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. 2020 Feb 4;31(2):391–405.e8. doi: 10.1016/j.cmet.2019.10.015
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

hamster anti-mouse CD3 (clone 145-2C11) BD Biosciences Cat #: 553057; RRID:AB_394590
hamster anti-mouse CD28 (clone 37.51) Tonbo Biosciences Cat #: 70-0281;
RRID:AB_2621492
rat anti-mouse IL-4 (clone 11B11) BD Biosciences Cat #: 554432;
RRID:AB_395388
rat anti-mouse IFN-γ (clone XMG1.2) BD Biosciences Cat #: 554408;
RRID:AB_395373
rat anti-mouse CD62L-PE (clone MEL-14), eBioscience Invitrogen Cat #: 12-0621-92
rat anti-mouse CD44-PE/Cy5 (clone IM7), eBioscience Invitrogen Cat #: 15-0441-82;
RRID:AB_468749
rat anti-mouse CD25-APC/Cy7 (clone PC61) BioLegend Cat #: 102025;
RRID:AB_830744
rat anti-mouse Foxp3-Alexa488 (clone R16-715) BD Biosciences Cat #: 563487;
RRID:AB_2738236
rat anti-mouse IL2-FITC (clone JES6-5H4) BioLegend Cat #: 503805;
RRID:AB_315299
rat anti-mouse IL17A-PE (clone TC11-18H10.1) BioLegend Cat #: 506904;
RRID:AB_315464
rat anti-mouse TNF-α-APC/Cy7 (clone MP6-XT22) BioLegend Cat #: 506344;
RRID:AB_2565953
rat anti-mouse IFN-γAPC (clone XMG1.2) BioLegend Cat #: 505810;
RRID:AB_315404
mouse anti-human CD3 (clone UCHT1) BD Biosciences Cat #: 555329;
RRID:AB_395736
mouse anti-human CD28 (clone CD28.2) BD Biosciences Cat #: 555725;
RRID:AB_396068
rat anti-human CD4-APC (clone A161A1) BioLegend Cat #: 357407;
RRID:AB_2565659
mouse anti-human IL2-FITC (clone MQ1-17H12) BioLegend Cat #: 500305;
RRID:AB_315092
mouse anti-human TNF-α-APC/Cy7 (clone MAb11) BioLegend Cat #: 502943;
RRID:AB_2562869
mouse anti-human CD71-PE (clone CY1G4) BioLegend Cat #: 334105;
RRID:AB_2271603
mouse anti-human CD127-APC/Cy7 (clone A019D5) BioLegend Cat #: 351347;
RRID:AB_2629571
mouse anti-human CD25-Alexa488 (clone BC96) BioLegend Cat #: 302615;
RRID:AB_493044
mouse anti-human Foxp3-BV421 (clone 206D) BioLegend Cat #: 320123;
RRID:AB_2561338
rat anti-mouse CD45-Brilliant Violet 785 (clone 30-F11) BioLegend Cat #: 103149;
RRID:AB_2564590
rat anti-mouse CD4-APC-eFluor780 (clone RM4-5), eBioscience Invitrogen Cat #: 47-0042;
RRID:AB_1272183
rat anti-CD8a-PeCy7 (clone 53-6.7), eBioscience Invitrogen Cat #: 25-0081;
RRID:AB_469584
hamster anti-mouse TCR gamma/delta PerCP-eFluor 710 (clone eBioGL3), eBioscience Invitrogen Cat #: 46-5711;
RRID:AB_2016638
rat anti-IL-17A-FITC (clone eBio17B7), eBioscience Invitrogen Cat #: 11-7177;
RRID:AB_763581
rat anti-mouse GM-CSF-PE (clone MP1-22E9), eBioscience Invitrogen Cat #: 12-7331;
RRID:AB_466203
rat anti-mouse CD25-Brilliant Violet 605 (clone PC61) BioLegend Cat #: 102036;
RRID:AB_2563059
rat anti-mouse IFN-γ- Brilliant Violet 711 (clone XMG1.2) BioLegend Cat #: 505835;
RRID:AB_11219588
rat anti-Ki67-eFluor450 (clone SolA15), eBioscience Invitrogen Cat #: 48-5698;
RRID:AB_11149124
rat anti-Foxp3-APC (clone FJK-16s), eBioscience Invitrogen Cat #: 17-5773;
RRID:AB_469457
monoclonal rabbit anti-histone 3 (clone D1H2) Cell Signaling Technology Cat #: 4499;
RRID:AB_10544537
monoclonal mouse anti-β-actin (clone AC-74) Sigma Aldrich Cat #: A5316;
RRID:AB_476743
monoclonal rabbit anti-PKM1 (clone D30G6) Cell Signaling Technology Cat #: 7067;
RRID:AB_2715534
monoclonal rabbit anti-PKM2 (clone D78A4) Cell Signaling Technology Cat #: 4053;
RRID:AB_1904096
polyclonal rabbit anti-alpha tubulin Cell Signaling Technology Cat #: 2144;
RRID:AB_2210548
polyclonal rabbit anti-c-Myc Cell Signaling Technology Cat #: 9402;
RRID:AB_2151827
polyclonal rabbit anti-phospho-p70 S6 Kinase (Thr389) Cell Signaling Technology Cat #: 9205;
RRID:AB_330944
monoclonal rabbit anti-Hif-1α (clone D2U3T) Cell Signaling Technology Cat #: 14179;
RRID:AB_2622225
polyclonal rabbit anti-phospho-PKM2 (Tyr105) Cell Signaling Technology Cat #: 3827;
RRID:AB_1950369
polyclonal rabbit anti-phospho-PKM2 (Ser37) Biorbyt Cat #: orb336828
monoclonal rabbit anti-Stat5 (clone D206Y) Cell Signaling Technology Cat #: 94205;
RRID:AB_2737403
monoclonal rabbit anti-phospho-Stat5 (Tyr694) (clone D47E7) Cell Signaling Technology Cat #: 4322;
RRID:AB_10544692

