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Low neoantigen expression and poor T cell priming underlie early immune escape in cancer

ABSTRACT: Low neoantigen expression and poor T cell priming underlie early immune escape in cancer

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Mus Musculus (ncbitaxon:10090)

SUBMITTER: Tyler Jacks

PROVIDER: MSV000087648 | MassIVE | Thu Jun 17 11:57:00 BST 2021

REPOSITORIES: MassIVE

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Low neoantigen expression and poor T-cell priming underlie early immune escape in colorectal cancer.

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Project description:Multi-targeting priming (MTP) for genome-wide gene expression assays provides selective targeting of multiple sequences and counter-selection against undesirable sequences. We demonstrated superior performance of two MTPs compared to oligo-dT microarray profling and RNA tag sequencing the response of Saccharomyces cerevisiae to nitrogen deficiency and profiling Neurospora crassa early sexual development. Priming with MTPs in addition to oligo-dT resulted in higher sensitivity, a greater number of well-measured genes, more genes significantly differentially expressed, and a greater power to detect meager differences. Neurospora crassa mat A FGSC#2489 2 developmental stages and oligo(dT) primers.

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Project description:This SuperSeries is composed of the following subset Series: GSE22658: Neurospora crassa early sexual development with MTP priming GSE22936: Saccharomyces cerevisiae grown in nitrogen depletion with MTP priming GSE22972: Neurospora crassa early sexual development with oligod(T) priming GSE22992: Saccharomyces cerevisiae grown in nitrogen depletion with oligodT priming Refer to individual Series

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Drosophila immune priming to Enterococcus faecalis relies on immune tolerance rather than resistance

Project description:Innate immune priming increases an organism’s survival of a second infection after an initial, non-lethal infection. We used Drosophila melanogaster and an insect-derived strain of Enterococcus faecalis to study transcriptional control of priming. In contrast to other pathogens, the enhanced survival in primed animals does not correlate with decreased E. faecalis load. Further analysis shows that primed organisms tolerate, rather than resist infection. Using RNA-seq of immune tissues, we found many genes were upregulated in only primed flies, suggesting a distinct transcriptional program in response to initial and secondary infections. In contrast, few genes continuously express throughout the experiment or more efficiently re-activate upon reinfection. Priming experiments in immune deficient mutants revealed Imd is largely dispensable for responding to a single infection but needed to fully prime. Together, this indicates the fly’s innate immune response is plastic — differing in immune strategy, transcriptional program, and pathway use depending on infection history.

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