Hippocampal transcriptomic responses to enzyme-mediated cellular dissociation

Rayna M. Harris, Hsin Yi Kao, Juan Marcos Alarcon, Hans A. Hofmann, Andre Fenton

Research output: Contribution to journalArticle

Abstract

Single-neuron gene expression studies may be especially important for understanding nervous system structure and function because of the neuron-specific functionality and plasticity that defines functional neural circuits. Cellular dissociation is a prerequisite technical manipulation for single-cell and single cell-population studies, but the extent to which the cellular dissociation process affects neural gene expression has not been determined. This information is necessary for interpreting the results of experimental manipulations that affect neural function such as learning and memory. The goal of this research was to determine the impact of cellular dissociation on brain transcriptomes. We compared gene expression of microdissected samples from the dentate gyrus (DG), CA3, and CA1 subfields of the mouse hippocampus either prepared by a standard tissue homogenization protocol or subjected to enzymatic digestion used to dissociate cells within tissues. We report that compared to homogenization, enzymatic dissociation alters about 350 genes or 2% of the hippocampal transcriptome. While only a few genes canonically implicated in long-term potentiation and fear memory change expression levels in response to the dissociation procedure, these data indicate that sample preparation can affect gene expression profiles, which might confound interpretation of results depending on the research question. This study is important for the investigation of any complex tissues as research effort moves from subfield level analysis to single cell analysis of gene expression.

Original languageEnglish (US)
JournalHippocampus
DOIs
StatePublished - Jan 1 2019

Fingerprint

Dissociative Disorders
Transcriptome
Enzymes
Gene Expression
Research
Single-Cell Analysis
Neurons
Long-Term Potentiation
Dentate Gyrus
Nervous System
Genes
Fear
Digestion
Hippocampus
Learning
Brain
Population

Keywords

  • genomics
  • hippocampus
  • reproducible research
  • transcriptomics

ASJC Scopus subject areas

  • Cognitive Neuroscience

Cite this

Hippocampal transcriptomic responses to enzyme-mediated cellular dissociation. / Harris, Rayna M.; Kao, Hsin Yi; Alarcon, Juan Marcos; Hofmann, Hans A.; Fenton, Andre.

In: Hippocampus, 01.01.2019.

Research output: Contribution to journalArticle

Harris, Rayna M. ; Kao, Hsin Yi ; Alarcon, Juan Marcos ; Hofmann, Hans A. ; Fenton, Andre. / Hippocampal transcriptomic responses to enzyme-mediated cellular dissociation. In: Hippocampus. 2019.
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