2017
DOI: 10.1038/srep43184
|View full text |Cite
|
Sign up to set email alerts
|

Abstract: Rod photoreceptors are specialized neurons that mediate vision in dim light and are the predominant photoreceptor type in nocturnal mammals. The rods of nocturnal mammals are unique among vertebrate cell types in having an ‘inverted’ nuclear architecture, with a dense mass of heterochromatin in the center of the nucleus rather than dispersed clumps at the periphery. To test if this unique nuclear architecture is correlated with a unique epigenomic landscape, we performed ATAC-seq on mouse rods and their most c… Show more

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...
3
1
1

Citation Types

12
116
0

Year Published

2018
2018
2022
2022

Publication Types

Select...
4
1
1

Relationship

0
6

Authors

Journals

citations
Cited by 73 publications
(128 citation statements)
references
References 87 publications
12
116
0
Order By: Relevance
“…Among the significantly altered transcripts in P8 Opn4 DTA/DTA versus wild-type retinas, the dopamine receptor D 4 (Drd4) appeared to be a good candidate, showing significantly reduced expression (Figure 2B). DRD4 expression was confirmed to be expressed in cones in four separate transcriptional datasets (Hughes et al, 2017; Kim et al, 2016; Mo et al, 2016; Siegert et al, 2012). In the mature retina, ipRGCs are known to influence cone photoreceptor light adaptation by controlling dopamine (DA) release from dopaminergic amacrine cells (DACs) (Prigge et al, 2016; Zhang et al, 2008a), an effect dependent on the expression of DRD4 (Jackson et al, 2012).…”
Section: Resultsmentioning
confidence: 85%
“…Among the significantly altered transcripts in P8 Opn4 DTA/DTA versus wild-type retinas, the dopamine receptor D 4 (Drd4) appeared to be a good candidate, showing significantly reduced expression (Figure 2B). DRD4 expression was confirmed to be expressed in cones in four separate transcriptional datasets (Hughes et al, 2017; Kim et al, 2016; Mo et al, 2016; Siegert et al, 2012). In the mature retina, ipRGCs are known to influence cone photoreceptor light adaptation by controlling dopamine (DA) release from dopaminergic amacrine cells (DACs) (Prigge et al, 2016; Zhang et al, 2008a), an effect dependent on the expression of DRD4 (Jackson et al, 2012).…”
Section: Resultsmentioning
confidence: 85%
“…We obtained publicly available ATAC-seq data derived from lineage identified cell-types sorted ex vivo from mice and from mouse brain single nuclei analyses (Table S1) (Preissl et al 2018;Matcovitch-Natan et al 2016;Gray et al 2017;Mo et al 2015;Hughes et al 2017;Hosoya et al 2018;McClymont et al 2018). In total, we obtained 25 mouse ATAC-seq datasets encompassing subclasses of six broader cell types (dopaminergic neurons, excitatory neu-rons, glia, inhibitory neurons, retina cells, and T-cells) (Table S1).…”
Section: A Uniform Pipeline For Processing Of Mouse Atac-seq Datamentioning
confidence: 99%
“…ATAC‐seq is a relatively recent technique and so far it has been scarcely used to investigate the mechanisms of retina development. Nevertheless, recent works took advantage of this technology to explore the epigenomic landscape of the retinal tissues in mammals . In the extensive study of Aldiri and collaborators, they overlapped histone marks from ChIP‐seq data with regions of open chromatin defined by ATAC‐seq, to characterize cis‐regulatory elements dynamics through development.…”
Section: Atac‐seq Has Proved a Powerful Tool To Interrogate Cis‐regulmentioning
confidence: 99%
“…Analysis of open chromatin regions showed that rod‐specific genes are typically regulated by proximal regulatory sequences, while in cones distal enhancers play a significant role in gene regulation . Moreover, the analysis of rods and cones epigenomic landscapes revealed a distinct enrichment of TF binding sites, unveiling important differences in the cis‐regulatory grammar of these cell types . DNA hypomethylation usually coincides with accessibility and putative regulatory activity in many cell types and tissues .…”
Section: Atac‐seq Has Proved a Powerful Tool To Interrogate Cis‐regulmentioning
confidence: 99%
See 1 more Smart Citation