Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1012819 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR25904940_1.fastq.gz | Fastqsanger.gz | |||
| SRR25904940_2.fastq.gz | Fastqsanger.gz | |||
| SRR25904941_1.fastq.gz | Fastqsanger.gz | |||
| SRR25904941_2.fastq.gz | Fastqsanger.gz | |||
| SRR25904942_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 82 |
Similar Datasets
Project description:The human intestinal microbiota associated with rats produces in vivo a soluble(s) factor(s) that down-regulates the expression of genes encoding for the Shiga toxin II in E. coli O157:H7. The Shiga toxin II is one of the major virulence factors of E. coli enterohemorragic leading to the deadly hemolitic and uremic syndrome. Investigation of the effect of the human intestinal microbiota on the whole transcriptome of EHEC O157:H7 is of major importance to increase our understanding of the pathogen transcriptomic adaptation in response to the human microbiota. We analysed by microarray hybridization the gene expression pattern of EHEC O157:H7 grown in the caecal content of germ-free rats or rats associated with the human microbiota of a healthy human subject. By doing so, we increased our understanding of the regulatory activities of the human gut microbiota on E. coli O157:H7 A first group of twelve weeks old, male, germfree rats was colonized with the human fecal microbiota and a second group was kept germfree and condidered as a controle group. Rats were fed for two weeks with a sterile human type diet, and were sacrificed. E. coli O157:H7 was cultivated for 6 hours in the caecal content of germfree rats and rats associated with the human intestinal microbiota. RNAs were extracted and cDNAs were synthesized, fragmented and biotinylated before being hybridized on Affymetrix E. coli genome 2.0 arrays. The effect of the human intestinal microbiota was investigated by comparing the gene expression level in the caecal content of rats associated with the human microbiota with their expression level in the caecal content of the germfree rats.
2013-09-10 | E-GEOD-37095 | biostudies-arrayexpress
Project description:Chronic acid suppression by proton pump inhibitor (PPI) has been hypothesized to alter the gut microbiota via a change in intestinal pH. To evaluate the changes in gut microbiota composition by long-term PPI treatment. Twenty-four week old F344 rats were fed with (n = 5) or without (n = 6) lansoprazole (PPI) for 50 weeks. Then, profiles of luminal microbiota in the terminal ileum were analyzed. Pyrosequencing for 16S rRNA gene was performed by genome sequencer FLX (454 Life Sciences/Roche) and analyzed by metagenomic bioinformatics.
2015-04-14 | E-GEOD-67800 | biostudies-arrayexpress
Project description:The human intestinal microbiota associated with rats produces in vivo a soluble(s) factor(s) that down-regulates the expression of genes encoding for the Shiga toxin II in E. coli O157:H7. The Shiga toxin II is one of the major virulence factors of E. coli enterohemorragic leading to the deadly hemolitic and uremic syndrome. Investigation of the effect of the human intestinal microbiota on the whole transcriptome of EHEC O157:H7 is of major importance to increase our understanding of the pathogen transcriptomic adaptation in response to the human microbiota. We analysed by microarray hybridization the gene expression pattern of EHEC O157:H7 grown in the caecal content of germ-free rats or rats associated with the human microbiota of a healthy human subject. By doing so, we increased our understanding of the regulatory activities of the human gut microbiota on E. coli O157:H7
2013-09-10 | GSE37095 | GEO
Project description:To investigate the function of Desertliving Cistanche herb in the postmenopausal osteoporosis, we established ovariectomized rats in which both ovaried were removed.We performed gene expression profiling alalysisi using date obtained from RNA-seq of ovariectomized rats of postmenopausal osteoporosis.
2023-12-31 | GSE208290 | GEO
Project description:This a model from the article:
Rhythmic secretion of prolactin in rats: action of oxytocin coordinated by
vasoactive intestinal polypeptide of suprachiasmatic nucleus origin.
Egli M, Bertram R, Sellix MT, Freeman ME. Endocrinology
2004 Jul;145(7):3386-94 15033917
,
Abstract:
Prolactin (PRL) is secreted from lactotrophs of the anterior pituitary gland of
rats in a unique pattern in response to uterine cervical stimulation (CS) during
mating. Surges of PRL secretion occur in response to relief from hypothalamic
dopaminergic inhibition and stimulation by hypothalamic releasing neurohormones.
