Ontology highlight
ABSTRACT:
PROVIDER: PRJNA604201 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR10995810_1.fastq.gz | Fastqsanger.gz | |||
| SRR10995810_2.fastq.gz | Fastqsanger.gz | |||
| SRR10995811_1.fastq.gz | Fastqsanger.gz | |||
| SRR10995811_2.fastq.gz | Fastqsanger.gz | |||
| SRR10995812_1.fastq.gz | Fastqsanger.gz |
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Project description:A complete understanding of barnacle adhesion remains elusive as the process occurs within and beneath the confines of a rigid calcified shell. Barnacle cement is mainly proteinaceous and several individual proteins have been identified in the hardened cement at the barnacle-substrate interface.We report the discovery of a novel 114kD cement protein, which is identified in material secreted onto various surfaces by adult barnacles and with the encoding gene highly expressed in the sub-mantle tissue.
2015-10-20 | PXD001982 | Pride
Project description:Chelonibia testudinaria cyprid cement gland study RNAseq Raw sequence reads
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Project description:Barnacles interest the scientific community for multiple reasons: their unique evolutionary trajectory, vast diversity, and economic impact as a harvested food source and also as one of the most prolific macroscopic hard biofouling organisms. A common, yet novel, trait among barnacles is adhesion, which has enabled a sessile adult existence and global colonization of the oceans. Barnacle adhesive is primarily composed of proteins, but knowledge of how the adhesive proteome varies across the tree of life is unknown due to a lack of genomic information. Here, we supplement previous mass spectrometry analyses of barnacle adhesive with recently sequenced genomes to compare the adhesive proteomes of Pollicipes pollicipes (Pedunculata) and Amphibalanus amphitrite (Sessilia). Although both species contain the same broad protein categories, we detail differences that exist between these species. The barnacle-unique cement proteins show the greatest difference between species, although these differences are diminished when amino acid composition and glycosylation potential are considered. By performing an in-depth comparison of the adhesive proteomes of these distantly related barnacle species, we show their similarities and provide a roadmap for future studies examining sequence specific differences to identify the proteins responsible for functional differences across the barnacle tree of life.
2022-02-17 | PXD026105 | Pride
Project description:Proteins were extracted from the cement glands of the cypird barnacle Megabalanus volcano. And thenproteins were subjected to in-solution digestion and analyzed by LTQ-Orbitrap Elite coupled to an Easy-nLC.
2021-09-08 | PXD012779 | Pride
Project description:PMMA bone cement is biologically inert and exhibits poor biological activity. Following implantation, it generates bone cement particles, which can easily induce tissue inflammation around the implant . Compared with PMMA bone cement, ES-PMMA bone cement had anti-inflammatory effect by inducing M2 polarization of macrophages. RNA sequencing was used to explore the underlying molecular mechanisms.
2024-10-24 | GSE279658 | GEO
Project description:Ixodes scapularis and other hard ticks are long-term blood feeders. This feeding behavior is facilitated by a tick secreted bio adhesive (tick cement) that attaches tick mouthparts to skin tissue and prevents the host from dislodging the tick from its feeding site. Understanding tick cement formation is highly sought after as its disruption will prevent tick feeding. This study describes proteins that form the inner core layer of I. scapularis tick cement as disrupting these will stop formation of the outer cortical layer. As the inner core cement layer completes forming by 24 h of attachment, we used laser capture to isolate cement from cryosections of 6 h and 24 h tick attachment sites and to distinguish between early and late inner core cement proteins. LC-MS/MS analysis identified 138 tick cement proteins (TCPs) of which 37 and 35 were unique in cement of 6 and 24 h respectively, and 66 shared proteins. The 138 TCPs are classified in 14 functional categories: cuticular protein (16%), tick specific proteins of unknown function, cytoskeletal proteins, and enzymes (at 13% each), enzymes (10%), antioxidant, glycine rich, scaffolding, heat shock, histone, histamine binding, proteases and protease inhibitors, and miscellaneous (at 3-6% each). Gene ontology analysis confirm that TCPs are enriched for bio adhesive properties. Our data offer insights into yet unknown tick cement bonding patterns and set the foundation for understanding the molecular basis of I. scapularis tick cement formation.
2023-03-11 | PXD038685 | Pride
Project description:Background: Marine biofouling negatively impacts industries reliant upon submerged stationary surfaces. The acorn barnacle Amphibalanus amphitrite is a major biofouler that permanently attaches to a wide array of substrates by producing a proteinaceous adhesive at the surface interface. These interface proteins are difficult to solubilize, and the understanding of what proteins exist in the adhesive has only been expanded with the use of the strong polar solvent hexafluoroisopropanol in combination with standard gel-based sample processing methods for proteomics analysis. Although effective, existing sample processing methods are labor and time intensive, hindering progress in this field. Results: We have developed a more efficient sample processing method by exploiting pressure cycling technology, which aids in protein extraction and digestion for proteomics analysis, and explored the efficacy of multiple solvents in combination with pressure on protein identification. We found that barnacle adhesive proteins can be extracted and digested in the same tube using pressure cycling technology, minimizing sample loss, increasing throughput to 16 concurrently processed samples, and decreasing sample processing time to under 8 hours. Pressure cycling technology methods produced similar proteomes in comparison to previous methods. Two solvents which were ineffective at extracting proteins from the adhesive at ambient pressure (urea and methanol) produced more protein identifications under pressure than hexafluoroisopropanol, leading to the identification and our description of >40 novel proteins at the interface. Many A. amphitrite adhesive proteins have no sequence similarity to publically available proteins, highlighting the unique adherent processes evolved by barnacles. Conclusion: Using pressure cycling technology, we describe methods that produce robust and consistent protein identifications from barnacle adhesive. These methods can be used to examine changes in barnacle adhesive, enabling future research on the effects of environmental and surface substrate composition on barnacle cement, a critical step for both broadening the understanding of barnacle adhesion and the development of new coatings for submerged surfaces to combat hard biofoulants.
2019-07-04 | PXD012730 | Pride
Project description:Major vault protein (MVP) is the main component of the vault complex, which is a highly conserved ribonucleoprotein complex found in most eukaryotic organisms. MVP or vaults have previously been found to be overexpressed in multidrug-resistant cancer cells and implicated in various cellular processes such as cell signaling and innate immunity. The precise function of MVP is, however, poorly understood and its expression and probable function in lower eukaryotes are not well characterized. In this study, we report that the Atlantic salmon louse expresses three full-length MVP paralogues (LsMVP1-3). Furthermore, we extended our search and identified MVP orthologues in several other ecdysozoan species. LsMVPs were shown to be expressed in various tissues at both transcript and protein levels. In addition, evidence for LsMVP to assemble into vaults was demonstrated by performing differential centrifugation. LsMVP was found to be highly expressed in cement, an extracellular material produced by a pair of cement glands in the adult female salmon louse. Cement is important for the formation of egg strings and hence serves as a protective coat for developing embryos. Our results imply a possible novel function of LsMVP as a secretory cement protein. LsMVP may play a role in structural or reproductive functions, although this has to be further investigated.
2024-08-10 | PXD050812 | Pride
Project description:The cement gland in Xenopus laevis has long been used as a model to study the interplay of cell signaling and transcription factors during embryogenesis. The homeodomain-containing transcription factor Pitx1 has been linked to cement gland development. However, the downstream transcriptional targets of Pitx1 remain unknown. Here, we utilize RNA Sequencing to identify transcripts whose expression are affected by Pitx1 misexpression in animal cap explants.
2018-03-07 | GSE111454 | GEO