Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative Proteomic Analysis of English Walnut (Juglans regia L.) Pellicle Tissues Reveal the Regulation of Nut Quality Attributes

ABSTRACT: Walnuts (Juglans regia L.) are a valuable dietary source of polyphenols and lipids, with increasing worldwide consumption. California is a major producer, with Chandler and Tulare among the cultivars more widely grown. Chandler produces kernels with extra light color at a higher frequency than , gaining consumer preference. Here we performed a deep comparative proteome analysis of kernel pellicle tissue from these two valued genotypes, at three harvest maturities, detecting a total of 4,937 J. regia proteins. Late and early maturity stages were compared for each cultivar, revealing many developmental responses common or specific for each cultivar. Top protein biomarkers for each developmental stage were also selected based on larger fold-change differences and lower variance among replicates. Comparison between the genotypes also revealed the common and specific protein repertoires, totaling 321 pellicle proteins with differential abundance. Additionally, in all maturity stages several allergens were among the most abundant proteins, which is of importance for food safety. The proteomics data provides clues on antioxidant, secondary, and hormonal metabolism that could be involved in the loss of quality in the pellicles during processing for commercialization.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Juglans Regia (ncbitaxon:51240)

SUBMITTER: Abhaya M. Dandekar

PROVIDER: MSV000086493 | MassIVE | Fri Nov 20 09:44:00 GMT 2020

SECONDARY ACCESSION(S): PXD022655

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Gene expression profiling of drought-sensitive (ICC1882) and tolerant (ICC4958) chickpea genotypes

Project description:We generated the global transcriptome profile of the two chickpea genotypes under control and drought conditions. Approximately 12 million high-quality reads were obtained for each cultivar and different conditions using the Illumina platform. Reference-based assembly was generated for each cultivar and condition. Differentially expressed genes were identified between drought and control conditions for each cultivar.

2023-05-20 | GSE193077 | GEO

Gene expression profiling of drought-sensitive (IR64) and tolerant (N22) rice cultivars

Project description:We generated the global transcriptome profile of the two rice genotypes under control and drought conditions. More than 80 million high-quality reads were obtained for each cultivar and different conditions using the Illumina platform. Reference-based assembly was generated for each cultivar and condition. Differentially expressed genes were identified between drought and control condittons for each cultivar.

2023-12-31 | GSE183894 | GEO

Proteomic analysis of leaf development in wild-type tobacco plants and siblings expressing a chloroplast-targeted cyanobacterial flavodoxin

Project description:Foliar development involves successive phases of cell proliferation and expansion that determine the final leaf size, and is characterized by an early burst of reactive oxygen species generated in the photosynthetic electron transport chain (PETC). To further characterize this process, we performed a label-free quantitative proteomic analysis of wild-type and plastid-targeted flavodoxin-expressing leaves. According to the leaf growth profile, we chose three representative developmental stages for the first emerging leaf (leaf 1): proliferation at 6 days post-germination (dpg), expansion at 16 dpg, and maturity (fully expanded leaves) at 25 dpg. A total of 8,911 individual proteins could be identified and assigned from the collected samples, comprising all genotypes and developmental phases. These data provide novel insights into the regulation of leaf growth by chloroplast-generated redox signals.

2024-03-13 | PXD041855 | Pride

Genome wide transcriptional changes during peach fruit development

Project description:Fleshy fruit help in reproduction by developing structures that, reached a given maturity stage, become attractive to animals that, feeding on them, spread the contained seeds in the environment. According to the species, seed development can be at the same pace with the pericarp, or be ready for dispersion before or after the ripening of the fruit. In peach, seed and mesocarp maturation are on pace in mid-season cultivars, while in early ripening ones the seed is not mature at ripening, with the endosperm not yet fully reabsorbed. On the contrary, slow ripening genotypes show the opposite, i.e. a mature seed in a fruit unable to fully ripen. To gain insights on the molecular control of peach fruit development and ripening and on the interactions between the seed and the mesocarp, genome wide transcriptional changes of the two fruit parts have been investigated throughout development from flower anthesis up to commercial ripening in the mid-season cultivar Fantasia. Besides flower, six time points encompassing the four fruit developmental stages were investigated.

