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Immune landscape of isocitrate dehydrogenase stratified human gliomas

View ORCID ProfilePravesh Gupta, Minghao Dang, Shivangi Oberai, Mekenzie Peshoff, Nancy Milam, Aml Ahmed, Krishna Bojja, Tuan M. Tran, Kathryn Cox, Huma Shehwana, Carlos Kamiya-Matsuoka, Jianzhuo Li, Joy Gumin, Alicia Goldman, Sameer A. Seth, Atul Maheshwari, Frederick F. Lang, Nicholas E. Navin, Amy B. Heimberger, Karen Clise-Dwyer, Linghua Wang, Krishna P. Bhat
doi: https://doi.org/10.1101/2022.11.08.514794
Pravesh Gupta
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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  • ORCID record for Pravesh Gupta
  • For correspondence: PGupta2@mdanderson.org Lwang22@mdanderson.org Kbhat@mdanderson.org
Minghao Dang
2Departments of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Shivangi Oberai
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Mekenzie Peshoff
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Nancy Milam
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Aml Ahmed
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Krishna Bojja
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Tuan M. Tran
3Departments of Genetics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Kathryn Cox
4Departments of Hematopoietic Biology and Malignancy, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Huma Shehwana
5Departments of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Carlos Kamiya-Matsuoka
6Departments of Neuro-Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Jianzhuo Li
3Departments of Genetics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Joy Gumin
7Departments of Neurosurgery, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Alicia Goldman
9Departments of Neurology and Neuroscience, Baylor College of Medicine, Houston, TX, USA
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Sameer A. Seth
10Departments of Neurosurgery, Baylor College of Medicine, Houston, TX, USA
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Atul Maheshwari
9Departments of Neurology and Neuroscience, Baylor College of Medicine, Houston, TX, USA
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Frederick F. Lang
7Departments of Neurosurgery, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Nicholas E. Navin
3Departments of Genetics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
5Departments of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Amy B. Heimberger
7Departments of Neurosurgery, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
11Department of Neurosurgery, Northwestern University, IL, USA
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Karen Clise-Dwyer
4Departments of Hematopoietic Biology and Malignancy, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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Linghua Wang
2Departments of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
8Departments of Graduate School of Biomedical Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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  • For correspondence: PGupta2@mdanderson.org Lwang22@mdanderson.org Kbhat@mdanderson.org
Krishna P. Bhat
1Departments of Translational Molecular Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
7Departments of Neurosurgery, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
8Departments of Graduate School of Biomedical Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
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  • For correspondence: PGupta2@mdanderson.org Lwang22@mdanderson.org Kbhat@mdanderson.org
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ABSTRACT

The brain tumor immune microenvironment (TIME) continuously evolves during glioma progression, but only a limited view of a highly complex glioma associated immune contexture across isocitrate dehydrogenase mutation (IDH) classified gliomas is known. Herein, we present an unprecedentedly comprehensive view of myeloid and lymphoid cell type diversity based on our single cell RNA sequencing and spectral cytometry-based interrogation of tumor-associated leukocytes from fifty-five IDH stratified primary and recurrent human gliomas and three non-glioma brains. Our analyses revealed twenty-two myeloid and lymphoid cell types within and across glioma subtypes. Glioma severity correlated with microglial attrition concomitant with a continuum of invading monocyte-derived microglia-like and macrophages amongst other infiltrating conventional T and NK lymphocytes and unconventional mucosa associated invariant T (MAIT) cells. Specifically, certain microglial and monocyte-derived subpopulations were associated with antigen presentation gene modules, akin to cross-presenting dendritic cells (DCs). Furthermore, we identified phagocytosis and antigen presentation gene modules enriched in Triggering receptor expressed on myeloid (TREM)-2+ cells as a putative anti-glioma axis. Accelerated glioma growth was observed in Trem2 deficient mice implanted with CT2A glioma cells affirming the anti-glioma role of TREM2+ myeloid cells. In addition to providing a comprehensive landscape of glioma-specific immune contexture, our investigations discover TREM2 as a novel immunotherapy target for brain malignancies.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted November 09, 2022.
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Immune landscape of isocitrate dehydrogenase stratified human gliomas
Pravesh Gupta, Minghao Dang, Shivangi Oberai, Mekenzie Peshoff, Nancy Milam, Aml Ahmed, Krishna Bojja, Tuan M. Tran, Kathryn Cox, Huma Shehwana, Carlos Kamiya-Matsuoka, Jianzhuo Li, Joy Gumin, Alicia Goldman, Sameer A. Seth, Atul Maheshwari, Frederick F. Lang, Nicholas E. Navin, Amy B. Heimberger, Karen Clise-Dwyer, Linghua Wang, Krishna P. Bhat
bioRxiv 2022.11.08.514794; doi: https://doi.org/10.1101/2022.11.08.514794
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Immune landscape of isocitrate dehydrogenase stratified human gliomas
Pravesh Gupta, Minghao Dang, Shivangi Oberai, Mekenzie Peshoff, Nancy Milam, Aml Ahmed, Krishna Bojja, Tuan M. Tran, Kathryn Cox, Huma Shehwana, Carlos Kamiya-Matsuoka, Jianzhuo Li, Joy Gumin, Alicia Goldman, Sameer A. Seth, Atul Maheshwari, Frederick F. Lang, Nicholas E. Navin, Amy B. Heimberger, Karen Clise-Dwyer, Linghua Wang, Krishna P. Bhat
bioRxiv 2022.11.08.514794; doi: https://doi.org/10.1101/2022.11.08.514794

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