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Root proteome of ASPR1- deficient Arabidopsis thaliana compared to wt

ABSTRACT: Seedlings lacking the atypical aspartic protease encoded by the gene At2g03200 exhibited shorter primary roots and a pronounced reduction in the number of lateral roots. The protease was therefore name ATYPICAL ASPARTIC PROTEASE IN ROOTS 1 (ASPR1). This project compared the root proteome of a T-DNA insertion line lacking ASPR1 with wild type seedlings.

INSTRUMENT(S): maXis

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

TISSUE(S): Root

SUBMITTER: Pitter Huesgen

LAB HEAD: Pitter Huesgen

PROVIDER: PXD009580 | Pride | 2019-02-25

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	151002_Andre_3_RA5_01_75.d.zip	Other
	151002_Andre_WT_A1_Q84HalfMS_RA1_01_80.d.zip	Other
	151113_Andre_Shotgun1_RD1_01_194.d.zip	Other
	151113_Andre_Shotgun5_RD5_01_198.d.zip	Other
	151117_AS_Shotgun1_RD1_01_232.d.zip	Other

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Publications

An atypical aspartic protease modulates lateral root development in Arabidopsis thaliana.

Soares André A Niedermaier Stefan S Faro Rosário R Loos Andreas A Manadas Bruno B Faro Carlos C Huesgen Pitter F PF Cheung Alice Y AY Simões Isaura I

Journal of experimental botany 20190401 7

Few atypical aspartic proteases (APs) present in plants have been functionally studied to date despite having been implicated in developmental processes and stress responses. Here we characterize a novel atypical AP that we name Atypical Aspartic Protease in Roots 1 (ASPR1), denoting its expression in Arabidopsis roots. Recombinant ASPR1 produced by transient expression in Nicotiana benthamiana was active and displayed atypical properties, combining optimum acidic pH, partial sensitivity to peps ...[more]

PMID: 30778561

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An atypical aspartic protease modulates lateral root development in Arabidopsis thaliana

Project description:We determined the specificity profile of recombinant ASPR1 (Atypical Aspartic Protease in Roots 1) using proteome-derived libraries. Although rASPR1 preferred hydrophobic amino acids in the S1 subsite, which is in line with what was previously described for other APs, rASPR1 also displayed a clear preference for accommodating asparagine and lysine in S1, a characteristic only reported so far for fungal APs. Both primary and secondary specificity preferences of rASPR1 thus revealed unique specificity requirements similar to fungal APs that are unprecedented for plant APs.

2020-03-19 | PXD010355 | Pride

Cytokinin induction of roots and shoots

Project description:Arabidopsis Col-0 seedlings grown in liquid culture to growth stage 1.0 were treated with 5 M-5M Benzyladenine and incubated for the indicated time points. Roots and shoots of the seedlings were then harvested separately by taking each individual seedling with a soft forceps at the hypocotyl, dipping it into liquid nitrogen and breaking off the root at the inner wall of a collection tube that was swimming in liquid nitrogen. The shoot part was then striped from the forceps at the edge of another collection tubes.

2011-06-20 | E-CAGE-111 | biostudies-arrayexpress

Characterization of Nicotiana attenuata plants with reduced expression of HSPRO (ir-hspro plants).

Project description:Identification of transcripts that change expression in roots of Nicotiana attenuata plants with reduced expression of HSPRO and in association with Piriformospora indica. Gene expression in roots of Nicotiana attenuata wild type and ir-hspro seedlings was measured at 14 days after inoculation with Piriformospora indica. Three independent experiments were performed with wild type plants and three independent experiments were performed with ir-hspro plants.

2012-11-06 | E-GEOD-35086 | biostudies-arrayexpress

Transcription profiling by array of Nipponbare rice roots over a time course of potassium deprivation

Project description:Potassium (K+) is one of the most important nutrient ions in plant cells and play crucial roles in many plant physiological and developmental processes. K+ deficiency is the common abiotic stress in natural environment, which inhibits plant growth and reduces production of crops. We used microarrays to analyse the transcriptomic changes in rice roots after suffering K+ starvation at different times. The results of GO analysis showed that these transcriptionally changed genes mainly fell into the categories of metabolic process, membrane, cation binding, kinase activity, transport and so on. The two-week-old hydroponic rice seedlings were transferred to K+-free solution (-K) and K+-replete solution (+K, 1 mM K+) as treatment (LK) and control (CK) conditions respectively. The fresh roots of both control and treated rice seedlings were collected after K+-deficient treatment at indicated times (6 h, 3 d and 5 d). The roots were frozen immediately using liquid nitrogen and stored at -80℃ for further RNA extraction. Every RNA sample was derived from 5 independent seedlings. In sum, three time points were selected and three biological replicates were performed at each time point, totally 18 rice genome arrays were used.

