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ProteomicsLarge scale site-specific mapping of the Arabidopsis ubiquitinome
Post-translational modification of amino acids changes the properties of a protein and increases the functional diversity of the proteome. For example, protein ubiquitination influences almost all cellular processes and can remodel the proteome in a matter of minutes. However, mostly due to technica...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2016-08-08 | PXD002297 | Pride
Arabidopsis ubiquitin site 
TranscriptomicsSalicylic acid-induced gene expression in wild-type Col-0 and mutant upl3-4 Arabidopsis thaliana plants.
Activation of plant immunity is associated with dramatic transcriptome reprogramming to prioritise immune responses over normal cellular functions. Changes in gene expression are coordinated by the immune hormone salicylic acid (SA). Here we investigated the involvement of the HECT-type ligase Ubiqu...
ORGANISM(S): Arabidopsis thaliana 
2018-11-09 | E-MTAB-7374 | biostudies-arrayexpress
ProteomicsQuantitative proteomics reveals extensive lysine ubiquitination in Arabidopsis thaliana
In this study, we describe an antibody-based approach to enrich ubiquitinated peptides from vegetative tissues for detection via peptide mass spectrometry. This enrichment method can be coupled with isobaric labeling to enable quantification from up to 18-multiplexed samples. This approach identifie...
ORGANISM(S): Arabidopsis Thaliana (ncbitaxon:3702) 
2024-07-31 | MSV000095496 | MassIVE
TranscriptomicsArabidopsis GLYCOLATE OXIDASE 1 and 2 display divergent roles under conditions promoting photorespiration
Hydrogen peroxide (H2O2) can act as a signaling molecule that influences various aspects of plant growth and development, including stress signaling and cell death. To unravel the molecular mechanisms that regulate the response towards an impact of increased H2O2 levels in plant cells, we focused on...
ORGANISM(S): Arabidopsis thaliana 
2016-06-10 | E-GEOD-77170 | biostudies-arrayexpress
TranscriptomicsTranscription profiling under heat stress of transgenic Arabidopsis lines in which expression of BPMs were suppressed by an amiRNA
BPMs are a family of E3 ubiquitin ligases. We identified BPM proteins as interactors of the Arabidopsis stress responsive transcription factor DREB2A. We found an increase in the accumulation level of the DREB2A protein under heat stress in transgenic Arabidopsis plants in which expression of six BP...
ORGANISM(S): Arabidopsis thaliana 
2018-11-01 | E-MTAB-5845 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling of Arabidopsis using strand-specific RNA-seq
We applied single-end strand-specific RNA-seq experiments to compare the abundance of natural antisense transcripts in Arabidopsis. Examination of 3 wild type (WT) organs, including leaves, inflorescences and siliques.
ORGANISM(S): Arabidopsis thaliana 
2013-12-23 | E-GEOD-49950 | biostudies-arrayexpress
TranscriptomicsTumor cell-specific inhibition of MYC function using small molecule inhibitors of the HUWE1 ubiquitin ligase
Deregulated expression of MYC is a driver of colorectal carcinogenesis, necessitating novel strategies to inhibit MYC function. The ubiquitin ligase HUWE1 (HECTH9, ARFBP1, MULE) associates with both MYC and the MYC-associated protein MIZ1. We show here that HUWE1 is required for growth of colorecta...
ORGANISM(S): Homo sapiens 
2014-10-21 | E-GEOD-59223 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling identified genes and pathways associated with arsenic toxicity and tolerance in Arabidopsis
Transcriptional profiling of arsenic-induced toxicity and tolerance in Arabidopsis plants of different ecotypes Arsenic (As) is a toxic metalloid found ubiquitously in the environment and has widely been known as an acute poison and carcinogen. As toxicity is a major factor leading to root growth i...
ORGANISM(S): Arabidopsis thaliana 
2011-11-26 | E-GEOD-31977 | biostudies-arrayexpress
TranscriptomicsExpression data roots of Arabidopsis plants inoculated with Verticillium longisporum
Identification of genes differentially expressed in roots of Arabidopsis Col-0 and ndr1-1 mutants 48 h post inoculation with the fungal pathogen Verticillium longisporum. Arabidopsis Col-0 and ndr1-1 seeds were grown in petri dishes with liquid MS medium supplemented with 0.2% sucrose. After two wee...
ORGANISM(S): Arabidopsis thaliana 
2014-11-20 | E-GEOD-62537 | biostudies-arrayexpress
ProteomicsUbiquitylome analysis of Arabidopsis roots.
Ubiquitylome analysis of Arabidopsis roots. 10 day old Arabidopsis roots were treated with mock, DMSO, or bortezomib for 3 hours. Root tissue was processed using the phenol-FASP method described in https://doi.org/10.1002/pmic.201800220. Ubiquitin remnant peptides were enriched using an anti-diglyci...
ORGANISM(S): Arabidopsis Thaliana (ncbitaxon:3702) 
MSV000086156 | MassIVE
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