Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Dynamic changes of gene expression in the liver during ruminant evolution

ABSTRACT: To investigate the evolutionary changes of gene expression in ruminants, we performed gene expression profiling analysis using RNA-seq data of liver from three ruminants.

ORGANISM(S): Bos taurus Ovis aries Capra hircus

PROVIDER: GSE206184 | GEO | 2022/09/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Dynamics of regulatory elements in the liver during ruminant evolution

Project description:To investigate the evolutionary changes of regulatory elements in ruminants, we then performed regulatory elements profiling analysis using ChIP-seq datasets (H3K27ac and H3K4me3) of liver from three ruminants.

2022-09-15 | GSE206736 | GEO

Dynamic changes of gene expression in the liver during ruminant evolution

Project description:Dynamic changes of gene expression in the liver during ruminant evolution

| PRJNA849569 | ENA

Comparative epigenomic analyses of DNA methylomes and gene expression during ruminant evolution

Project description:This study is the first to report a genome-wide comparative DNA methylation map in three ruminants using WGBS technology.

2024-02-07 | GSE211353 | GEO

Dynamics of regulatory elements in the liver during ruminant evolution

Project description:Dynamics of regulatory elements in the liver during ruminant evolution

| PRJNA851837 | ENA

Lineage and ecology define liver tumor evolution in response to treatment

Project description:Single-cell transcriptome-based strategy to determine the evolutionary trajectories of longitudinal tumor biopsies from liver cancer patients by measuring cellular lineage and ecology. Our study provides a framework for monitoring tumor evolution in response to therapeutic intervention.

2023-12-22 | GSE229772 | GEO

Comparative analyses of DNA methylomes in the liver among three ruminants

Project description:This study is the first to report a genome-wide comparative DNA methylation map of liver in three ruminants using WGBS technology.

2022-09-15 | GSE206511 | GEO

Convergent Evolution among Ruminant-Pathogenic Mycoplasma Involved Extensive Gene Content Changes.

Project description:Convergent evolution, a process by which organisms evolved independently to have similar traits, provides opportunities to understand adaptation. The bacterial genus Mycoplasma contains multiple species that evolved independently to become ruminant pathogens, which represents an interesting study system for investigating the process. In this work, we determined the genome sequences of 11 Entomoplasma/Mesoplasma species. This new data set, together with the other available Mollicutes genomes, provided comprehensive taxon sampling for inferring the gene content evolution that led to the emergence of Mycoplasma Mycoides cluster. Our results indicated that the most recent common ancestor (MRCA) of the Mycoides-Entomoplasmataceae clade lost ∼15% of the core genes when it diverged from the Spiroplasma Apis clade. After this initial wave of genome reduction, relatively few gene gains or losses were inferred until the emergence of the Mycoides cluster. Compared with those Entomoplasmataceae lineages that maintained the association with insects, the MRCA of the Mycoides cluster experienced a second wave of gene losses, as well as acquiring >100 novel genes through horizontal gene transfer. These gene acquisitions involved many with the Mycoplasma Hominis/Pneumoniae lineages as the putative donors, suggesting that gene exchanges among these vertebrate symbionts with distinct phylogenetic affiliations may be important in the emergence of the Mycoides cluster. These findings demonstrated that the gene content of bacterial genomes could be exceedingly dynamic, even for those symbionts with highly reduced genomes. Moreover, the emergence of novel pathogens may involve extensive remodeling of gene content, rather than acquisition of few virulence genes.

| S-EPMC6117150 | biostudies-literature

The European ruminants during the "Microbunodon Event" (MP28, Latest Oligocene): impact of climate changes and faunal event on the ruminant evolution.

Project description:The Earth already experienced numerous episodes of global warming and cooling. One of the latest impressive events of temperature rising was the Late Oligocene Warming that occurred around 25 Mya. An increase of the marine temperature of 2 to 4°C has been observed in a short time interval. In Europe, this major climatic event can be correlated to the continental faunal turnover "Microbunodon Event". This event is marked by a huge faunal turnover (40% of the ungulate fauna during the first 500k years) and environmental changes. Drier conditions associated to the appearance of the seasonality lead to new environmental conditions dominated by wooded savannahs. This is correlated to a major arrival of Asiatic immigrants. Moreover, from a homogenous fauna during the main part of the Oligocene, local climatic variations between the European Western coast and the more central Europe could have provided faunal regionalism during the latest Oligocene and earliest Miocene. Considering the ruminants, this event is the major ever known for this group in Europe. A total renewal at the family level occurred. Thanks to a precise stratigraphic succession, major evolutionary elements are highlighted. Typical Oligocene species, mainly Tragulina, were adapted to wooded environments and were leaves/fruits eaters. They disappeared at the end of MP27 or the early MP28. This corresponds to the appearance of the Asiatic immigrants. The Tragulina (Lophiomerycidae, Bachitheriidae) and stem Pecora gave way to more derived stem and maybe crown Pecora (e.g. "Amphitragulus", Babameryx, Dremotherium). These newcomers were adapted to more open environments and mixed feeding. The disappearance of the Tragulina is probably linked to environmental and vegetation changes, and competition. They give way to more derived ruminants having a more efficient metabolism in drier conditions and a better assimilation of less energetic food.

| S-EPMC4334963 | biostudies-literature

Evolutionary and Molecular Characterization of liver enriched gene 1

Project description:Evolutionary and Molecular Characterization of liver enriched gene 1

| PRJNA556809 | ENA

Direct Evolution of Adeno-Associated Virus 5 Capsid Enables Specific Liver Tropism

Project description:Gene therapy has been thriving in recent years, as featured by general triumphs in several clinical trials to treat hemophilia. It highlights the significance of AAV mediated gene delivery to liver. AAV5 is a unique serotype with low neutralizing antibody prevalence. In this study, we generated an AAV5 mutant vector by inserting an oligopeptide into the variable region VIII of the AAV5, termed as AAVzk2, which displayed comparable yield with wild type serotypes. Mice intravenously injected with AAVzk2 demonstrated a stronger liver transduction than AAV5, which were grossly comparable with AAV8 and 9 treated mice. However, AAVzk2 negligibly transduced other tissues or organs such as heart, lung, spleen, kidney, brain and skeletal muscle, indicating a liver specific tropism. Further studies showed a superior human hepatocellular transduction of AAVzk2 to AAV5, 8 and 9, whereas the seroreactivity of AAVzk2 was as low as AAV5. Moreover, mass spectroscopy revealed great divergency in post-translational modification patterns between AAV5 and AAVzk2. Overall, we provide a novel AAV serotype that could not only facilitate a robust and specific liver gene delivery to a large population, but also offer valuable clues for future investigation of the nature of AAV5.

2022-04-01 | PXD032891 |

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data