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Targeted protomics of seeds of healthy and diseased barley

ABSTRACT: Targeted quantification of proteins of interest present in seeds of healthy and diseased barley measured by SWAT-MS.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Hordeum Vulgare (barley)

TISSUE(S): Endosperm

SUBMITTER: Edward Kerr

LAB HEAD: Benjamin Luke Schulz

PROVIDER: PXD014093 | Pride | 2019-06-20

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	20160630_Barley_IDA_IonLib_Precursor_SWAT.swath	Other
	20160630_Barley_IDA_IonLib_SWAT.txt	Txt
	20190115_DBSWAT_Feed_1.wiff	Wiff
	20190115_DBSWAT_Feed_1.wiff.scan	Wiff
	20190115_DBSWAT_Feed_10.wiff	Wiff

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1 - 5 of 46

Publications

The intrinsic and regulated proteomes of barley seeds in response to fungal infection.

Kerr Edward D ED Phung Toan K TK Caboche Christopher H CH Fox Glen P GP Platz Greg J GJ Schulz Benjamin L BL

Analytical biochemistry 20190608

Barley is an important cereal grain used for beer brewing, animal feed, and human food consumption. Fungal disease can impact barley production, as it causes substantial yield loss and lowers seed quality. We used sequential window acquisition of all theoretical ions mass spectrometry (SWATH-MS) to measure and quantify the relative abundance of proteins within seeds of different barley varieties under various fungal pathogen burdens (ProteomeXchange Datasets PXD011303 and PXD014093). Fungal burd ...[more]

PMID: 31181183

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SWATH-MS proteomics of seeds of healthy and diseased barley

Project description:Identification and relative quantification of proteins present in seeds of healthy and diseased barley measured by SWATH-MS.

2018-10-18 | PXD011303 | Pride

Barley seed proteome - Shotgun proteomics of the barley seed proteome

Project description:Quantitative comparison of proteomes from two-rows (Conrad cultivar) and six-rows (Lacey cultivar) barley seeds.

2018-01-25 | PXD004006 | Pride

Transcription profiling of malting barley seeds

Project description:Malting is seed germination under strictly controlled environmental conditions. Malting quality is a complex phenotype that combines a large number of interrelated components, each of which shows complex inheritance. Currently, only a few genes involved in determining malting quality have been characterized. This study combined transcript profiling with phenotypic correlations to identify candidate genes for malting quality. We used the Barley1 GeneChipÂ® array to identify differentially expressed genes in four malting stages relative to dry seed in the barley variety Morex, and to identify differentially expressed genes among four barley varieties. Experiment Overall Design: Four malting barley cultivars were micromalted: Morex and Legacy (6-row), Merit and Harrington (2-row). Two to three batches of micromalting (biological replications) were performed. For each micromalting experiment, 20 g samples were collected for Morex at four stages: steeping, 24 h germination (day 1), 93 h germination (day 4), and finished malt after kilning was completed. Ungerminated, dry seed of Morex was used as reference sample. In another experiment, seeds of Legacy, Harrington, and Merit were micromalted and 20 g samples were collected for each variety during day 1 and day 4 germination stages. Expression profiles were compared among the four cultivars separately for day 1 and day 4.

2009-03-15 | E-GEOD-11200 | biostudies-arrayexpress

transcriptomic assay on embryos after barley seeds gamma_irradiation-Molecular mechanisms of growth stimulation after low-dose irradiation of barley seeds

Project description:4plex_barley_2017_01 - transcriptomic assay on embryos after barley seeds gamma_irradiation - Why radiation exposure on seeds at low doses causes stimulation of plant growth after germination? - Barley dry seeds of variety “Nur” were irradiated by gamma-rays (Co-60) at doses 20 Gy (stimulatory) and 100 Gy (inhibitory). Immediately after irradiation we put seeds for germination to Petri dishes containing water filter paper; embryos were taken 2h after irradiation, embryos with embrionic roots were taken 24 and 48h after irradiation. The following comparisons have been made: non-irradiated (0 Gy), 2h vs. 20 Gy, 2h; 0 Gy, 24h vs. 20 Gy, 24h; 0 Gy, 48h vs. 20 Gy, 48h; 0 Gy, 24h vs. 100 Gy, 24h. Three independent biological replicates were used.

2019-12-01 | GSE117356 | GEO

Expression data from microdissected endosperm transfer cells (ETCs) of barley seeds during different developmental stages

Project description:Endosperm transfer cells (ETCs) of barley grains/seeds are located at the maternal-filial boundary in seeds and fascilitate nutrient transfer from the mother plant into the filial endosperm tissue. Due to the difficult accessibility of ETCs inside the seed, signalling and metabolic pathways involved in differentiation processes of ETCs are poorly understood. To analyse ETC differentiation, we applied laser microdissection pressure catapulting (LMPC) coupled to transcriptome analysis at various developmental stages from cellularization to full functionality and ongoing modifications. ETC-specific transcriptome data identified candidate genes and associated pathways involved in distinct differentiation processes. Barley grains were harvested at 5, 7, 10 and 12 days after flowering/pollination (DAF) and immediately frozen in liquid nitrogen. In a cryostat (-20M-BM-0C), middle parts were cut by a razor blade, glued onto sample plates by Tissue-TekM-BM-. O.C.TM-bM-^DM-" and 20 M-BM-5m sections were mounted on PEN membrane slides (PALM, Bernried, Germany). Cryosections were stored for 7 days at -20M-BM-0C until complete dryness. LMPC-based isolation of ETC tissue from cryosections has been done using the PALMM-BM-. MicroBeam laser system. For each biological replicate, 50-70 sections from three independent grains were collected. Three biological replicates were generated from each time point (total number of samples = 12).

2012-04-16 | E-GEOD-35639 | biostudies-arrayexpress

Shoot and root of barley seeds: Drying treatment

Project description:Transcriptional profiling of barley shoot and root with drying Time course experiments

2014-04-01 | E-GEOD-41514 | biostudies-arrayexpress

Transcription profiling of barley maturing and germinating grains

Project description:Plant seeds prepare for germination already during seed maturation. We performed a detailed transcriptome analysis of barley grain maturation, desiccation and germination in two tissue fractions (endosperm/aleurone = e/a and embryo = em) using the Affymetrix barley1 chip. Experiment Overall Design: Barley developing and germinating seeds were harvested at different time points after flowering (developing) and imbibition (germinating). To further disseect the influence of different tissues, seeds were dissecte and tissues were analyzed individually.

2008-06-16 | E-GEOD-9365 | biostudies-arrayexpress

Shoot and root of barley seeds: Aluminum treatment

Project description:Transcriptional profiling of barley shoot and root with AlCl3 Time course experiments

2014-04-01 | E-GEOD-41512 | biostudies-arrayexpress

Shoot and root of barley seeds: Salt treatment

Project description:Transcriptional profiling of barley shoot and root with 0.2M NaCl Time course experiments

2014-04-01 | E-GEOD-41517 | biostudies-arrayexpress

Shoot and root of barley seeds: Cold treatment

Project description:Transcriptional profiling of barley shoot and root with incubating at 4˚C Time course experiments

2014-04-01 | E-GEOD-41513 | biostudies-arrayexpress