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Acta Neuropathol. 2020 Jan;139(1):45-61. doi: 10.1007/s00401-019-02066-0. Epub 2019 Aug 27.

The TMEM106B FTLD-protective variant, rs1990621, is also associated with increased neuronal proportion.

Li Z1,2,3, Farias FHG1,2,3, Dube U1,2,3, Del-Aguila JL1,2,3, Mihindukulasuriya KA1,2,3, Fernandez MV1,2,3, Ibanez L1,2,3, Budde JP1,2,3, Wang F1,2,3, Lake AM4, Deming Y5, Perez J1,2,3, Yang C1,2,3, Bahena JA1,2,3, Qin W1,6, Bradley JL1,2,3, Davenport R1,2,3, Bergmann K1,2,3, Morris JC1,7, Perrin RJ1,7, Benitez BA1,2,3, Dougherty JD1, Harari O1,2,3, Cruchaga C8,9,10.

Author information

1
Department of Psychiatry, BJC Institute of Heath, Washington University School of Medicine, 425 S. Euclid Ave., Box 8134, St. Louis, MO, 63110, USA.
2
NeuroGenomics and Informatics, Washington University School of Medicine, St. Louis, MO, USA.
3
Hope Center for Neurological Disorders, Washington University School of Medicine, St. Louis, MO, USA.
4
Vanderbilt University Medical Scientist Training Program, Nashville, TN, USA.
5
Department of Medicine, University of Wisconsin-Madison, Madison, WI, USA.
6
Department of Neurology, Xuanwu Hospital, Capital Medical University, Beijing, China.
7
The Charles F. and Joanne Knight Alzheimer Disease Research Center, Washington University School of Medicine, St. Louis, MO, USA.
8
Department of Psychiatry, BJC Institute of Heath, Washington University School of Medicine, 425 S. Euclid Ave., Box 8134, St. Louis, MO, 63110, USA. ccruchaga@wustl.edu.
9
NeuroGenomics and Informatics, Washington University School of Medicine, St. Louis, MO, USA. ccruchaga@wustl.edu.
10
Hope Center for Neurological Disorders, Washington University School of Medicine, St. Louis, MO, USA. ccruchaga@wustl.edu.

Abstract

Apart from amyloid β deposition and tau neurofibrillary tangles, Alzheimer's disease (AD) is a neurodegenerative disorder characterized by neuronal loss and astrocytosis in the cerebral cortex. The goal of this study is to investigate genetic factors associated with the neuronal proportion in health and disease. To identify cell-autonomous genetic variants associated with neuronal proportion in cortical tissues, we inferred cellular population structure from bulk RNA-Seq derived from 1536 individuals. We identified the variant rs1990621 located in the TMEM106B gene region as significantly associated with neuronal proportion (p value = 6.40 × 10-07) and replicated this finding in an independent dataset (p value = 7.41 × 10-04) surpassing the genome-wide threshold in the meta-analysis (p value = 9.42 × 10-09). This variant is in high LD with the TMEM106B non-synonymous variant p.T185S (rs3173615; r2 = 0.98) which was previously identified as a protective variant for frontotemporal lobar degeneration (FTLD). We stratified the samples by disease status, and discovered that this variant modulates neuronal proportion not only in AD cases, but also several neurodegenerative diseases and in elderly cognitively healthy controls. Furthermore, we did not find a significant association in younger controls or schizophrenia patients, suggesting that this variant might increase neuronal survival or confer resilience to the neurodegenerative process. The single variant and gene-based analyses also identified an overall genetic association between neuronal proportion, AD and FTLD risk. These results suggest that common pathways are implicated in these neurodegenerative diseases, that implicate neuronal survival. In summary, we identified a protective variant in the TMEM106B gene that may have a neuronal protection effect against general aging, independent of disease status, which could help elucidate the relationship between aging and neuronal survival in the presence or absence of neurodegenerative disorders. Our findings suggest that TMEM106B could be a potential target for neuronal protection therapies to ameliorate cognitive and functional deficits.

KEYWORDS:

Complex traits; Cortex; Deconvolution; GWAS; Neurodegeneration; QTL

PMID:
31456032
PMCID:
PMC6942643
[Available on 2021-01-01]
DOI:
10.1007/s00401-019-02066-0

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