Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA277700 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Fruit dehiscence is an essential developmental process of some economic crops that impacts dramatically on crop yields and involves altered regulation of thousands of genes, ind-6 gene is a transcription factor play important role during fruit dehiscence. Gene expression were examined in wild-type and ind-6 mutants at three development stages of fruit dehiscence to explore the molecular mechanism of ind-6 in fruit dehiscence. We used microarrays to examine changes in gene expression during fruit dehiscence and identified distinct classes of up- and down-regulated genes in wild-type and ind-6 mutant genotypes.
2015-12-28 | GSE66672 | GEO
Project description:Arabidopsis thaliana (accession- Columbia) is an important model plant. RNA-Seq based study of 36 libraries was carried out to explore transcriptional programs operating in different plant parts (seedling, rosette, root, inflorescence, flower, fruit silique, and seed) and developmental stages (2-leaf stage, 6-leaf stage, 12-leaf stage, senescence stage, dry mature and imbibed seed stage). For each tissue type and developmental stage, three individual plants were used as biological replicates.
2022-05-04 | E-MTAB-6422 | biostudies-arrayexpress
Project description:IND is a regulator of fruit development in Arabidopsis thaliana. To identify genes regulated by IND we performed array based transcriptome analysis of Dexamethasone (DEX) inducible IND transgenic seedlings. One week old 35S::IND:GR seedlings were treated with DMSO, Auxin, DEX and Auxin plus DEX for 6 h. Three biological independent experiments were performed.
2017-07-05 | E-MTAB-3812 | biostudies-arrayexpress
Project description:Pectins localize in the primary cell wall and consist of multiblock co?polymers among which homogalacturonan (HG) is the simplest and most abundant form. Methylesterification pattern of HG is tuned by pectin methylesterases (PMEs), which activity is itself controlled by specific inhibitors or PMEIs. PME?mediated regulation of HG methylesterification plays a major role in controlling several developmental processes, including seed germination and dark grown hypocotyl elongation. Arabidopsis PME36 is preferentially expressed during the late stages of silique development and, using the knock?out mutant pme36-1, we showed that PME36 is required to implement the characteristic pattern of demethylesterified pectins in mature seed. However, although this pattern was strongly impaired in pme36-1 mature seed, no phenotypical change was observed in the mutant during seed germination and seedling dark growth, suggesting the existence of a compensatory mechanism overcoming the defect in pectin demethylesterification. To get insight into this mechanism, a transcriptomic analysis by microarrays was performed on pme36-1 and Col0 wild-type, in seed at two early stages of germination, preceding tegument rupture: 16 hours and 24 hours after transfer from cold room (stratification) to dark growth condition.
2020-07-31 | GSE155433 | GEO
Project description:To explore the overall circRNAs involved in growth and development of Arabidopsis thaliana across the lifespan, we deeply sequenced samples of whole plants from different developmental stages (cotyledons emergence, rosette leavesï¹¥1 mm, rosette growth complete, first flower open, flourishing florescence, first silique shattered, senescence). The total RNA was purified by rRNA-depletion and linear RNA removal with RNAseR, and sequenced by the Illumina HiSeq2500 platform. We obtained 31 Gb raw data and identified 1217 circRNAs with expression quantity. We annotated these circRNAs and predicted their targeted microRNA. The circRNAs involved in growth and development of Arabidopsis thaliana across lifespan were identified and analyzed using the Illumina HiSeq2500 platform.
2016-09-01 | E-GEOD-77672 | biostudies-arrayexpress
Project description:Transcriptome analysis of Arabidopsis thaliana stage 17 silique
| PRJNA943613 | ENA
Project description:differential expression between wild-type pistils of Arabidopsis thaliana at late 11 to late 12 floral stages, and similar stage pistils of coatlique mutant which lacks a functional embryo sac
2007-10-02 | E-MEXP-1246 | biostudies-arrayexpress
Project description:Arabidopsis thaliana mutant sr45-1 has an altered flower shape. sr45 is a splicing regulator. In this study, we examined the proteins from inflorescence of sr45-1 mutant plants and wild-type. Wild type TMT labels: 126, 128, 130. sr45-1 TMT labels: 127, 129, 131.
2019-04-26 | MSV000083728 | MassIVE
Project description:How bacteria from the microbiota modulate the physiology of its host is an important question to address. Previous work revealed that the metabolic status of Arabidopsis thaliana was crucial for the specific recruitment of Streptomycetaceae into the microbiota. Here, the Arabidopsis-Actinacidiphila interaction was further depicted by inoculating axenic Arabidopsis with Actinacidiphila cocklensis DSM 42063 or Actinacidiphila bryophytorum DSM 42138(previously named Streptomyces cocklensis and Streptomyces bryophytorum). We demonstrated that these two bacteria colonize A. thaliana wild-type plants, but their colonization efficiency was reduced in a chs5 mutant with defect in isoprenoid, phenylpropanoids and lipids synthesis. We observed that those bacteria affect the growth of the chs5 mutant but not of the wild-type plants. Using a mass spectrometry-based proteomic approach, we showed a modulation of the Arabidopsis proteome and in particular its components involved in photosynthesis or phytohormone homeostasis or perception by A. cocklensis and A. bryophytorum. This study unveils specific aspects of the Actinacidiphila-Arabidopsis interaction, which implies molecular processes impaired in the chs5 mutant and otherwise at play in the wild-type. More generally, this study highlights complex and distinct molecular interactions between Arabidopsis thaliana and bacteria belonging to the Actinacidiphila genus.
2024-01-29 | PXD041221 | Pride
Project description:To exlore more circRNAs involved in Arabidopsis thaliana, we deeply sequenced 14 samples including whole plants from four developmental stages (rosette leaves > 1 mm in length; rosette growth complete; 50% of flowers to be produced have opened; first silique shattered), aerial part of plants from four stress treatments (control, drought, salinity and heat), five organs (roots, stems, leaves, flowers and siliques) and a mixed sample from whole plants across the lifespan (cotyledons emergence, rosette leaves﹥1 mm, rosette growth complete, first flower open, flourishing florescence, first silique shattered, senescence). The total RNA was purified by rRNA-depletion and linear RNA removal with RNAseR, and paired-end (PE) sequenced by Illumina HiSeq 2500 (read length, PE125, the mixed sample) and Illumina Hiseq X Ten (read length, PE150, 13 independent samples) platforms. We obtained 181.97 Gb raw data (151.37 Gb from 13 samples and 30.6 Gb from a mixed sample) and identified 5861 circRNAs with expression quantity. We annotated the parent genes of these circRNAs and predicted their target sites of microRNAs.
2016-09-01 | GSE77672 | GEO