Browse
Submit Data
Databases
API
Help

Dataset Information

197 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Arabidopsis katanin mutants LC-MSMS

ABSTRACT: Shot-gun proteomic analysis of Arabidopsis katanin mutants reveals new processes occurring downstream of microtubule severing

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Arabidopsis Thaliana (mouse-ear Cress)

TISSUE(S): Root, Leaf

SUBMITTER: Tibor Pechan

LAB HEAD: Tibor Pechan

PROVIDER: PXD005917 | Pride | 2017-07-19

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Feedback Microtubule Control and Microtubule-Actin Cross-talk in Arabidopsis Revealed by Integrative Proteomic and Cell Biology Analysis of KATANIN 1 Mutants.

Takáč Tomáš T Šamajová Olga O Pechan Tibor T Luptovčiak Ivan I Šamaj Jozef J

Molecular & cellular proteomics : MCP 20170713 9

Microtubule organization and dynamics are critical for key developmental processes such as cell division, elongation, and morphogenesis. Microtubule severing is an essential regulator of microtubules and is exclusively executed by KATANIN 1 in Arabidopsis In this study, we comparatively studied the proteome-wide effects in two KATANIN 1 mutants. Thus, shotgun proteomic analysis of roots and aerial parts of single nucleotide mutant fra2 and T-DNA insertion mutant ktn1-2</i ...[more]

PMID: 28706004

Similar Datasets

Life on the edge: Functional genomic response of Ignicoccus hospitalis to cellular takeover by Nanoarchaeum equitans

2014-04-24 | GSE57033 | GEO

Genome-wide expression analysis of ahk mutants compared to Col-0 wild-type

Project description:The experiment was designed to enable comparison between Columbia and ahk2/ahk3, ahk3/ahk4 double and ahk2/ahk3/ahk4 triple mutants Arabidopsis seedlings

2008-08-31 | E-MEXP-1262 | biostudies-arrayexpress

Genome sequencing of Afzelia xylocarpa from Thailand

Project description:Shot-gun WGS of Afzelia xylocarpa

| PRJEB51213 | ENA

Quantitative Proteomic Analysis of ER Stress Response Reveals both Common and Specific Features in Two Contrasting Ecotypes of Arabidopsis

Project description:Accumulation of unfolded/misfolded proteins in endoplasmic reticulum (ER) elicits a well conserved response called the Unfolded Protein Response (UPR), which triggers the up-regulation of downstream genes involved in protein folding, vesicle trafficking, and ER-Associated Degradation (ERAD). Although the dynamic transcriptomic responses and underlying major transcriptional regulators in ER stress response in plants have been well established, the proteome changes induced by ER stress have not been reported in plants. In the current study, we found that the Arabidopsis Ler ecotype is more sensitive to ER stress than the Col ecotype. Quantitative mass spectrometry analysis with Tandem Mass Tag (TMT) isobaric labeling showed that totally 7439 and 7035 proteins were identified from Col and Ler seedlings, with 88 and 113 differentially regulated (FC>1.3 or <0.7, P<0.05) proteins by ER stress in Col and Ler, respectively. Among them, 40 proteins were commonly up-regulated in Col and Ler, of which 10 were not up-regulated in bzip28 bzip60 double mutant (Col background) plants. Of the 19 specifically up-regulated proteins in Col comparing to that in Ler, components in ERAD, N-glycosylation, vesicle trafficking and molecular chaperones were represented. Quantitative RT-PCR showed that genes encoding 7 out of 19 proteins were not up-regulated (FC>1.3 or <0.7, P<0.05) by ER stress in both ecotypes while genes encoding 12 out of 19 proteins were up-regulated by ER stress with no obvious differences in fold change between Col and Ler. Our results experimentally demonstrated the robust ER stress response at proteome level in plants and revealed differentially regulated proteins that may contribute to differed ER stress sensitivity between Col and Ler ecotypes in Arabidopsis.

2021-09-09 | PXD022630 | Pride

Genome-wide gene expression analysis of lbd mutants compared to wild type

Project description:The Columbia (Col-0) ecotype of Arabidopsis thaliana was used as wild type. lbd16, lbd18 single and lbd16 lbd18 double mutants were used as mutants.

2011-06-01 | E-MEXP-1399 | biostudies-arrayexpress

Life on the edge: Functional genomic response of Ignicoccus hospitalis to cellular takeover by Nanoarchaeum equitans

Project description:Investigation of changes in global gene expression patterns as Ignicoccus hospitalis becomes increasingly populated by Nanoarchaeum equitans These microarray data are complemented by shot gun proteomics (see manuscript) A total of 16 chips were used (each experimental sample was done in duplicate, totally 8 samples) to examine total RNA from I. hospiatalis over a time course grown in pure culture and in co-culture with N. equitans.

2014-04-24 | E-GEOD-57033 | biostudies-arrayexpress

SUMOylome Profiling in Arabidopsis of Targets Modified by the Sumo Ligase Siz1 During Heat Stress

Project description:Ligation is accomplished by a small set of SUMO E3 ligases, with the SAP-MIZ domain-containing (SIZ)-1 and METHYL METHANESULFONATE-SENSITIVE (MMS)-21 ligases having critical roles in stress protection and DNA endoreduplication, respectively. To help identify their corresponding Arabidopsis targets, we combined siz1 and mms21 mutants with proteomic analyses of SUMOylated proteins enriched using an engineered 6His-SUMO1. Through multiple datasets from seedlings grown at normal temperatures or exposed to heat stress, we identified over 1,000 SUMO targets, most of which are nuclear localized. Whereas no targets could be assigned to MMS21, suggesting that it modifies only one or a few low abundance proteins, numerous targets could be assigned to SIZ1, including major transcription factors, co-activators/repressors, and chromatin modifiers connected to abiotic and biotic stress defense, some of which associate into multi-subunit regulatory complexes.

2018-04-05 | PXD007054 | Pride

BBX32 Role in Early Light Signaling in Arabidopsis

Project description:The transcriptional profiles of several genotypes of Arabidopsis seedling shoots were compared in dark and after 1 hr of monochromatic red-light treatment. The transcriptional profiles of several genotypes of Arabidopsis seedling shoots were compared in dark and after 1 hr of monochromatic red-light treatment.

2011-06-30 | E-GEOD-21174 | biostudies-arrayexpress

594633cc-f024-40c8-91da-1eeddd71f139 - samples

Project description:156 samples of shot-gun gut metagenomics, corresponding to 51 patients with CRCm 54 patients with adenoma, and 51 healthy controls

| EGAD00001010068 | EGA

Transcription profiling of Arabidopsis pvip1 pvip2 seedlings

Project description:Early establishment of the apical-basal axis is prerequesite for correct embryonic development in Arabidopsis. The hypophysis is derived from the basal cell of the early embryo and is indispensible for root development; it gives rise to the root quiescent center and the central columella. Arabidopsis pvip1 pvip2 mutants show defects in embryonic root development and give rise to rootless seedlings. We used microarrays to study the gene regulation of rootless mutant embryos in comparison with wild type. Experiment Overall Design: Arabidopsis pvip1 pvip2 mutant and Col-0 wild type seedlings (10 days after germination) were compared using Affymetrix ATH1 arrays. Roots of wild type seedlings were removed and the vestigial hypocotyl of mutants was cut to control for wounding effects.

2008-10-26 | E-GEOD-10248 | biostudies-arrayexpress