2012-10-31 | E-GEOD-37161 | biostudies-arrayexpress

Phosphorus starvation induced genes in Brassica carinata

Project description:The purpose of the present study is to determine the effect of Phosphorus deficiency on gene expression level using microarray analysis to identify genes responsible for root hair development. Phosphorus deficiency induced the formation of root hairs to explore a greater soil volume but molecular mechanisms were unknown. Therefore, microarray experiments were performed using root tips of Brassica carinata cultivars Bale and Bacho, respectively differing in root hair length during Phosphorus deficiency. Experimental design was carried out in nutrient solution in a climate chamber with controlled environmental conditions (20°C, 16h day/8h night cycle, 70% relative humidity) in a randomized design. 25 root tips from 10 day old seedlings grown without Phosphorus of 1cm length were harvested and immediately frozen in liquid nitrogen. Gene expression analyses were performed Results from xy microarrays are summarized in this study. The samples originate from roots of cultivars Bale and Bacho grown in Phosphorus deficient conditions. Microarrays were hybridized with Cy3 and Cy5 labeled cDNA from Bale and Bacho both during Phosphorus deficiency using a dye swap approach

2010-07-29 | E-GEOD-22677 | biostudies-arrayexpress

Proteomic analysis of auxin signaling during seedling development

Project description:Using iTRAQ auxin regulated proteins were identified in seedlings, roots and hypocotyls.

2016-06-28 | MSV000079857 | MassIVE

Expression data from 10-day old Arabidopsis seedlings treated with protease IV from Pseudomonas aeruginosa PA14

Project description:Immune responses in plants are triggered in part by conserved microbe-associated molecular pattern (MAMP) molecules such as bacterial flagellin. Upon MAMP perception, plants rapidly turn on the induction of numerous defense-related genes. We have identified a novel type of plant innate immunity elicitor, protease IV from Pseudomonas aeruginosa. Genome-wide transcriptomic profiles obtained with Affymetrix Arabidopsis ATH1 GeneChips® of 10-day old Arabidopsis seedlings treated with 20 nM purified protease IV for 1 hour were compared to published bacterial flagellin- and oligogalacturonide-triggered responses. We used microarrays to characterize the global transcriptomic changes in Arabidopsis seedlings upon protease IV treatment.

2014-06-17 | GSE58518 | GEO

Transcription profiling of Arabidopsis roots with or without treatment with 9-hydroxyoctadecatrienoic acid

Project description:Gene expression of roots grown on MS medium versus MS+9HOT was compared. 6-day-old seedlings grown on MS were transferred to fresh plates and grown for 3- or 5- additional days in the absence or in the presence of 9-HOT (25 um). Root fragments grown after transferring to fresh plates were excised and used to compare gene expression between controls and 9-HOT treated seedlings.

2009-10-02 | E-ATMX-14 | biostudies-arrayexpress

Differential gene expression in seedlings of pi4kb1b2-Study of pi4kb1b2 mutant

Project description:ngs2020_14_pi4kb1b2-differential gene expression in seedlings of pi4kb1b2-Differential gene expression in roots and leaves of seedlings, pi4kb1b2 mutant vs WT-Comparison of gene expression profile between roots and leaves of A.thaliana Col-0 as WT and pi4kb1b2 mutant, 7 days old (developmental stage 1.02), cultivated on MS/2 media supplemented with 0.8% agar and 1% sucrose, 22°C, 16h/8h light)

2022-05-04 | GSE179635 | GEO

Comparative transcriptome analysis of early interaction events in Scots pine root tissues following challenge (1dpi)

Project description:Comparative transcriptome analysis of early interaction events in Scots pine root tissues following challenge with a pathogenic, saprophytic or symbiotic fungus. Seedlings of P. sylvestris (19 days post germination) were transferred to wet, sterile filter paper on Petri-plates. Thereafter, the roots of the seedlings were inoculated with the mycelial homogenate of either Heterobasidion annosum (FP5, P-type) a pathogenic root rot fungus which attacks Norway spruce, Scots pine and broad leaf trees or Laccaria bicolor, an obligate ectomycorrhizal symbiont or Trichoderma aureoviride- an obligate saprotroph. Thereafter, incubated for 30 minutes, during which time some hyphae adhered to the roots. The inoculated seedlings (ten) were then transferred to another wet sterile filter paper placed on 1% water agar in Petri dishes. A second set of moist sterile filter paper was laid over the roots. The region of the Petri-dish containing the roots was covered with aluminium foil and the edges of the plate sealed with parafilm. The seedlings were then incubated for 24 hr under a photoperiod of 16h light at 20 ºC. Control seedlings were ‘inoculated’ with sterile distilled water. Keywords: other

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