N/A
Salmonella enterica serovar Typhimurium 12023 ΔsteD::km + pFCcGi This study N/A
Salmonella enterica serovar Typhimurium 12023 ΔsteD::km + pSteD-2HA-SrcA + pFCcGi This study N/A
Salmonella enterica serovar Typhimurium 12023 ΔsteD::km + pSteDK24R-2HA-SrcA This study N/A
Salmonella enterica serovar Typhimurium 12023 ΔsteD::SteDK24R This study N/A
E. coli DH5α Thermo Fisher Scientific Cat#18265017

Chemicals, Peptides, and Recombinant Proteins

Chloroquine diphosphate salt Sigma-Aldrich Cat#C6628-25G; CAS: 50-63-5
Enzymes for UbiCRest Hospenthal et al., 2015 N/A
Blasticidin S Merck Cat#15205-25MG; CAS: 3513-03-9
Puromycin dihydrochloride Sigma-Aldrich Cat#P8833-25MG; CAS: 58-58-2
Carbenicillin disodium salt Sigma-Aldrich Cat#C1389-5g; CAS: 4800-94-6
Chloramphenicol Merck Cat#C0378-25G; CAS: 56-75-7
Kanamycin sulfate from Streptomyces kanamyceticus Sigma-Aldrich Cat#K1377-5g; CAS: 25389-94-0
5(6)-Carboxyfluorescein diacetate N-succinimidyl ester Sigam-Aldrich Cat#21888-25MG-F; CAS: 150347-59-4
Ovalbumin (323-339) (chicken, Japanese quail) Sigam-Aldrich Cat#O1641-1MG

Experimental Models: Cell Lines

Hek293T Provided by F. Randow N/A; RRID: CVCL_0063
Hybridoma L243 Provided by S. Meresse N/A; RRID: CVCL_4533
MelJuSo Provided by J. Neefjes N/A; RRID: CVCL_1403
MelJuSo CRISPR/Cas9 MARCH8 KO This study N/A
MelJuSo CRISPR/Cas9 TMEM127 KO This study N/A
MelJuSo CRISPR/Cas9 WWP2 KO This study N/A
MutuDCs Provided by A. Orbea Fuertes Marraco et al., 2012
MutuDCs CRISPR/Cas9 MARCH1 KO Provided by J. Mintern Wilson et al., 2018
MutuDCs CRISR/Cas9 TMEM127 KO This study N/A
MutuDCs CRISR/Cas9 WWP2 KO This study N/A

Experimental Models: Organisms/Strains

OT-II mice Charles River C57BL/6-Tg(TcraTcrb)425Cbn/Crl; RRID: IMSR_CRL:643

Oligonucleotides

See Table S2 for primer sequences N/A N/A

Recombinant DNA

Plasmid: GFP-SteD Bayer-Santos et al, 2016 N/A
Plasmid: pMD-GAGPOL Provided by F. Randow Randow and Sale, 2006
Plasmid: VSVG Provided by F. Randow Randow and Sale, 2006
Plasmid: lentiCas9-Blast Sanjana et al, 2014
Gift from Feng Zeng
Addgene Plasmid #52962
Plasmid: psPAX2 Gift from Didier Trono Addgene Plasmid #12260
Plasmid: pMD2.G Gift from Didier Trono Addgene Plasmid #12259
Plasmid: lentiguide-puro Sanjana et al, 2014
Gift from Feng Zhang
Addgene Plasmid #52963
Pooled plasmid library: Human CRISPR knockout Pooled Library (GeCKO v2) Sanjana et al., 2014
Gift from Feng Zhang
Addgene Plasmid #1000000048
WWP2 gene sequence Genscript OHu14116
TMEM127 gene sequence genscript OHu10702

Software and Algorithms

Biopython Biopython https://biopython.org
Count_spacers.py Sanjana et al, 2014 https://github.com/fengzhanglab/Screening_Protocols_manuscript/blob/master/count_spacers.py
CRISPRAnalyzer CRISPRAnalyzeR http://crispr-analyzer.dkfz.de/
CRISPR Design Tool Dharmacon https://horizondiscovery.com/en/products/tools/CRISPR-Design-Tool
Prism v8 GraphPad https://www.graphpad.com/scientific-software/prism/
FIJI ImageJ https://fiji.sc/
Coloc 2 ImageJ plugin ImageJ http://imagej.net/Coloc_2
Image Lab BioRad https://www.bio-rad.com/en-uk/product/image-lab-software?ID=KRE6P5E8Z
FlowJo v10 BD Life Sciences https://www.flowjo.com/

Other

Laser Scanning Microscope 710 Zeiss N/A
BD LSRFortessa™ BD Biosciences N/A
BD FACSAria™ III BD Biosciences N/A
Dionex Ultimate 3000 HPLC system Thermo Fisher Scientific N/A
Q Exactive™ Thermo Fisher Scientific N/A