In this study, we characterized the role of oxytocin (OT) in this system and the
involvement of vasoactive intestinal polypeptide (VIP) from the suprachiasmatic
nucleus (SCN) in controlling OT and PRL secretion of CS rats. The effect of OT
on PRL secretion was demonstrated in cultured lactotrophs showing simultaneous
enhanced secretion rate and increased intracellular Ca(2+). Neurosecretory OT
cells of the hypothalamic paraventricular nucleus that express VIP receptors
were identified by using immunocytochemical techniques in combination with the
retrogradely transported neuronal tracer Fluoro-Gold (iv injected). OT
measurements of serial blood samples obtained from ovariectomized (OVX) CS rats
displayed a prominent increase at the time of the afternoon PRL peak. The
injection of VIP antisense oligonucleotides into the SCN abolished the afternoon
increase of OT and PRL in CS-OVX animals. These findings suggest that VIP from
the SCN contributes to the regulation of OT and PRL secretion in CS rats. We
propose that in CS rats the regulatory mechanism(s) for PRL secretion comprise
coordinated action of neuroendocrine dopaminergic and OT cells, both governed by
the daily rhythm of VIP-ergic output from the SCN. This hypothesis is
illustrated with a mathematical model.
This model was taken from the CellML repository
and automatically converted to SBML.
The original model was:
Egli M, Bertram R, Sellix MT, Freeman ME. (2004) - version02
The original CellML model was created by:
Lloyd, Catherine, May
c.lloyd@aukland.ac.nz
The University of Auckland
The Bioengineering Institute
This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team.
To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication
for more information.
In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not..
To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.
2005-01-01 | MODEL0912452142 | BioModels
Project description:Mammalian species have co-evolved with intestinal microbial communities that can shape development and adapt to environmental changes, including antibiotic perturbation or nutrient flux. In humans, especially children, microbiota disruption is common, yet the dynamic microbiome recovery from early-life antibiotics is still uncharacterized. Using a mouse model mimicking pediatric antibiotic use, we found that therapeutic-dose pulsed antibiotic treatment (PAT) with a beta-lactam or macrolide altered both host and microbiota development. Early-life PAT accelerated total mass and bone growth, and resulted in progressive changes in gut microbiome diversity, population structure, and metagenomic content, with microbiome effects dependent on the number of courses and class of antibiotic. While control microbiota rapidly adapted to a change in diet, PAT slowed the ecological progression, with delays lasting several months in response to the macrolide. This study identifies key markers of disturbance and recovery, which may help provide therapeutic targets for microbiota restoration following antibiotic treatment. C57BL/6J mice received three antibiotic courses: at days 10-15, 28-31, and 37-40 of life, amoxicillin or tylosin.Livers were collected at age 22 weeks, RNA was extracted, and transcriptional differences were measured by microarray analysis.
2015-05-07 | E-GEOD-68603 | biostudies-arrayexpress
Project description:To assess the changes in circulating microRNA (miRNA) expression profiles associated with the potential osteoprotective effect of diosgenin (DIO) in ovariectomized (OVX) rats.
2020-02-18 | E-MTAB-8502 | biostudies-arrayexpress
Project description:Three groups of male +b and bb rats were obtained (ages between 6 and 14 months) and intestinal scrapes were taken. Tissues was combined from 3 rats per group and processed for gene chip analysis. Keywords: Belgrade, iron deficiency, intestine, microarray
2008-03-03 | GSE7267 | GEO
Project description:Here we asked whether the single early-life (pup day of life P5-P10) antibiotic pulse was sufficient to enhance Type-1 Diabetes (T1D) in Non Obese Diabetic (NOD) mice. Two sets of experimental samples were analyzed for changes in intestinal pathway expression using the NOD mouse model and Pulsed Antibiotic Therapy (PAT). NODPAT sought to describe the intestinal changes related to early life PAT treatment while the RESTORE experiment sought to restore an antibiotic-perturbed host and measure the intestinal expression changes over time. We provide evidence that maternal microbiota provides partial restoration of both the altered pup microbiota and its immunological phenotypes.
2018-08-19 | E-MTAB-6826 | biostudies-arrayexpress