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Proteome profiling of cell-free coelomic fluid from the common starfish Asterias rubens

ABSTRACT: Echinoderms, possessing outstanding regenerative capability, provide unique model system for the study of the response to injury. However, there is little known about the proteomic composition of coelomic fluid, an important biofluid circulating through the whole body and reflecting an overall biological status of the organism. In this study, we used LC-MALDI tandem mass spectrometry to characterize proteome of cell-free coelomic fluid of starfish Asterias rubens and follow the changes occurring in response to puncture wound and blood loss. Our study demonstrated significant changes of CF proteome during the first hours after injury and presented a series of candidate proteins involved in early response to injury, providing interesting targets for future functional studies.

INSTRUMENT(S): TOF/TOF 5800

ORGANISM(S): Asterias Rubens

TISSUE(S): Coelomic Fluid

SUBMITTER: Sergey Shabelnikov

LAB HEAD: Sergey Shabelnikov

PROVIDER: PXD010228 | Pride | 2019-03-15

REPOSITORIES: Pride

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Publications

Injury affects coelomic fluid proteome of the common starfish, <i>Asterias rubens</i>.

Shabelnikov Sergey V SV Bobkov Danila E DE Sharlaimova Natalia S NS Petukhova Olga A OA

The Journal of experimental biology 20190321 Pt 6

Echinoderms, possessing outstanding regenerative capabilities, provide a unique model system for the study of response to injury. However, little is known about the proteomic composition of coelomic fluid, an important biofluid circulating throughout the animal's body and reflecting the overall biological status of the organism. In this study, we used LC-MALDI tandem mass spectrometry to characterize the proteome of the cell-free coelomic fluid of the starfish <i>Asterias rubens</i> and to follo ...[more]

PMID: 30877231

Similar Datasets

Proteome profiling of three cell populations from the common starfish Asterias rubens

Project description:The origin of cells involved in regeneration in Echinoderms is an open question till now. Most experimental data support the process of transdifferentiation as the main mechanism, although the activity of progenitor/stem cells is also considered. The renewal of coelomocytes, the cells which occupy the coelomic cavity in Asterias rubens is an example of physiological regeneration. Although it is considered that coelomic epithelium is the main source of coelomocytes, many details of this process remain unclear. In this study, we provide evidence of the origin of several types of coelomocytes in A. rubens from the coelomic epithelium, with particular emphasis on small undifferentiated cells. The concept of a pool of marginal coelomocytes is introduced as cells sequestered on the surface of the coelomic epithelium and characterized by a special cellular composition. Proteomic analysis by LC-MALDI TOF/TOF MS identified in total 403 proteins in coelomocytes (COE), coelomic epithelium (CE) and coelomic epithelium subpopulation enriched with undifferentiated cells (CEW). Proteins common and associated with each cell pool were revealed and the intermediate status of cells on the border of coelomic epithelium and coelom was confirmed. The potential players involved in regenerative processes were identified.

2020-12-09 | PXD012550 | Pride

Fish coelomic fluid proteomic analysis by LC-MSMS

Project description:The aim of this study was to complete and fully characterize the proteome of rainbow trout coelomic fluid (CF). Furthermore, we intended to identify the proteins responsible for the extension of egg viability in salmonids coelomic fluid. For this, the proteomic composition of different salmonids CF and non-salmonids CF were compared to identify proteins specifically present in salmonids CF. Those proteins could be responsible for the egg conservation property of the salmonids CF. In parallel, rainbow trout CF has been fractionated using HPLC coupled to gel filtration or ion exchange columns. We have then tested the egg conservation properties of the different fractions obtained. Proteins present in the fractions allowing egg quality preservation were identified. Identifying the CF components involved in egg viability would have important applied outputs with various biotechnological applications for aquaculture. It could help understanding egg quality preservation mechanisms, and consequently improving egg storage condition.

2024-05-21 | PXD034989 | Pride

species identification using bone protein

Project description:Proteogenomics is an increasingly common method for species identification as it allows for rapid and inexpensive interrogation of an unknown organism’s proteome – even when the proteome is partially degraded. The proteomic method typically uses tandem mass spectrometry to survey all peptides detectable in a sample that frequently contains hundreds or thousands of proteins. Species identification is based on detection of a small numbers of species-specific peptides. Genetic analysis of proteins by mass spectrometry, however, is a developing field, and the bone proteome, typically consisting of only two proteins, pushes the limits of this technology. Nearly 20% of highly confident spectra from modern human bone samples identify non-human species when searched against a vertebrate database – as would be necessary with a fragment of unknown bone. These non-human peptides are often the result of current limitations in mass spectrometry or algorithm interpretation errors. Consequently, it is difficult to know if a “species-specific” peptide used to identify a sample is actually present in that sample. Here we evaluate the causes of peptide sequence errors and propose an unbiased, probabilistic approach to determine the likelihood that a species is correctly identified from bone without relying on species-specific peptides.

