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Conservation of cis-regulatory codes over half a billion years of evolution [Iso-Seq]

ABSTRACT: Conservation of cis-regulatory codes over half a billion years of evolution [Iso-Seq]

PROVIDER: PRJNA1197420 | ENA |

REPOSITORIES: ENA

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Conservation of cis-regulatory codes over half a billion years of evolution [Iso-Seq]

Project description:The identification of homologous cell types across species represents a crucial step in understanding cell type evolution. The retina is particularly amenable to comparative analysis because the basic morphology, connectivity, and function of its six major cell classes have remained largely invariant since the earliest stages of vertebrate evolution. We used comparative single-nucleus chromatin accessibility analysis of lamprey, fish, bird, and mammalian retinas, which began to diverge over half a billion years ago, to demonstrate cross-species conservation of cis-regulatory codes in all six retinal cell classes. In this study, we acquired retinal single-cell gene expression profiling (scRNA-seq) and single-nucleus chromatin accessibility (snATAC-seq) from sea lamprey (Petromyzon marinus), a jawless species. We also acquired long-read sequence data from lamprey retina and single-nucleus chromatin accessibility from chicken (Gallus gallus).

2025-08-18 | GSE284132 | GEO

Conservation of cis-regulatory codes over half a billion years of evolution

2025-08-18 | GSE284136 | GEO

Conservation of cis-regulatory codes over half a billion years of evolution

Project description:Conservation of cis-regulatory codes over half a billion years of evolution

| PRJNA1197421 | ENA

Conservation of cis-regulatory codes over half a billion years of evolution [snATAC-Seq]

2025-08-18 | GSE284128 | GEO

Conservation of cis-regulatory codes over half a billion years of evolution [multiome RNA-Seq]

2025-08-18 | GSE284131 | GEO

Conservation of cis-regulatory codes over half a billion years of evolution [multiome ATAC-Seq]

2025-08-18 | GSE284130 | GEO

Conservation of cis-regulatory codes over half a billion years of evolution [snATAC-Seq]

Project description:Conservation of cis-regulatory codes over half a billion years of evolution [snATAC-Seq]

| PRJNA1197409 | ENA

Conservation of cis-regulatory codes over half a billion years of evolution [multiome RNA-Seq]

Project description:Conservation of cis-regulatory codes over half a billion years of evolution [multiome RNA-Seq]

| PRJNA1197415 | ENA

Conservation of cis-regulatory codes over half a billion years of evolution [multiome ATAC-Seq]

Project description:Conservation of cis-regulatory codes over half a billion years of evolution [multiome ATAC-Seq]

| PRJNA1197416 | ENA

Conservation of protein structure over four billion years.

Project description:Little is known about the evolution of protein structures and the degree of protein structure conservation over planetary time scales. Here, we report the X-ray crystal structures of seven laboratory resurrections of Precambrian thioredoxins dating up to approximately four billion years ago. Despite considerable sequence differences compared with extant enzymes, the ancestral proteins display the canonical thioredoxin fold, whereas only small structural changes have occurred over four billion years. This remarkable degree of structure conservation since a time near the last common ancestor of life supports a punctuated-equilibrium model of structure evolution in which the generation of new folds occurs over comparatively short periods and is followed by long periods of structural stasis.

| S-EPMC3774310 | biostudies-literature

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