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Triqueneaux G, Burny C, Symmons O, Janczarski S, Gruffat H, Yvert G. Cell-to-cell expression dispersion of B-cell surface proteins is linked to genetic variants in humans. Commun Biol 2020; 3:346. [PMID: 32620900 PMCID: PMC7335051 DOI: 10.1038/s42003-020-1075-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2019] [Accepted: 06/12/2020] [Indexed: 01/02/2023] Open
Abstract
Variability in gene expression across a population of homogeneous cells is known to influence various biological processes. In model organisms, natural genetic variants were found that modify expression dispersion (variability at a fixed mean) but very few studies have detected such effects in humans. Here, we analyzed single-cell expression of four proteins (CD23, CD55, CD63 and CD86) across cell lines derived from individuals of the Yoruba population. Using data from over 30 million cells, we found substantial inter-individual variation of dispersion. We demonstrate, via de novo cell line generation and subcloning experiments, that this variation exceeds the variation associated with cellular immortalization. We detected a genetic association between the expression dispersion of CD63 and the rs971 SNP. Our results show that human DNA variants can have inherently-probabilistic effects on gene expression. Such subtle genetic effects may participate to phenotypic variation and disease outcome. Triqueneaux, Burny, Symmons et al. show association between gene expression noise and genotypes, using single-cell expression of four proteins across human-derived lymphoblastoid cell lines. This study suggests that very subtle regulatory effects of human DNA variants may contribute to phenotypic variation and disease outcome.
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Affiliation(s)
- Gérard Triqueneaux
- Laboratory of Biology and Modeling of the Cell, Univ Lyon, Ecole Normale Superieure de Lyon, CNRS UMR5239, Universite Claude Bernard Lyon 1, 69007, Lyon, France
| | - Claire Burny
- Laboratory of Biology and Modeling of the Cell, Univ Lyon, Ecole Normale Superieure de Lyon, CNRS UMR5239, Universite Claude Bernard Lyon 1, 69007, Lyon, France.,Institut für Populationsgenetik, Vienna Graduate School of Population Genetics, Vetmeduni Vienna, Vienna, Austria
| | - Orsolya Symmons
- Laboratory of Biology and Modeling of the Cell, Univ Lyon, Ecole Normale Superieure de Lyon, CNRS UMR5239, Universite Claude Bernard Lyon 1, 69007, Lyon, France.,Max Planck Institute for Biology of Ageing, Cologne, 50931, Germany
| | - Stéphane Janczarski
- Laboratory of Biology and Modeling of the Cell, Univ Lyon, Ecole Normale Superieure de Lyon, CNRS UMR5239, Universite Claude Bernard Lyon 1, 69007, Lyon, France
| | - Henri Gruffat
- CIRI-Centre International de Recherche en Infectiologie, Universite Claude Bernard Lyon 1, Univ Lyon, Inserm U1111, CNRS UMR5308, Ecole Normale Superieure de Lyon, 69007, Lyon, France
| | - Gaël Yvert
- Laboratory of Biology and Modeling of the Cell, Univ Lyon, Ecole Normale Superieure de Lyon, CNRS UMR5239, Universite Claude Bernard Lyon 1, 69007, Lyon, France.
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