Browse
Submit Data
Databases
API
Help

Dataset Information

455 Views

0 Connections

1 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Glycoproteome of Elongating cotton fiber cells

ABSTRACT: Glycoproteins isolated from elongating cotton fiber cells were analyzed using 2D-PAGE followed by MALDI TOF/TOF based protein identification. Protein isoforms were identified using Tandem mass spectrometry. Lectin based Glycopeptide enrichment strategy followed by PNGase catalyzed deglycosylation reaction was employed to assign potential N-linked glycosylation sites.

INSTRUMENT(S): ultraflex

ORGANISM(S): Gossypium

TISSUE(S): Plant Cell, Cotton Fibre

SUBMITTER: Saravanan Kumar

LAB HEAD: Vanga Siva Reddy

PROVIDER: PXD002849 | Pride | 2015-11-25

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Glycoproteome of elongating cotton fiber cells.

Kumar Saravanan S Kumar Krishan K Pandey Pankaj P Rajamani Vijayalakshmi V Padmalatha Kethireddy Venkata KV Dhandapani Gurusamy G Kanakachari Mogilicherla M Leelavathi Sadhu S Kumar Polumetla Ananda PA Reddy Vanga Siva VS

Molecular & cellular proteomics : MCP 20130909 12

Cotton ovule epidermal cell differentiation into long fibers primarily depends on wall-oriented processes such as loosening, elongation, remodeling, and maturation. Such processes are governed by cell wall bound structural proteins and interacting carbohydrate active enzymes. Glycosylation plays a major role in the structural, functional, and localization aspects of the cell wall and extracellular destined proteins. Elucidating the glycoproteome of fiber cells would reflect its wall composition ...[more]

PMID: 24019148

Similar Datasets

wheat root MALDI-TOF-MS/MS - Root Proteomics Reveals the Effects of Wood Vinegar on Wheat Growth and Subsequent Tolerance to Drought Stress

Project description:To investigate the proteome pattern of wheat roots following a WV seed presoaking treatment under drought stress, comparative proteomic analysis using two-dimensional polyacrylamide gel electrophoresis was employed for wheat roots. Obtained DEPs were digested with trypsin and subjected to 5800 MALDI-TOF-MS/MS analysis.

2019-11-13 | PXD012150 | Pride

Hypoxia induces Foxn1 and Mmp-9 expression in keratinocytes: proteomics analysis of mouse keratinocytes transiently activated by Foxn1

Project description:Recent studies have shown that transcription factor Foxn1 expressed in keratinocytes is involved in skin wound healing process, yet how Foxn1 functions remains largely unknown. Proteomic analysis using a two-dimensional differential gel electrophoresis (2D-DIGE) technique coupled with MALDI-TOF/TOF was used to analyze in vitro cultured keratinocytes transfected with adenoviral vector carrying Foxn1-GFP or GFP-alone (control). Sixty-six of sixty-nine protein spots differed in abundance between compared groups were identified.

2018-04-09 | PXD007843 | Pride

MALDI-TOF Profiling of modified histone proteins

Project description:Histone lysine methylations as one of the chromatin post-translational modifications, has been linked to the modification of chromatin regions and mediating genome functions.In this study, we investigated the divergent role for histone H4 lysine 20 mono-methylation (H4K20me1) in facilitates chromatin openness and accessibility by disrupting chromatin folding.

2021-08-26 | PXD027150 | Pride

Proteomic characterization of fresh spermatozoa and supernatant after cryopreservation in relation to freezability of carp (Cyprinus carpio) semen

Project description:Our recent studies suggested that the freezability of carp semen is related to seminal plasma protein profiles. Here, we aimed to compare the spermatozoa proteomes of good (GF) and poor (PF) freezability semen of carp. To achieve this, we used two-dimensional difference in gel electrophoresis followed by MALDI-TOF/TOF mass spectrometry. The semen was classified as GF or PF based on sperm motility after freeze/thawing. We identified proteins enriched in spermatozoa of GF (22 proteins) and PF (18 proteins) semen. We also identified 12 proteins enriched in the supernatant after cryopreservation of PF semen. Good freezability is related to high concentrations of proteins involved in the maintenance of flagella structure, membrane fluidity, efficient control of Ca2+ and sperm motility, energy production, and antioxidative protection, which likely reflects the full maturation status of spermatozoa of GF semen. On the other hand poor freezability seems to be related to the presence of proteins identified as released in high quantities from cryopreserved sperm of PF. Thus, the identified proteins might be useful bioindicators of freezing resilience and could be used to screen carp males before cryopreservation, thus improve long-term sperm preservation in carp.