Biological Samples

Blood samples from healthy donors School of Biochemistry and Immunology, TCD N/A

Chemicals, Peptides, and Recombinant Proteins

CD62L MicroBeads, mouse Miltenyi Biotec Cat #: 130-049-701
Mouse IL-12 Miltenyi Biotec Cat #: 130-096-708
Recombinant Mouse IL-23 (carrier-free) BioLegend Cat #: 589002;
RRID:AB_10663413
Recombinant Human TGF-β1 ImmunoTools Cat #: 1134316
Recombinant Murine IL-1β ImmunoTools Cat #: 1234001
Recombinant Murine IL-6 ImmunoTools Cat #: 1234006
TEPP-46 National Center for Advancing Translational Sciences (NIH; Bethesda, Maryland, USA) CAS: 1221186-53-3
DASA-58 Cayman Chemical Cat #: 13941;
CAS: 1203494-49-8
DSS Thermo Scientific Cat #: 21655;
CAS: 68528-80-3
WesternBright ECL Advansta Cat #: K-12049-D50
Propidium Iodide Invitrogen Cat #: P1304MP;
CAS: 25535-16-4
Pacific Blue™ Annexin V BioLegend Cat #: 640918
PMA Sigma Aldrich Cat #: P8139;
CAS:16561-29-8
Ionomycin Sigma Aldrich Cat #: I0634;
CAS: 56092-82-1
Brefeldin A Sigma Aldrich Cat #: B7651;
CAS: 20350-15-6
Fixation Buffer BioLegend Cat #: 420801
Intracellular Staining Permeabilization Wash Buffer (10X) BioLegend Cat #: 421002
Seahorse XF Medium Agilent Cat #: 103575
Cell-Tak Corning Cat #: 354240
Olgomycin Sigma Aldrich Cat #: 495455;
CAS: 1404-19-9
2-deoxy-d-glucose Sigma Aldrich Cat #: D3179;
CAS: 154-17-6
FCCP Sigma Aldrich Cat #: C2759;
CAS: 555-60-2
Antimycin A Sigma Aldrich Cat #: A8674;
CAS: 1397-94-0
Rotenone Sigma Aldrich Cat #: R8875;
CAS: 83-79-4
MOG35-55 GenScript Cat #: RP10245;
CAS: 163913-87-9
Complete Freund Adjuvant Chondrex Cat #: 7001
Pertussis toxin Kaketsuken N/A
(2-Hydroxypropyl)-β-cyclodextrin Sigma Aldrich Cat #: H107;
CAS: 128446-35-5
Protein Transport Inhibitor (BD GolgiStop) BD Biosciences Cat #: 554724
Purified Rat Anti-Mouse CD16/CD32 (Mouse BD Fc Block™) BD Biosciences Cat #: 553141;
RRID:AB_394656

