Spatiotemporal Regulation of Transcript Isoform Expression in the Hippocampus

Abstract

Proper development and plasticity of hippocampal neurons require specific RNA isoforms to be expressed in the right place at the right time. Precise spatiotemporal transcript regulation requires the incorporation of essential regulatory RNA sequences into expressed isoforms. In this review, we describe several RNA processing strategies utilized by hippocampal neurons to regulate the spatiotemporal expression of genes critical to development and plasticity. The works described here demonstrate how the hippocampus is an ideal investigative model for uncovering alternate isoform-specific mechanisms that restrict the expression of transcripts in space and time.

Heterogeneity of novel APOER2 isoforms specific to Alzheimer’s disease impact cellular and synaptic states

“…This finding suggests that combinatorial splicing may be dysregulated at some level in AD driving the presence of different APOER2 isoforms of lower abundance. This is interesting as splicing is regulated in a spatiotemporal specific manner (Park and Farris, 2021). As such, these APOER2 isoforms may be reflective of disease specific changes, region-specific differences, or an interaction between disease and brain region.…”

Relationships between neurotransmitter receptor densities and expression levels of their corresponding genes in the human hippocampus

“…These issues motivate the development of novel ligands for the visualization of specific receptor subtypes, as well as of advanced methods to specifically identify the subunits of ionotropic receptors. A further limitation in the chosen approach for gene expression analysis is that 3′mRNA-Seq reads mostly map to the last exon of genes and are thus not suited to determine transcript isoform expression ( Ma et al., 2019 ), which might be differentially regulated between hippocampal regions ( Park and Farris, 2021 ). Moreover, the present analysis has targeted the CA-region as a whole, although it can be further subdivided into areas CA1, CA2 and CA3, which differ in their receptor architecture, e.g.…”