Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative transcriptome data of multi tissues in response to different environmental light-dark cycles

ABSTRACT: Comparative transcriptome data of multi tissues in response to different environmental light-dark cycles

PROVIDER: PRJNA941888 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23729900_1.fastq.gz	Fastqsanger.gz
	SRR23729900_2.fastq.gz	Fastqsanger.gz
	SRR23730000_1.fastq.gz	Fastqsanger.gz
	SRR23730000_2.fastq.gz	Fastqsanger.gz
	SRR23729901_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 456

Similar Datasets

Comparative transcriptome data of multi tissues in response to different environmental light-dark cycles

Project description:It is well known that host-microbes and immunity interactions are influenced by dietary patterns, as well as daily environmental light-dark (LD) cycles that entrain circadian rhythms in the host. Emerging data has highlighted the importance of diet patterns and timing on the interaction among circadian rhythms, gut microbiome, and immunity, however, their impacts on LD cycles are less reported. Therefore, we aim to study how LD cycles regulate the homeostatic crosstalk between gut microbiome, hypothalamic and hepatic circadian clock oscillations and immunity. We hypothesized that different environmental LD cycles: (1) constant darkness, LD0/24; (2) short light, LD8/16; (3) normal LD cycle, LD12/12; (4) long light, LD16/8; and (5) constant light, LD24/0, may affect immunity and metabolism to varying degrees. Therefore, 240 mice were managed with chow diets (CD) and antibiotics treatments (ABX) under five different LD cycles for 42 days. The liver (LIV), hypothalamus (HYP), inguinal white adipose tissue (iWAT), ileum epithelium (ILE), colon epithelium (COL), jejunum epithelium (JEJ), cecum epithelium (CEC), spleen (SPL), mammary gland (MAG), and thymus gland (THY) tissues were obtained for studying their impacts immunity using RNA-Seq data.

2023-03-10 | GSE226855 | GEO

Genome wide rhythmic transcription under light/dark cycles in Ostreococcus tauri

Project description:Genome wide rhythmic transcription under light/dark cycles is associated with sequential transcription of specific biological processes genes in Ostreococcus tauri. Transcriptional profiling of Ostreococcus tauri under light/dark cycles. In order to identify genes with a diurnal rhythm, cells entrained under 12:12 light/dark cycles were sampled every 3 hours for 27 hours with two overlapping time points at Time 9 (Light ON at Time 9; Light OFF at Time 21) in 3 independent experiments.

2010-04-20 | GSE16422 | GEO

Colonic and cecal microbiome profiles in response to different environmental light-dark cycles

Project description:It is well known that host-microbes and immunity interactions are influenced by dietary patterns, as well as daily environmental light-dark (LD) cycles that entrain circadian rhythms in the host. Emerging data has highlighted the importance of diet patterns and timing on the interaction among circadian rhythms, gut microbiome, and immunity, however, their impacts on LD cycles are less reported. Therefore, we aim to study how LD cycles regulate the homeostatic crosstalk between gut microbiome, hypothalamic and hepatic circadian clock oscillations and immunity. We hypothesized that different environmental LD cycles: (1) constant darkness, LD0/24; (2) short light, LD8/16; (3) normal LD cycle, LD12/12; (4) long light, LD16/8; and (5) constant light, LD24/0, may affect immunity and metabolism to varying degrees. Therefore, 240 mice were managed with chow diets (CD) and antibiotics treatments (ABX) under five different LD cycles for 42 days. The colonic (co) and cecum (ce) contents were obtained for studying their impacts on gut microbiome using 16S rRNA sequencing.

2023-03-10 | GSE226852 | GEO

Genome wide rhythmic transcription under light/dark cycles in Ostreococcus tauri

2010-04-20 | E-GEOD-16422 | biostudies-arrayexpress

Transcription profiling of PPAR alpha function in fibrate fed animals during light and dark cycles

Project description:Title: Study of PPAR alpha function in fibrate fed animals during light and dark cycles.<br/> Description: Study of PPAR alpha function in fibrate fed animals during light and dark cycles.