Critical Commercial Assays

CD4+ T Cell Isolation Kit, mouse Miltenyi Biotec Cat #: 130-104-454
Naive CD4+ T Cell Isolation Kit, mouse Miltenyi Biotec Cat #: 130-104-453
Naive CD4+ T Cell Isolation Kit II, human Miltenyi Biotec Cat #: 130-094-131
Pan T Cell Isolation Kit II, mouse Miltenyi Biotec Cat #: 130-095-130
Seahorse XFe96 FluxPak Agilent Cat #: 102416–100
PARIS Kit Invitrogen Cat #: AM1921
PureLink RNA Mini Kit Invitrogen Cat #: 12183025
High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat #: 4368814
PowerUp SYBR Green Master Mix Applied Biosystems Cat #: A25743
CellTrace Violet Cell Proliferation Kit Invitrogen Cat #: C34571
eBioscience Foxp3 / Transcription Factor Staining Buffer Set Invitrogen Cat #: 00-5523-00
LIVE/DEAD Fixable Aqua Dead Cell Stain Kit Invitrogen Cat #: L34965
Pierce™ BCA Protein Assay Kit Thermo Scientific Cat #: 23227
NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina New England BioLabs Cat #: E6420

Deposited Data

RNA sequencing data This paper GEO: GSE139378

Experimental Models: Organisms/Strains

Mouse: C57BL/6JOlaHsd Harlan UK N/A

Oligonucleotides

mouse Tbp FWD: CCGTGAATCTTGGCTGTAAAC
mouse Tbp REV: TGTCCGTGGCTCTCTTATTC
Eurofins Genomics N/A
mouse Pkm1 FWD: TGTCTGGAGAAACAGCCAAG
mouse Pkm1 REV: CTCGCACAAGCTCTTCAAAC
Eurofins Genomics N/A
mouse Pkm2 FWD: TGTCTGGAGAAACAGCCAAG
mouse Pkm2 REV: CGAATAGCTGCAAGTGGTAGA
Eurofins Genomics N/A
mouse Il2 FWD: AGATGAACTTGGACCTCTGCG
mouse Il2 REV: AAAGTCCACCACAGTTGCTG
Eurofins Genomics N/A
mouse Tnfa FWD: GCCTCTTCTCATTCCTGCTT
mouse Tnfa REV: TGGGAACTTCTCATCCCTTTG
Eurofins Genomics N/A
mouse Foxp3 FWD: TTTCACCTATGCCACCCTTATC
mouse Foxp3 REV: GTAGGCGAACATGCGAGTAA
Eurofins Genomics N/A
mouse Hif1a FWD: GGGTACAAGAAACCACCCAT
mouse Hif1a REV: GAGGCTGTGTCGACTGAGAA
Eurofins Genomics N/A
mouse Myc FWD:
TTGAAGGCTGGATTTCCTTTGGGC
mouse Myc REV: TCGTCGCAGATGAAATAGGGCTGT
Eurofins Genomics N/A
mouse Slc2a1 FWD: GATCACTGCAGTTCGGCTATAA
mouse Slc2a1 REV: GTAGCGGTGGTTCCATGTT
Eurofins Genomics N/A
mouse Gapdh FWD: TGGTGAAGGTCGGTGTGAAC
mouse Gapdh REV: TGAATTTGCCGTGAGTGGAG
Eurofins Genomics N/A
mouse Ldha FWD: CGTCTCCCTGAAGTCTCTTAAC
mouse Ldha REV: TTCAGCTTGATCACCTCGTAG
Eurofins Genomics N/A
mouse Hk FWD: TCGCCTGCTTATTCACGGAG
mouse Hk REV: CCATCCGGAGTTGACCTCAC
Eurofins Genomics N/A
mouse Pfkm FWD: GTTTGGAAGCCTCTCCTCCTC
mouse Pfkm FWD: AGAGGTCAACACGGCGATG
Eurofins Genomics N/A
mouse Il17a FWD: CAAACATGAGTCCAGGGAGAG
