TREM2 impacts brain microglia, oligodendrocytes and endothelial co-expression modules revealing genes and pathways important in Alzheimer s disease

Carbajosa, G.; Malki, K.; Lawless, N.; Wang, H.; Ryder, J. W.; Wood, K.; Mein, C. A.; Hodgkinson, A.; Dobson, R. J. B.; Collier, D. A.; ONeill, M.; Newhouse, S. J.; Hodges, A. K.

doi:10.1101/2021.07.16.452732

bioRxiv · 10.1101/2021.07.16.452732

TREM2 impacts brain microglia, oligodendrocytes and endothelial co-expression modules revealing genes and pathways important in Alzheimer s disease

Carbajosa, G.·Malki, K.·Lawless, N.·Wang, H.·Ryder, J. W.·Wood, K.·Mein, C. A.·Hodgkinson, A.·Dobson, R. J. B.·Collier, D. A.·ONeill, M.·Newhouse, S. J.·Hodges, A. K.

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Abstract

A microglia response to pathogenic signals in diseases such as Alzheimers disease (AD) has long been recognised, but recent genetic findings have cemented their direct causal contribution to AD and thus the potential to target them or their effector pathways as a possible treatment strategy. TREM2 is a highly penetrant microglia risk gene for AD, which appears central to the coordination of the damage response by microglia in AD. Its absence has a negative impact on Tau and amyloid symptoms and pathologies. Full knowledge of its pathway and relationships with other brain cells in AD has not been fully characterised, but will be essential to fully evaluate the impact of manipulating this pathway for treatment development and to establish the best targets for achieving this. We used whole genome RNA sequencing of hippocampus and cortical brain samples from control, AD, and AD TREM2 risk carriers to identify TREM2-dependent genes driving changes in pathways, processes and cell types in AD. Through highly influential intra and intermodular hub genes and overall changes in the levels of gene expression, TREM2-DAP12 was found to strongly influence a number of other microglia, oligodendrocyte and endothelial genes, notably those involved in complement and Fc{gamma} receptor function, microglia-associated ribosomal genes and oligodendrocyte genes, particularly proteosomal subunits. These strong TREM2 centred co-expression relationships were significantly disrupted in AD cases with a TREM2 risk variant, revealing for the first time genes and pathways directly impacted by TREM2 in the brains of AD patients. Consistent with its function as a lipid sensor, our data supports a role for TREM2 in mediating oligodendrocyte and/or myelin clearance in AD which may be essential not only for preserving healthy tissue homeostasis but may also serve to minimise the persistence of antigenic peptides and lipids which may lead to detrimental pro-inflammatory sequelae. Further work should expand our knowledge of TREM2 on complement and Fc{gamma} receptor function and its impact on oligodendcrotye and myelin integrity and further evaluate the genes and pathways we have identified as possible treatment targets for AD.

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Carbajosa, G., Malki, K., Lawless, N., Wang, H., Ryder, J. W., Wood, K., Mein, C. A., Hodgkinson, A., Dobson, R. J. B., Collier, D. A., ONeill, M., Newhouse, S. J., Hodges, A. K.. 2021-07-17. TREM2 impacts brain microglia, oligodendrocytes and endothelial co-expression modules revealing genes and pathways important in Alzheimer s disease. https://doi.org/10.1101/2021.07.16.452732

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