2017-11-30 | GSE71561 | GEO

Plasmodium berghei Gametocytogenesis

Project description:Transcriptional profiling of gametocyte non-producer lines in Plasmodium berghei Transcriptome of gametocyte non producer lines (natural and genetic KO) and parental (820) lines. The aim of the study was to identify key genes involved in the decision to commit to gametocytogenesis in Plasmodium berghei. These microarrays compare naturally selected lines that do not produce gametocytes, and the parental line and additionally a genetic knock out of AP2-G PBANKA_143750. Data published Sinha, Hughes, et, al Nature tbc. 2- colour microarray comparing to common background pool (containing all life cycle stages). Replicates of different life cycle stages of gametocyte non-producer lines and wild tye (WT) parental control lines

2013-12-13 | E-GEOD-53246 | biostudies-arrayexpress

Morphological and Genetic Characterization of Fruit Abscission Zone in Muscadine

Project description:Muscadines face limitations to fresh market production due to high manual labor costs. Mechanical harvesting holds promise for reducing the costs associated with muscadine production but requires cultivars with easily detached berries at maturity. This study aimed to determine muscadine fruit and pedicel characteristics influencing fruit detachment force and to unravel the genes, hormones, and regulatory networks governing muscadine abscission. We characterized the fruit detachment force of muscadine berries across eighteen genotypes and at four developmental stages. Following this, we performed a transcriptome analysis using the mature pedicel tissue of two genotypes, a genotype with high fruit detachment force at maturity and a genotype with low fruit detachment force at maturity, to identify differentially expressed and uniquely expressed genes contributing to fruit detachment. We found that pedicel length, pedicel-fruit junction area, and fruit diameter were all positively correlated with fruit detachment force. This study also identifies novel candidate genes, transcription factor families, and pathways associated with muscadine fruit abscission. These findings provide valuable knowledge on the progression of fruit abscission and insights for reducing fruit detachment force, particularly in developing machine-harvestable muscadine cultivars and fostering sustainability and efficiency in muscadine production.

2024-10-23 | GSE259406 | GEO

Gene expression after Verticillium longisporum infection in a susceptible and a resistant A. thaliana near isogenic line

Project description:Resistance against Verticillium longisporum is quantitative and multigenic. The vec1 QTL in Arabidopsis thaliana controlled resistance against systemic colonization by the fungus. Gene expression was studied to identify genes and pathways controlled by vec1. Near-isogenic lines derived from the resistant ecotype Bur and the susceptible ecotype Ler were compared. NIL9 contained Ler-alleles in the genomic region between 11753 and 12285 kb within vec1 on chromosome 2, tmNIL130 contained Bur-alleles. Microarrays were performed on samples containing the hypocotyl and the shoot basis because colonization is stopped in this region in resistant genotypes. Two developmental stages were studied: time-point (1) at the onset of flowering, when systemic colonization was shown to start and time point (2) at the onset of silique maturity, when extensive fungal proliferation was shown to occur. Two pathogen treatments were studied: (1) mock-inoculated controls, (2) plants inoculated with the V. longipsorum isolate 43 (VL). Gene expression was studied in two genotypes (NIL9-susceptible; tmNIL130-resistant), under two pathogen treatments (mock-inoculated; VL-inoculated) at two time points (at the onset of flowering, 13 days post inoculation [dpi]; at the onset of silique maturity, 27-29 dpi). Three biological replicates were used for each treatment (24 microarrays altogether).

2015-06-30 | E-GEOD-70021 | biostudies-arrayexpress

Homo sapiens

Project description:Gene expressions of CD4+ T cells in each developmental stages

| PRJNA261875 | ENA

Whole genome transcriptional analysis in rice-stem during dough stage induced by arsenic contaminated soil and irrigation water

Project description:RNA from stem containing first node and internodes during dough stage was considered for the above purpose. Satabdi, (popularly known as Minikit) most popular cultivar of West Bengal and Palman, another high yielding variety were considered for microarray analysis for comparison to each other. Two rice genotypes were grown in identical conditions (same field with contaminated ground water) to obtain the most meaningful conclusion. Dough stage was considered as variation in arsenic accumulation among the genotypes starts during dough stage to maturity. Plant tissues were collected from stem for transcriptomic analysis as expression profiling of such tissue in response to arsenic would be most useful as arsenic transport/loading in grain was assumed to be controlled by arsenic translocation behavior at inter vascular level or from xylem to phloem. Satabdi accumulates more than twice of arsenic in brown rice (0.346 mg/kg) than that of Palman (0.156 mg/kg) whereas accumulation in straw (2.07 mg/kg) was approximately less than half of the Palman (4.491 mg/kg)

2014-01-17 | E-MTAB-2106 | biostudies-arrayexpress

Transcriptome analysis reveals miRNA expression profiles in hypothalamus tissues during the sexual development of Jining grey goats

Project description:In order to reveal the changes of microRNA spectrum in hypothalamus tissues of goats from birth to sexual maturity, smallRNA sequencing was performed on hypothalamus tissues of Jining grey goats at 4 developmental stages after birth. Twenty libraries from 4 different developmental stages (5 goats per stage) were successfully constructed and the corresponding miRNA expression profiles were obtained.

2024-08-21 | GSE246961 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data