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SRX24542523: GSM8264914: CD8 T cells, Day 8 Armstrong; Mus musculus; RNA-Seq
2 ILLUMINA (Illumina NovaSeq 6000) runs: 178.3M spots, 20.9G bases, 6.7Gb downloads

External Id: GSM8264914_r1
Submitted by: Russell Jones, Metabolism, Van Andel Institute
Study: ACLY and ACSS2 link nutrient-dependent chromatin accessibility to regulation of CD8 T cell effector responses
show Abstracthide Abstract
Coordination of cellular metabolism is essential for optimal T cell responses. Here, we identify cytosolic acetyl-CoA production as an essential metabolic node for CD8 T cell function in vivo. We show that CD8 T cell responses to infection depend on acetyl-CoA derived from citrate via the enzyme Acly (ATP citrate lyase). However, ablation of Acly triggers an alternative, acetate-dependent pathway for acetyl-CoA production mediated by Acss2 (acyl-CoA synthetase short chain family member 2). Mechanistically, acetate fuels both the TCA cycle and cytosolic acetyl-CoA production, impacting T cell effector responses, acetate-dependent histone acetylation, and chromatin accessibility at effector gene loci. When Acly is functional, Acss2 is not required, suggesting acetate is not an obligate metabolic substrate for CD8 T cell function. However, deletion of Acly renders CD8 T cells dependent on acetate (via Acss2) to maintain acetyl-CoA production and effector function. Thus, together Acly and Acss2 coordinate cytosolic acetyl-CoA production in CD8 T cells to maintain chromatin accessibility and T cell effector function. Overall design: C57BL/6 mice (3 biological replicates) were infected with LCMV-Armstrong. At 8 dpi, mice were sacrificed, and single cell suspensions generated
Sample: CD8 T cells, Day 8 Armstrong
SAMN41389151 • SRS21287190 • All experiments • All runs
Organism: Mus musculus
Library:
Name: GSM8264914
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC SINGLE CELL
Selection: cDNA
Layout: PAIRED
Construction protocol: C57BL/6 mice (3 biological replicates) were infected with LCMV-Arm. At 8 dpi, mice were sacrificed, and single cell suspensions generated from spleens followed by filtration through a 70 mM filter. Spleen samples were split into two halves: the first half was subjected to CD45+ cell isolation (Miltenyi Biotec #130-052-301) and the second half used for CD8+ T cell isolation (negative selection kit, STEMCELL Technologies #19853). Single cell libraries were prepared using the 10X Genomics 5' v2 single-cell RNA-seq kit following manufacturer instructions (10X Genomics). Sequencing was performed on an Illumina NovaSeq 6000 S2 flow cell (Illumina Inc., San Diego CA, USA) using 125 cycles - 26 bp for read 1 containing the cell barcode (16bp) and UMI (10bp) and 91 bp for read 2, containing the biological read.
Runs: 2 runs, 178.3M spots, 20.9G bases, 6.7Gb
Run# of Spots# of BasesSizePublished
SRR2901590889,977,68510.5G3.4Gb2024-07-04
SRR2901590988,293,49310.3G3.3Gb2024-07-04

ID:
32860381

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