Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Enterotype G0-G3

ABSTRACT: Host genetics influences gut microbiota over generations in pigs

PROVIDER: PRJEB60032 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10929100_1.fastq.gz	Fastqsanger.gz
	ERR10929100_2.fastq.gz	Fastqsanger.gz
	ERR10929200_1.fastq.gz	Fastqsanger.gz
	ERR10929200_2.fastq.gz	Fastqsanger.gz
	ERR10929300_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 2346

Similar Datasets

Comparing Gut Microbial Composition and Functional Adaptations between SPF and Non-SPF pigs

Project description:The gut microbiota is closely associated with digestion, metabolism, immunity, and host health. The imbalance of the microbial community in livestock directly affects their well-being and, consequently, productivity. The composition and diversity of the gut microbiota are influenced not only by host genetics but also by environmental factors such as the microbial complexity of the rearing environment, feeds, and antibiotics. Here, we focus on the comparison of gut microbial communities in miniature pigs developed for xenotransplantation in specific pathogen-free (SPF) and conventional (non-SPF) facilities. To identify the disparities in gut microbial composition and functionality between these two environments, 16S RNA metagenome sequencing was conducted using fecal samples. The results revealed that the non-SPF pigs had higher gut microbiota diversity than the SPF pigs. The genera Streptococcus and Ruminococcus were more abundant in SPF pigs than in non-SPF pigs. Blautia, Bacteroides, and Roseburia were exclusively observed in SPF pigs, whereas Prevotella was exclusively found in non-SPF pigs. Carbohydrate and nucleotide metabolism, as well as environmental information processing, were predicted to be enriched in SPF pigs. In addition, energy and lipid metabolism, along with processes related to genetic information, cellular communication, and diseases, were predicted to be enriched in non-SPF pigs. This study makes an important contribution to elucidating the impact of environments harboring a variety of microorganisms, including pathogens, on the gut microbiota of miniature pigs. Furthermore, we sought to provide foundational data on the characteristics of the gut microbiota in genetically modified pigs, which serve as source animals for xenotransplantation.

2024-04-22 | GSE264183 | GEO

E-MTAB-8550

Project description:Gut microbiota and gallstone formation - cohousing study

2020-01-10 | E-MTAB-8550 | ExpressionAtlas

Metaproteomic analysis of gut resistome in the cecal microbiota of fattening pigs raised without antibiotics

Project description:Improper use of antibiotics in swine could reduce commensal bacteria and possibly increase pathogen infections via the gut resistome. This study aimed to compare the metaproteomic profiles of gut resistome and related metabolism in the cecal microbiota of fattening pigs raised under antibiotic-free (ABF) conditions with those of ordinary industrial pigs (CTRL).

2023-10-09 | PXD037218 | JPOST Repository

Alternations in gut microbiota and host transcriptome of patients with coronary artery disease [16S_rRNA]

Project description:Coronary artery disease (CAD) is a widespread heart condition caused by atherosclerosis and influences millions of people worldwide. Early detection of CAD is challenging due to the lack of specific biomarkers. The gut microbiota and host-microbiota interactions have been well documented to affect human health. However, investigation that reveals the role of gut microbes in CAD is still limited. This study aims to uncover the synergistic effects of host genes and gut microbes associated with CAD through integrative genomic analyses.

2023-10-15 | GSE242047 | GEO

Alternations in gut microbiota and host transcriptome of patients with coronary artery disease [RNA-seq]

2023-10-15 | GSE242046 | GEO

Effect of gut microbiota colonizing on gene expression in the porcine hypothalamus

Project description:To investigate the impact of gut microbiota deleting and colonizing on hypothalamic health and function, the tissue samples from the germ-free (GF) pigs and the GF pigs colonized gut microbiota (CG) are used to perform whole RNA-seq for gene expression analysis We then performed long RNAs and small RNAs expression profiling analysis using data obtained from the RNA-seq of 3 different hypothalamus samples from the two groups of pigs

2022-07-11 | GSE207675 | GEO

E-MTAB-6079

Project description:The gut microbiota promotes hepatic fatty acid desaturation and elongation in mice

2018-09-17 | E-MTAB-6079 | ExpressionAtlas

ena-DATASET-KULVIB-06-10-2021-09:31:35:056-3 - samples

Project description:Variation and transmission of the human gut microbiota across generations - 16S sequencing data

| EGAD00001008195 | EGA

ena-DATASET-KULVIB-08-10-2021-14:28:41:370-84 - samples

Project description:Variation and transmission of the human gut microbiota across generations - shotgun sequencing data

| EGAD00001008207 | EGA

Polymorphic immune mechanisms regulate commensal repertoire

Project description:Environmental influences such as infections and dietary changes strongly affect a host’s microbiota. In the steady state, however, host genetics may influence the microbiota composition, as suggested by the greater similarity between the microbiomes of identical twin pairs compared to non-identical twins. Understanding the role of polymorphic mechanisms in regulating the commensal communities is complicated by the variability of human genomes and microbiomes, and by microbial sensitivity to the environment. Animal studies allow genetic modifications, but are also sensitive to influences known as ‘cage’ or ‘legacy’ effects. Here, we analyzed ex-germ-free mice of various genetic backgrounds, including immunodeficient and Major Histocompatibility Complex (MHC)-congenic strains repopulated with identical input microbiota. We found that the host’s genetic polymorphic mechanisms did indeed affect the gut microbiome and that both innate (e.g. anti-microbial peptides, complement, pentraxins and enzymes affecting microbial survival), as well as adaptive (both MHC-dependent and MHC-independent) pathways influenced the microbiota. These polymorphic mechanisms regulated only a limited number of microbial lineages (independently of their abundance). In addition, our comparative analyses suggested that some microbes might benefit from the specific immune responses that they elicit.

2019-08-29 | GSE136572 | GEO

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