Differentially expressed genes between WT and HRE1α OX, WT and HRE1β OX, and WT and AtRH17 OX
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA638540 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We characterized the biological and molecular functions of AtC3H17, a unique Arabidopsis gene encoding a non-tandem CCCH zinc finger protein, in plant development. To investigate the downstream regulatory mechanisms of AtC3H17, whole genome microarray expression profiling was carried out. The experiment was designed to identify differentially expressed genes between WT and AtC3H17-overexpressing transgenic plants (AtC3H17 OXs) grown for 14 days under SD growth conditions. Interestingly, the most up-regulated genes were 12S seed storage globulin genes, CRUCIFERIN A (CRA1) and CRUCIFERIN 3 (CRU3), and seed oil-body protein genes such as OLEOSIN 1 (OLEO1) and OLEO2 in AtC3H17 OXs compared with WT. We performed quantitative RT-PCR and confirmed that transcription levels of CRU3, OLEO1, OLEO2, and 2S seed storage albumin 1 (At2S1) were higher in AtC3H17 OX seedlings than in WT seedlings. Differentially expressed genes between WT and AtC3H17 OX at 14 days after germination under SD conditions (8-h-light and 16-h-dark cycle) were explored in whole genome level. Two AtC3H17 OX samples were compared to WT sample as a control.
2015-12-05 | E-GEOD-75702 | biostudies-arrayexpress
Project description:We characterized and compared the biological and molecular functions of HRE1α and HRE1β, two alternative splicing variants of HRE1, a AP2/ERF transcription factor in Arabidopsis. To compare the downstream regulatory mechanisms of HRE1α and HRE1β, Quant-Seq analysis was carried out. The experiment was designed to identify and compare differentially expressed genes (DEGs) between WT and HRE1α-overexpressing transgneic plants (OXs) and WT and HRE1β OXs grown for 14 days under SD conditions. We analyzed the biological process gene ontology (GO) annotation categories of the DEGs in HRE1α OXs and HRE1β OXs. The genes upregulated in HRE1α OXs, but not in HRE1β OXs, were enriched in the regulation of biological processes such as flower development, shoot system development, circadian rhythms, gene expression, response to gibberellin, nitrogen compound metabolic process, and aromatic compound biosynthetic processes. However, the genes up-regulated in HRE1β OXs, but not in HRE1α OXs, were enriched in the regulation of the following processes: response to toxic substances, secondary metabolic processes, response to biotic stimulus, glutathione metabolic process, response to reactive oxygen species, cell wall organization, DNA replication, response to salicylic acid, lipid localization, response to oxidative stress, carbohydrate metabolic process, photosynthesis, mitotic cell cycle process, response to osmotic stress, and response to abscisic acid. The genes upregulated in both HRE1α OXs and HRE1β OXs were enriched in biological processes involved in response to abiotic stimulus, response to light stimulus, response to endogenous stimulus, response to oxygen-containing compound, and response to lipid. In addition, we investigated the biological function of AtRH17, a DEAD-box RNA helicase gene in Arabidopsis, in salt stress response. To investigate the downstream regulatory mechanisms of AtRH17, Quant-Seq analysis was carried out. The experiment was designed to identify DEGs between WT and AtRH17 OXs grown for 14 days under SD conditions. GO annotation enrichment and KEGG pathway analysis showed that the upregulated and downregulated genes are involved in various biological functions including secretion, signaling, detoxification, metabolic pathways, catabolic pathways, and biosynthesis of secondary metabolites as well as in stress responses. Genevestigator analysis of the upregulated genes showed that nine genes, namely, LEA4‐5, GSTF6, DIN2/BGLU30, TSPO, GSTF7, LEA18, HAI1, ABR, and LTI30, were upregulated in Arabidopsis under salt, osmotic, and drought stress conditions. In particular, the expression levels of LEA4‐5, TSPO, and ABR were higher in AtRH17 OXs than in WT under salt stress condition.
2020-09-23 | GSE152166 | GEO
Project description:We characterized the biological and molecular functions of AtC3H17, a unique Arabidopsis gene encoding a non-tandem CCCH zinc finger protein, in plant development. To investigate the downstream regulatory mechanisms of AtC3H17, whole genome microarray expression profiling was carried out. The experiment was designed to identify differentially expressed genes between WT and AtC3H17-overexpressing transgenic plants (AtC3H17 OXs) grown for 14 days under SD growth conditions. Interestingly, the most up-regulated genes were 12S seed storage globulin genes, CRUCIFERIN A (CRA1) and CRUCIFERIN 3 (CRU3), and seed oil-body protein genes such as OLEOSIN 1 (OLEO1) and OLEO2 in AtC3H17 OXs compared with WT. We performed quantitative RT-PCR and confirmed that transcription levels of CRU3, OLEO1, OLEO2, and 2S seed storage albumin 1 (At2S1) were higher in AtC3H17 OX seedlings than in WT seedlings.
2015-12-05 | GSE75702 | GEO
Project description:The experiment was designed to identify differentially expressed genes between control and NaCl-treated WT seedlings
2016-10-07 | GSE87723 | GEO
Project description:Differentially expressed genes in isolated postnatal AP2e WT and null VNOs
| PRJNA432719 | ENA
Project description:Using RNA-seq, we identified over 500 differentially expressed genes in KO islets, compared to WT. Among them, a cluster of genes involved in insulin secretion, ion transportation an prolferation were significantly changed.
2020-10-13 | GSE132323 | GEO
Project description:RNA-seq analysis of differentially expressed genes between 2-week WT and Ngn3MettlsKO mice.
| PRJNA547599 | ENA
Project description:Differentially expressed genes following ARID1A depletion
| PRJNA477786 | ENA
Project description:We applied iTRAQ Quantification Proteomics to explore Differentially expressed proteins between WT testis and Cfap70-KO testis. In this iTRAQ quantification project,there were 6 Mus_musculus samples named C_1, C_2, C_3, K_1, K_2, K_3 and we did 1 technical duplicate experiments. Totally 480850 spectrums were generated, 38748 peptides and 6734 proteins were identified with 1% FDR. proteins with 1.2 fold change(mean value of all comparison groups) and P-value(t-test of all comparision groups) less than 0.05 were defined as differentially expressed proteins.
2022-04-11 | PXD033133 | iProX
Project description:Purpose: we performed comparative RNA-seq analyses to identify differentially expressed genes between CsDML OX transgenic lines Wild Type Methods: Expression profiles were examined by RNA sequencing (RNA-Seq) in SD-induced (for 28 days) shoot apices of CsDML over-expressor and wild-type hybrid poplars. For RNA extraction, 25 apices from 25 trees of each WT, CsDML OX1 and CsDML OX3 genotypes were dissected under a binocular loupe to remove leaflets surrounding the shoot apical meristem Results: Using an optimized data analysis workflow, 318 differentially expressed genes (DEG) were identified in CsDML OX, among which 79 were found upregulated and 239 downregulated
2017-09-23 | GSE87155 | GEO