2021-09-09 | PXD021963 | Pride

Global proteomic analysis deciphers the mechanism of action of plant derived oleic acid against Candida albicans virulence and biofilm formation

Project description:Candida albicans is a commensal fungus in humans, mostly found on the mucosal surfaces of the mouth, gut, vagina and skin. Incidence of ever increasing invasive candidiasis in immunocompromised patients, alarming occurrence of antifungal resistance and insufficient diagnostic methods demand more focused research into C. albicans pathogenicity. Consequently, in the present study, oleic acid from Murraya koenigii was shown to have the efficacy to inhibit biofilm formation and virulence of Candida spp. Results of in vitro virulence assays and gene expression analysis, impelled to study the protein targets which are involved in the molecular pathways of C. albicans pathogenicity. Proteomic studies of differentially expressed proteins reveals that oleic acid induces oxidative stress responses and mainly targets the proteins involved in glucose metabolism, ergosterol biosynthesis, lipase production, iron homeostasis and amino acid biosynthesis. The current study emphasizes anti-virulent potential of oleic acid which can be used as a therapeutic agent to treat Candida infections.

2020-05-27 | PXD017588 | Pride

The iron-regulated surface determinant B (IsdB) protein from Staphylococcus aureus acts as a vitronectin receptor

Project description:The iron-regulated surface determinant B (IsdB) protein from Staphylococcus aureus plays a fundamental role as a receptor for the plasma and extracellular matrix protein vitronectin. Vn binding was strictly related to the expression of IsdB by bacterial strains. Adherence to and invasion of epithelial and endothelial cells by S. aureus expressing IsdB was promoted by Vn, which acts as a bridge between IsdB and the Vn host receptors.

2020-06-04 | PXD019371 | Pride

Isolation and characterization of extracellular vesicles from Arabidopsis thaliana cell culture and investigation of the specificities of their biogenesis

Project description:Over the past decade, membrane vesicles, known as exosomes, have garnered significant attention due to their potential as natural nanocarriers. Recently, it was discovered that plants also release extracellular vesicles (EVs). Yet, our understanding of EV production in plant cell culture remains limited. In this study, we used callus culture of the model plant Arabidopsis thaliana to isolate and comprehensively characterize EVs emanating from cultivated cells. Our findings reveal that the quantity of EVs in calli was significantly lower than in the plant's apoplastic fluid. This discrepancy is linked to the transcriptional repression of the endosomal sorting complex required for transport (ESCRT) genes. While salicylic acid elevated the expression of ESCRT components, it did not boost EV production. Remarkably, EVs from calli encompass proteins pivotal for cell wall biogenesis and defense mechanisms, as well as microRNAs consistent with those in intact plants. This indicates that plant cell cultures might be a viable source of EVs reflecting the properties of the parent plant species. Nevertheless, additional research is crucial to pinpoint the optimal conditions for efficient EV production.

2024-01-26 | PXD045849 | Pride

Lactate racemase proteins MALDI TOF/TOF

Project description:This project reports the characterization of the lactate racemase system in Lactobacillus plantarum. The lactate racemase (LarA) is a nickel-dependent enzyme. The apo-enzyme (apoLarA) is activated by a single nickel-containing maturation protein (LarE) that requires preactivation by two other accessory proteins (LarC which is a fusion between LarC1 and LarcC2 and LarB). Data submitted here identify the purified forms of Lar proteins.

2014-04-02 | PXD000775 | Pride

High throughput sequencing of the small RNAs from banana cv. Grand Naine (AAA group)

Project description:Small RNAs especially small inhibiting RNAs (siRNAs) and microRNAs (miRNAs) play essential role in the regulation of gene expression in plants. These non coding RNAs are processed by the DICER like proteins into 21-24 nucleotides single stranded molecules that guide the activity of RNA induced silencing complex. This complex along with the processed small RNA identifies the cognate mRNA and brings about sequence specific mRNA degradation thereby silencing the gene expression. The small RNA profile is unique for each plant tissue at a given point of time. High throughput sequencing method allows the study of differential expression of these small RNAs. Deep sequencing of small RNAs derived from the leaves of an elite cultivar of banana cv. Grand Naine (‘Cavendish’ subgroup with AAA genotype) was carried out. Generation of complete small RNA profile of banana cv. Grand Naine for comparison with similar databases

2015-02-07 | E-GEOD-65727 | biostudies-arrayexpress

High throughput sequencing of the small RNAs from banana cv. Rasthali (AAB group)

Project description:Small RNAs comprise a group of non coding RNAs which play significant role in the genetic regulation of growth and development in plants. The most important members of this family are the small inhibiting RNAs (siRNAs) and microRNAs (miRNAs). They are processed by the DICER like proteins in plants and incorporated into the RNA induced silencing complex to silence the cognate mRNAs by sequence specific cleavage. High throughput sequencing strategies have enabled the identification of complete gamut of small RNA sequences present in a plant tissue at a particular point of time enabling the study of their biological significance in different plant tissues. The small RNA profile of each plant shows few plant conserved sequences, few species specific sequences and few novel RNA sequences characteristic of each cultivar. Here we have performed high throughput sequencing of small RNA population derived from leaves of an elite edible Indian cultivar of banana cv. Rasthali (‘Silk’ subgroup with AAB genotype) to identify the microRNAs and other important small RNAs being expressed in the leaves of banana cv Rasthali. Generation of complete small RNA profile of banana cv. Rasthali for comparison with similar databases

2015-02-07 | E-GEOD-65728 | biostudies-arrayexpress

Egg White as a quality control in MALDI Mass Spectrometry Imaging

Project description:Tryptic peptides and N-glycans were spatially mapped and visualised on formalin-fixed paraffin-embedded (FFPE) endometrial cancer tissue microarrays (TMAs) using an ultrafleXtreme MALDI-ToF/ToF MS instrument (Bruker Daltonics). FFPE egg white was placed either side of each TMA and used as an external control to monitor detector performance and sample preparation.

2019-12-11 | PXD014310 | Pride

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