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Quantification of the translatome in wild type Arabidopsis and amiNAA10 plants

ABSTRACT: Wild type Arabidopsis Col-0 plants and mutants depleted of the catalytic subunit of the ribosome-associated N-acetyltransferase A (NatA) complex (amiNAA10) were grown on soil for six weeks under short-day conditions (8h light, light intensity: 100 µE, 21 °C/18 °C temperature (day/night), 50 % humidity). The translatome of both genotypes after 2 hours of light (10 am) was determined by feeding of the trackable Met-analogue azidohomoalanine for 4 hours to leaf disks floated on ½ Hoagland medium containing 50 µM azidohomoalanine in the light.

INSTRUMENT(S): Q Exactive

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

TISSUE(S): Leaf

SUBMITTER: Thomas Ruppert

LAB HEAD: Thomas Ruppert

PROVIDER: PXD024328 | Pride | 2022-04-04

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	18-229_proteinGroups.txt	Txt
	QE25D060-18-229-01.raw	Raw
	QE25D060-18-229-02.raw	Raw
	QE25D060-18-229-03.raw	Raw
	QE25D060-18-229-04.raw	Raw

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1 - 5 of 12

Publications

Cotranslational N-degron masking by acetylation promotes proteome stability in plants.

Linster Eric E Forero Ruiz Francy L FL Miklankova Pavlina P Ruppert Thomas T Mueller Johannes J Armbruster Laura L Gong Xiaodi X Serino Giovanna G Mann Matthias M Hell Rüdiger R Wirtz Markus M

Nature communications 20220210 1

N-terminal protein acetylation (NTA) is a prevalent protein modification essential for viability in animals and plants. The dominant executor of NTA is the ribosome tethered N<sup>α</sup>-acetyltransferase A (NatA) complex. However, the impact of NatA on protein fate is still enigmatic. Here, we demonstrate that depletion of NatA activity leads to a 4-fold increase in global protein turnover via the ubiquitin-proteasome system in Arabidopsis. Surprisingly, a concomitant increase in translation, ...[more]

PMID: 35145090

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Quantification of poly-ubiquitinated proteins in wild type Arabidopsis and amiNAA10 plants

Project description:Wild type Arabidopsis Col-0 plants and mutants depleted of the catalytic subunit of the ribosome-associated N-acetyltransferase A (NatA) complex (amiNAA10) were grown on soil for six weeks under short-day conditions (8h light, light intensity: 100 µE, 21 °C/18 °C temperature (day/night), 50 % humidity). Proteasome and deubiquitinase activity were inhibited at 10 am (2 h of light) by floating leaf discs on ½ Hoagland supplemented with 50 µM MG132 and 20 µM PR-619 for 5 h.

2022-04-04 | PXD024329 | Pride

transition-Transcriptome of floral transition

Project description:ngs2015_01_transition-transition-Identification of transcripts and long non-coding transcripts in wild-type mature rosette leaves of Arabidopsis thaliana during a photoperiodic switch inducing floral transition.-Arabidopsis thaliana Col-0 plants were grown in soil, in growth chamber under white fluorescent light, under short-day (8 hours light/16 hours dark, SD) or long-day (16 hours light/8 hours dark, LD) conditions. Temperature in SD was 21°C during the light period and 18°C during the dark, humidity (65%) remained constant. In LD, temperature (21°C) and humidity (70%) remained constant. Plants were cultured for 4 weeks in individual pot, in SD then transferred in LD. Plants were analysed at different time points before transfer (T0) and after two, three and five days of transfer (T2, T3, T5). The second pair of leaves was collected before dusk, at Zeitgeber time 15 (ZT15) considering ZT 0 the switched on of the light. Three biological replicates were performed. The floral transition occurs between T0 and T5 based on AP1:GUS marker, a inflorescence meristem is not yet visible during this developmental window at the center of the rosette.

2019-04-17 | GSE116123 | GEO

Transcription profiling of poplar plants grown in different light and temperature cycles

Project description:Poplar (Populus trichocarpa, clone Nisqually-1) plants were grown in a Conviron PGR 15 growth chamber using precise control of temperature, light, and humidity. Diurnal (driven) conditions included 12L:12D light cycles and 25C/12C thermocycles in three different combinations. These were: photocycles (LDHH), 12 hrs. light (L)/12 hrs. dark (D) at a constant temperature (25C; HH); photo/thermocycles (LDHC): 12 hrs. light (L) /12 hrs. dark (D) with a high day temperature (25C) and a low night temperature (12C); and thermocycles (LLHC): continuous light (LL) with 12 hrs. high/12 hrs. low temperature (25C, day; 12C, night). Light intensity and relative humidity were 700 micromol m-2s-2 and 50%, respectively. Three-month-old poplar plants were entrained for at least one week under the respective condition prior to initiation of each experiment. Leaves and stems from individual poplar plants were collected every four hours for 48 hrs in driven (diurnal) conditions followed by a two day freerun spacer under continuous light/temperature followed by two additional days of sampling under the same continuous free run condition.

