Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

PICln, an spliceosome assembly chaperone, controls alternative splicing, flowering time and stress responses in Arabidopsis

ABSTRACT: RNA-Seq from picln-1 mutant, prmt5-5 mutant and wt grown at 22°C for 9 days in a 12h light 12h dark photoperiod

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE130463 | GEO | 2022/06/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Circadian rhythms of sense and antisense transcription in a highly polyploid crop.

2013-11-21 | GSE42725 | GEO

Alternative spliceosome assembly pathways revealed by single-molecule fluorescence microscopy.

Project description: Not available

| S-EPMC3927372 | biostudies-literature

Transcriptome analysis of embryonic axes of soybean seeds germinating in the presence of the gibberellin (GA) biosynthesis inhibitor paclobutrazol (PBZ)

Project description:Purpose: A time-course transcriptome study to identify probable GA-responsive genes in soybean embryonic axes during seed germination. Methods: Seeds were germinated in the presence or absence of 200 µM PBZ. Seeds were germinated in 28°C temperature and 12/12h photoperiod (dark/light) and harvested at 12, 24 and 36 hours after imbibition (HAI). Three biological replicates were performed. Results: Identification of GA-responsive genes during germination in Glycine max.

2019-07-26 | GSE112872 | GEO

pICln, an spliceosome assembly chaperone, controls alternative splicing, flowering time and stress responses in Arabidopsis

Project description:pICln, an spliceosome assembly chaperone, controls alternative splicing, flowering time and stress responses in Arabidopsis

| PRJNA540295 | ENA

Circadian rhythms of sense and antisense transcription in a highly polyploid crop.

Project description:Sugarcane plants were grown in soil in a 12h light/ 12h dark photoperiod and 26oC for 3 months. Then, the plants were transferred to constant light conditions and 24 h later, leaves were harvested every 4 h for 48 h. Samples were collected from 24 h in constant light to 68 h in constant light and were labelled accordingly. Two biological replicates of each time point were made, with a dye swap with the reference. The reference used was a equimolar solution of all samples.

2013-11-21 | E-GEOD-42725 | biostudies-arrayexpress

mRNA Expression Data from Murine Hearts of Wild type (WT) C57Bl/6 mice housed under a 12h light: 12h dark or 12h light: 4h blue: 8h dark cycle for 4 weeks

Project description:Mice are on a C57Bl/6N background strain, hearts were collected at ZT07, following 4 weeks under a 12h light: 12h dark (LD) or 12h light: 4h blue: 8h dark (LBD) cycle. The microarray approach allows the investigation of gene expression changes of all genes in WT LD vs. WT LBD hearts.

2018-06-12 | GSE115567 | GEO

Expansion of the circadian transcriptome in Brassica rapa supports genome wide diversification of homeolog gene expression patterns

Project description:Following divergence from Arabidopsis thaliana, Brassica rapa underwent a whole genome triplication followed by extensive genome fractionation. Preferential retention of circadian clock genes suggest that expansion of the circadian network may play an important role during B. rapa domestication. To characterize the circadian transcriptome network, RNA-seq was performed in the B. rapa oil-type variety R500 following photocycle and thermocycle circadian time courses. The photocycle (LDHH) time course consisted of growing plants for 15 days at 20°C under a 12h light/12h dark photoperiod and transfering plants to constant light and 20°C 24h prior to harvesting leaf tissue every 2h for 48h starting at ZT24 with 2 biological replicates at every time point. The thermocycle (LLHC) time course consisted of growing plants for 15 days under constant light with a 12h 20°C/12h 10°C thermoperiod and transfering plants to constant light and 20°C 24h prior to harvesting leaf tissue every 2h for 48h starting at ZT24 with 2 biological replicates at every time point.

2020-01-31 | GSE123654 | GEO

Transcriptome analysis of photoperiodic flowering in soybean.

Project description:In order to identify candidate genes that are involved in soybean flowering transition in response to photoperiods, we performed RNA sequencing analysis under different photoperiod treatments. We identified genes exhibiting daily oscillation patterns under different photoperiod treatments, genes under control of maturity loci (E1, E2, E3 and E5), and genes that constitute the soybean flowering gene network.

2017-07-21 | GSE51007 | GEO

Chaperone-like protein DAY plays critical roles in photomorphogenesis

Project description:We found that the transcriptome of day RNAi seedlings significantly overlaps with that of the bri1-116 mutant, especially in the dark. These data indicate that DAY acts as a positive regulator of BR signaling.

2021-06-12 | GSE177028 | GEO

SPLICING FACTOR FOR PHYTOCHROME SIGNALING promotes photomorphogenesis by regulating alternative splicing in Arabidopsis

Project description:Purpose: The goals of this study are to compare the transcriptome profiling and alternative splicing (AS) profiling between Col-0 wild type and SFPS knockout mutant (sfps-2) through RNA-seq to determine the molecular mechanisms of how splicing factor SFPS regulates photomorphogenesis in Arabidopsis. Results: Using an optimized data analysis workflow, we mapped about 100 million sequence reads per sample to the Arabidopsis genome (TAIR10) and identified 1495 differentially expressed genes between Col-0 and mutant dark samples; 1361 differentially expressed genes between Col-0 and mutant red light treated samples; 4291 differentially expressed genes between Col-0 dark and red light treated samples; and 4479 differentially expressed genes between mutant dark and red light treated samples. Except for gene expression, we also discovered 788 differentially spliced bins between Col-0 and mutant dark samples; 827 differentially spliced bins between Col-0 and mutant red light treated samples; 610 differentially spliced bins between Col-0 dark and red light treated samples; and 405 differentially spliced bins between mutant dark and red light treated samples. Altered splicing of 9 genes was confirmed with qRT-PCR, demonstrating the high degree of sensitivity of the RNA-seq method. Conclusions: Our study represents the first detailed analysis of SFPS mutant transcriptomes, with biologic replicates, generated by RNA-seq technology. Our results show that SFPS regulates photomorphogenesis in Arabidopisis through regulating the splicing activity of light signaling genes, which helps us.

2017-08-10 | GSE85883 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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