2018-03-23 | PXD008187 | Pride

Grapevine Leaf proteome - Overexpression of a stress-responsive U-box protein gene VaPUB affects the accumulation of resistance related proteins in Vitis vinifera 'Thompson Seedless'

Project description:To investigate differentially accumulated proteins caused by transgenic events, comparative proteomic analysis using two-dimensional polyacrylamide gel electrophoresis was employed for Vitis vinifera ‘Thompson seedless’ leaves and transgenic Vitis vinifera ‘Thompson seedless’ leaves. Obtained proteins were digested with trypsin and subjected to MALDI-TOF-MS/MS analysis. According to annotations and a Blast search, proteins analyzed by MALDI-TOF/TOF were classified into 4 functional categories: carbon and energy metabolism, oxidation reaction, protein metabolism and resistance.

2017-01-04 | PXD005570 | Pride

An efficient method for protein extraction from low protein concentration solutions compatible with the proteomic analysis of latex-producing organelles

Project description:The extraction of high-purity proteins from the washing solution (WS) of rubber tree latex-producing organelles (also termed rubber particles) in laticifers for proteomic analysis is challenging due to the low concentration of proteins in the WS. Recent studies have revealed that proteins in the WS might play crucial roles in natural rubber biosynthesis. To further examine the involvement of these proteins in natural rubber biosynthesis, we designed an efficiency method to extract high-purity WS proteins. We improved our current borax and phenol-based (BPP) method by adding re-extraction steps with phenol (REP) to improve the yield from low-protein concentration samples. With this new method, we extracted WS proteins that were suitable for proteomics. Indeed, compared to the original BPP method, the REP method improved both the quality and quantity of isolated proteins. By repeatedly extracting from low-protein concentration solutions using the same small amount of phenol, the REP method yielded enough protein of sufficiently high-quality from starting samples containing less than 0.02 mg of proteins per mL. This method was successfully applied to extract the rubber particle proteins from the WS of natural rubber latex samples. The REP-extracted WS proteins were resolved by two-dimensional gel electrophoresis (2-DE), and 28 proteins were positively identified by mass spectrometry. This method has the potential to become widely used for the extraction of proteins from low-protein-concentration solutions for proteomic analysis.

2016-10-10 | PXD004156 | Pride

Shingobium sp. strain Chol11 MALDI-TOF MS

Project description:Soluble proteins of Shingobium sp. strain Chol11 adapted to growth with cholate were compared to cells adapted to growth with glucose by means of 2D DIGE coupled to MALDI-TOF MS protein identification

2021-04-21 | PXD022404 | Pride

human Synthesis and preparation of histone3 modification peptides

Project description:Synthesis and preparation of histone3 modification peptides

2022-05-20 | PXD032850 | Pride

Homo sapiens expanded into the Northern European Plains by 45,000 years ago

Project description:1,322 morphologically unidentified fragmentary bone specimens were analyzed using MALDI-TOF and a subset of 341 bone specimens with LC-MS/MS in order to characterize their proteome for species identification and potential hominin specimens related to the LRJ transitional period derived from the site Ilsenhöhle Ranis, Germany (50°39.7563’N, 11°33.9139’E).

2023-10-20 | PXD043272 | Pride

Proteomic analysis of rabbit fresh and cryopreserved semen (seminal plasma)

Project description:Cryoinjury and protein changes are a consequence of cryopreservation and may have a negative impact on sperm quality regarding motility, viability and fertilizing ability. However, potential proteomic changes in rabbit semen throughout the cryopreservation process have never been investigated previously. The aim of the present study was to compare the whole proteome of fresh and cryopreserved rabbit extracellular fluid of semen. Comparative analysis and identification of proteins were performed using 2-dimensional difference in-gel electrophoresis (2D-DIGE) coupled with matrix-assisted laser desorption/ionization mass (MALDI TOF/TOF) spectrometry. We found that 28 proteins differed in abundance between fresh and frozen extracellular fluid.

2022-10-13 | PXD034853 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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