2010-01-09 | E-MEXP-2509 | biostudies-arrayexpress

primary stem development

Project description:Arabidopsis plants (ecotype Ler) were grown under short day conditions (8h cool white fluorescent light at 100 uE, 16h dark) at 20 °C and ambient humidity in PGW36 phytochambers (Controlled Environment Ltd., Winnipeg, MB, Canada). Plants were grown in Redi soil (Grace & Co, Ajax, ON, Canada) in 12 cm pots at a density of five plants per pot without fertilization for 8 weeks. Light conditions were then changed to long day (16h light, 8h dark), and plants were fertilized once with standard 10-15-10 plant fertilizer (150 ul in 300 ml water per pot) (Schultz, St. Louis, MO, USA). Twelve and 14 days after changing to long day conditions we harvested sections from stems totalling 4-6cm (“5cm stem”) and 9-11cm (“10cm stem”) in length, respectively. All flowers, siliques, cauline leaves, and secondary branches were discarded and the remaining bolting stems were cut with a razor blade to generate the following sections: 0-2cm and 2-4cm from 5cm stems; and 0-3cm, 3-5cm, 5-7cm, and 7-9cm from 10cm stems. For array hybridizations, labelled cDNA derived from each section was co-hybridized with cDNA from 0-2cm sections as a reference. Four replicate arrays (double dye-flip) were hybridized for each comparison. Keywords = fiber Keywords = lignin Keywords = stem developmet Keywords: time-course

2005-11-18 | GSE2000 | GEO

Histone acetylation H3K9ac ChIP-seq of Arabidopsis thaliana leaves for three genotypes (Col-0 wild type, gsnor1-3, axe1-5/hda6) in low light and dark conditions

Project description:Plants were grown for 4 weeks under short day (10 h light/14 h dark and 20 °C/16 °C, respectively). The relative humidity during the day and night was 50 %. Then, plants were transferred at 11 am (5 h after turning on the light) for 4 h either to dark (0 µE, 22 °C) or low light (100-130 µE, 22 °C) conditions and subsequently harvested.

2021-05-28 | E-MTAB-9299 | biostudies-arrayexpress

Metabolomics Workbench ST000722 - GNPS - Metabolomics of Diapause in Aedes albopictus

Project description:Replicate populations of Aedes albopictus were reared under diapause-inducing short day photoperiod (8h light: 16h dark) and diapause-averting long day photoperiod (16h light:8h dark). Eggs were collected from each replicate and snap-frozen 11d post-oviposition. We hope to characterize the metabolomic and lipidomic profiles of diapausing eggs relative to non-diapause eggs.

2018-08-02 | MSV000082725 | GNPS

RNA-seq of Arabidopsis thaliana leaves for three genotypes (Col-0 wild type, gsnor1-3, axe1-5/hda6) in low light and dark conditions

Project description:Plants were grown for 4 weeks under short day (10 h light/14 h dark and 20 °C/16 °C, respectively). The relative humidity during the day and night was 50 %. Then, plants were transferred at 11 am (5 h after turning on the light) for 4 h either to dark (D, 0 µE, 22 °C) or low light (LL, 100-130 µE, 22 °C) conditions and subsequently harvested.

2021-05-28 | E-MTAB-9301 | biostudies-arrayexpress

Diamond Back Moth treatment

Project description:Arabidopsis thaliana plants (ecotype Landsberg erecta) were grown at 20˚C constant temperature, 8 hr/16 hr Light/Dark photoperiod at 50-60% ambient humidity, for 8 to 9 weeks. Short day conditions prevented the onset of flowering and the plants were thus maintained in growth stage 1 (leaf production) with 13 to 15 rosette leaves larger than 1mm (stage 1.13 to 1.14). Diamondback moth (DBM, Plutella xylostella) larvae were maintained on cabbage (Brassica oleracea) plants in a climate-controlled room at 25ºC, 12 hr photoperiod with 50%-60% relative humidity. Two days before exposing A. thaliana plants to herbivore treatment, plants were transferred to a climate-controlled room (22ºC, 50-60% humidity, 12 hr photoperiod). For insect treatment, seven Diamondback moth (DBM, Plutella xylostella) larvae (third to fifth instars) were placed on a group of four or five plants until time of harvest, for each time point separately. All rosette leaves were harvested at 1h, 4h, 12h, and 24h after onset of continuous herbivory and flash frozen in liquid nitrogen. Control plants were maintained under the same conditions and harvested in parallel. Keywords: time course, stress response, herbivory response

2008-03-04 | GSE10681 | GEO

Metabolomics of Diapause in Aedes albopictus

2017-06-19 | ST000722 | MetabolomicsWorkbench

Transcription profiling by array of rice plants grown in different light and temperature conditions

Project description:Rice (Oryza sativa, spp. Indica, cv. 93-11) plants were grown in a Conviron PGR 15 growth chamber using precise control of temperature, light, and humidity.<br>Diurnal (driven) conditions included 12L:12D light cycles and 31C/20C thermocycles in three different combinations. These were: photocycles (LDHH), 12 hrs. light (L)/12 hrs. dark (D) at a constant temperature (31C; HH); photo/thermocycles (LDHC): 12 hrs. light (L) /12 hrs. dark (D) with a high day temperature (31C) and a low night temperature (20C); and thermocycles (LLHC): continuous light (LL) with 12 hrs. high/12 hrs. low temperature (31C, day; 20C, night). Light intensity and relative humidity were 1000 micromol m-2s-2 and 60%, respectively.<br>Three-month-old rice plants were entrained for at least one week under the respective condition prior to initiation of each experiment. Leaves and stems from individual rice plants were collected every four hours for 48 hrs in driven (diurnal) conditions followed by a two day freerun spacer under continuous light/temperature followed by two additional days of sampling under the same continuous free run condition.

2010-07-18 | E-MTAB-275 | biostudies-arrayexpress

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