2005-05-10 | E-MIMR-2 | biostudies-arrayexpress

Colonic and cecal microbiome profiles in response to different environmental light-dark cycles

Project description:Colonic and cecal microbiome profiles in response to different environmental light-dark cycles

| PRJNA941882 | ENA

Transcription profiling of the diazotrophic cyanobacterium C.watsonii WH 8501 during light-dark cycles

Project description:Whole-genome gene expression in the diazotrophic cyanobacterium C.watsonii WH 8501 during light/dark cycles

2009-07-29 | E-TABM-737 | biostudies-arrayexpress

Gene regulation of carbon fixation, storage and utilization in the diatom Phaeodactylum tricornutum acclimated to light/dark cycles

Project description:Regulation of carbon metabolism in the diatom Phaeodactylum tricornutum at cell, metabolite and gene expression level in exponential fed-batch cultures is reported. Transcriptional profiles and cell chemistry sampled simultaneously at all time-points provide a comprehensive data set on carbon incorporation, fate and regulation. More than 4,500 transcripts that were differentially regulated during the light/dark cycle are identified, many of which were associated with carbohydrate and lipid metabolism. Genes not previously described in algae and their regulation in response to light were integrated in this analysis together with proposed roles in metabolic processes. Some very fast light responding genes in e.g. fatty acid biosynthesis were identified. Transcripts and cell chemistry data reflect the link between light energy availability and light energy consuming metabolic processes. Our data confirm spatial localization of processes in carbon metabolism to e.g. either plastids or mitochondria, or glycolysis/gluconeogenesis which are localized to the cytosol, chloroplast and to mitochondria. Localization and diel expression pattern may be of help to determine the roles of different isoenzymes, and mining of genes involved in light responses and circadian rhythms. Gene regulation in Phaeodactylum tricornutum was examined in cultures acclimatized to growth cycles of 16/8 hour photoperiods (16 hour light, 8 hour dark). Two biological replicas were harvested at each of the eight time points, spaning a 27 hour period. 5 of the time points (0.5 h, 3 h, 6 h, 10.5 h and 15.5 h) were harvested in the light phase, while 3 time points were harvested during the dark phase (0.5 h, 4 h and 7.5 h darkness).

2013-03-01 | E-GEOD-42514 | biostudies-arrayexpress

Light versus Dark gene expression in SAR11

Project description:We investigated the transcriptional response of cand. Pelagibacter ubique cultures to light and dark when grown under carbon replete and deplete conditions. Results: During exponential phase, few genes were differentially transcribed between light:dark growth conditions. In stationary phase, a high proportion (9.7%) of coding sequences were found differentially expressed between treatments; 4.7% being up-regulated in the light (n=64) and 4.9% being up-regulated in the dark (n=67). Several components of the oxidative phosphorylation pathway were up-regulated in the dark, supporting physiological data showing higher respiration rates in darkness than in the light under starvation conditions. We also observed up-regulation of a proton translocating pyrophosphate synthase (SAR11_1040), which may be an additional energy production mechanism utilized by SAR11 cells in the dark. Finally, we noted the up-regulation of pili formation genes in the array data, consistent with the observation of pili in dark grown cells via electron microscopy. Triplicate biological replicates were collected from five growth conditions (n=15 total): 1) exponential phase, 24 hour light (n=3) 2) exponential phase, 24 hour dark (n=3) 3) stationary phase, 12:12 hour light:dark cycles (n=3) 4) stationary phase, 24 hour dark (n=3) 5) stationary phase, 6 hours after transfer to darkness (n=3)

2011-12-31 | E-GEOD-24134 | biostudies-arrayexpress

Transcriptional and physiological diurnal responses of Tetradesmus obliquus under light-dark cycles and nitrogen limitation

Project description:Transcriptional and physiological diurnal responses of Tetradesmus obliquus under light-dark cycles and nitrogen limitation

| PRJEB27823 | ENA