mouse Il17a REV: GCTGAGCTTTGAGGGATGAT
Eurofins Genomics N/A
mouse Il17f FWD: TCCCACGTGAATTCCAGAAC
mouse Il17f REV: GTTCATGGTGCTGTCTTCCT
Eurofins Genomics N/A
mouse Il21 FWD: CGCCTCCTGATTAGACTTCG
mouse Il21 REV: GCCCCTTTACATCTTGTGGA
Eurofins Genomics N/A
mouse Il22 FWD: TCATCGGGGAGAAACTGTTC
mouse Il22 REV: TTCCAGGGTGAAGTTGAGCA
Eurofins Genomics N/A
mouse Rora FWD: GAACACCTTGCCCAGAACAT
mouse Rora REV: AGCTGCCACATCACCTCTCT
Eurofins Genomics N/A
mouse Runx1 FWD: TACCTGGGATCCATCACCTC
mouse Runx1 REV: GACGGCAGAGTAGGGAACTG
Eurofins Genomics N/A
mouse Irf4 FWD: GCAGCTCACTTTGGATGACA
mouse Irf4 REV: CCAAACGTCACAGGACATTG
Eurofins Genomics N/A
mouse Rorc FWD: TGCAAGACTCATCGACAAGGC
mouse Rorc REV: AGCTTTTCCACATGTTGGCTG
Eurofins Genomics N/A
mouse Ahr FWD: AGGTGCCTGCTGGATAATTC
mouse Ahr REV: CCGTCCTTCCCTTTCTTGTT
Eurofins Genomics N/A
mouse Nzkbiz FWD: GCAGGTAGAGCAGGAAGAAA
mouse Nzkbiz REV: CCTTGGGCAACAGCAATATG
Eurofins Genomics N/A
mouse Batf FWD: CCAGAAGAGCCGACAGAGAC
mouse Batf REV: GAGCTGCGTTCTGTTTCTCC
Eurofins Genomics N/A
mouse Ifng FWD: CTCTTCTTGGATATCTGGAGGAAC
mouse Ifng REV: GACTTCAAAGAGTCTGAGGTAGAA
Eurofins Genomics N/A
mouse Tbx21 FWD: CAACAACCCCTTTGCCAAAG
mouse Tbx21 REV: TCCCCCAAGCAGTTGACAGT
Eurofins Genomics N/A
mouse Eomes FWD:
ACCAATAACAAAGGTGCAAACAAC
mouse Eomes REV:
TGGTATTTGTGCAGAGACTGCAA
Eurofins Genomics N/A
human RPS13 FWD: CGAAAGCATCTTGAGAGGAAC
human RPS13 REV: TCGAGCCAAACGGTGAATC
Eurofins Genomics N/A
human PKM1 FWD: TCACTCCACAGACCTCATGG
human PKM1 REV: GAAGATGCCACGGTACAGGT
Eurofins Genomics N/A
human PKM2 FWD: ATCGTCCTCACCAAGTCTGG
human PKM2 REV: GAAGATGCCACGGTACAGGT
Eurofins Genomics N/A
human IL2 FWD: CCCAGGGACTTAATCAGCAATA
human IL2 REV: TGCTGTCTCATCAGCATATTCA
Eurofins Genomics N/A

Software and Algorithms

Image Lab (Version 5.0) Bio-Rad https://www.bio-rad.com/en-uk/product/image-lab-software?ID=KRE6P5E8Z
FlowJo (version 10.5.3) FlowJO https://www.flowjo.com/solutions/flowjo
Seahorse Wave Controller Software (version 2.4.2) Agilent https://www.agilent.com/en/products/cell-analysis/cell-analysis-software/instrument-software/wave-controller-2-4
Prism (version 8.2.0) GraphPad https://www.graphpad.com/scientific-software/prism/
SnakePipes (version 1.2.0) Bhardwaj et al., 2019 N/A
DESeq2 R Love et al., 2014 N/A
Ingenuity Pathway Analysis Qiagen https://www.qiagenbioinformatics.com/products/ingenuity-pathway-analysis/
Morpheus Broad Institute, Cambridge, MA, (USA) https://software.broadinstitute.org/morpheus/