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Wyświetlanie 1-15 z 32
Tytuł:
Is stallion epididymal fluid phosphoproteome affected by the equine reproductive season?
Autorzy:
Dyrda, K.
Orzołek, A.
Ner-Kluza, J.
Wysocki, P.
Powiązania:
https://bibliotekanauki.pl/articles/2087138.pdf
Data publikacji:
2021
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
stallion
proteomics
epididymal fluid
phosphoproteins
Źródło:
Polish Journal of Veterinary Sciences; 2021, 24, 4; 487-495
1505-1773
Pojawia się w:
Polish Journal of Veterinary Sciences
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Mass spectrometry as a useful tool for identifying new therapeutic targets on the cell surface of pathogenic fungi from the genus Candida
Autorzy:
Karkowska-Kuleta, J.
Bocheńska, O.
Powiązania:
https://bibliotekanauki.pl/articles/115505.pdf
Data publikacji:
2014
Wydawca:
Fundacja na Rzecz Młodych Naukowców
Tematy:
proteomics
pathogenic fungi
candidiasis
mass spectrometry
Opis:
Mass spectrometry (MS) is a universal technique with a wide range of applications, including proteomic studies of different organisms, particularly the characterization and sequencing of proteins isolated from specific cellular compartments. It is used for the identification of elements exposed on the cell surface of microbial pathogens, which are involved in the initial contact with the human host, and then in the further development of infection. Given the increasing frequency of invasive fungal infections caused by pathogenic yeast from the genus Candida, especially among patients with severe immunological impairments, it appears advisable to study the diversity of cell wall proteins that arise during subsequent stages of infection and that are responsible for several important phenomena correlated with pathogenesis. This study employed a liquid chromatograph-coupled mass spectrometer equipped with an electrospray ionization source (ESI), and an ion trap analyser. For tandem mass spectrometry, two approaches for fragmentation of ions - collision-induced dissociation (CID) and electron transfer dissociation (ETD) - were used to analyse the mixtures of peptides generated after tryptic digestion of fungal cell wall proteins (i.e. the “bottom-up” approach). Several surface proteins from Candida spp. were identified which could be potential drug targets and candidates for vaccine development.
Źródło:
Challenges of Modern Technology; 2014, 5, 1; 7-14
2082-2863
2353-4419
Pojawia się w:
Challenges of Modern Technology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Corpora amylacea from multiple sclerosis brain tissue consists of aggregated neuronal cells
Autorzy:
Selmaj, Krzysztof
Pawłowska, Zofia
Walczak, Agata
Koziołkiewicz, Wiktor
Raine, Cedric
Cierniewski, Czesław
Powiązania:
https://bibliotekanauki.pl/articles/1040812.pdf
Data publikacji:
2008
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
proteomics
neuronal aggregates
corpora amylacea
multiple sclerosis
Opis:
In this report, we describe proteomic analysis of corpora amylacea collected by postmortem laser microdissection from multiple sclerosis (MS) brain lesions. Using low level protein loads (about 30 µg), a combination of two-dimensional electrophoresis with matrix-assisted laser desorption/ionization-time of flight mass spectrometry and database interrogations we identified 24 proteins of suspected neuronal origin. In addition to major cytoskeletal proteins like actin, tubulin, and vimentin, we identified a variety of proteins implicated specifically in cellular motility and plasticity (F-actin capping protein), regulation of apoptosis and senescence (tumor rejection antigen-1, heat shock proteins, valosin-containing protein, and ubiquitin-activating enzyme E1), and enzymatic pathways (glyceraldehyde-3-dehydrogenase, protein disulfide isomerase, protein disulfide isomerase related protein 5, lactate dehydrogenase). Samples taken from regions in the vicinity of corpora amylacea showed only traces of cellular proteins suggesting that these bodies may represent remnants of neuronal aggregates with highly polymerized cytoskeletal material. Our data provide evidence supporting the concept that biogenesis of corpora amylacea involves degeneration and aggregation of cells of neuronal origin.
Źródło:
Acta Biochimica Polonica; 2008, 55, 1; 43-50
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A distributed algorithm for protein identification from tandem mass spectrometry data
Autorzy:
Orzechowska, Katarzyna
Rubel, Tymon
Kurjata, Robert
Zaremba, Krzysztof
Powiązania:
https://bibliotekanauki.pl/articles/2097435.pdf
Data publikacji:
2022
Wydawca:
Polskie Towarzystwo Promocji Wiedzy
Tematy:
proteomics
mass spectrometry
distributed computing
Apache Spark
Opis:
Tandem mass spectrometry is an analytical technique widely used in proteomics for the high-throughput characterization of proteins in biological samples. Modern in-depth proteomic studies require the collection of even millions of mass spectra representing short protein fragments (peptides). In order to identify the peptides, the measured spectra are most often scored against a database of amino acid sequences of known proteins. Due to the volume of input data and the sizes of proteomic databases, this is a resource-intensive task, which requires an efficient and scalable computational strategy. Here, we present SparkMS, an algorithm for peptide and protein identification from mass spectrometry data explicitly designed to work in a distributed computational environment. To achieve the required performance and scalability, we use Apache Spark, a modern framework that is becoming increasingly popular not only in the field of “big data” analysis but also in bioinformatics. This paper describes the algorithm in detail and demonstrates its performance on a large proteomic dataset. Experimental results indicate that SparkMS scales with the number of worker nodes and the increas-ing complexity of the search task. Furthermore, it exhibits a protein identification efficiency comparable to X!Tandem, a widely-used proteomic search engine.
Źródło:
Applied Computer Science; 2022, 18, 2; 16--27
1895-3735
Pojawia się w:
Applied Computer Science
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Isolation and identification of zinc ions and heparin binding proteins in yellow fraction of the red deer Cervus Elaphus L. semen
Autorzy:
Orzołek, A.
Dyrda, K.
Rafalska, K.
Wysocki, P.
Kordan, W.
Giżejewski, W.
Powiązania:
https://bibliotekanauki.pl/articles/2087223.pdf
Data publikacji:
2021
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
red deer
yellow fraction
ZnBPs
HBPs
proteomics
Źródło:
Polish Journal of Veterinary Sciences; 2021, 24, 1; 69-78
1505-1773
Pojawia się w:
Polish Journal of Veterinary Sciences
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Proteomics in studies of Staphylococcus aureus virulence
Autorzy:
Bonar, Emilia
Wójcik, Iwona
Wladyka, Benedykt
Powiązania:
https://bibliotekanauki.pl/articles/1038964.pdf
Data publikacji:
2015
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Staphylococcus aureus
proteomics
virulence factors
secretome
surfacome
Opis:
Staphylococcus aureus is a widespread, opportunistic pathogen that causes community and hospital acquired infections. Its high pathogenicity is driven by multifactorial and complex mechanisms determined by the ability of the bacterium to express a wide variety of virulence factors. The proteome secreted into extracellular milieu is a rich reservoir of such factors which include mainly nonenzymatic toxins and enzymes. Simultaneously, membrane proteins, membrane-cell wall interface proteins and cell wall-associated proteins also strongly influence staphylococcal virulence. Proteomics shows a great potential in exploring the role of the extracellular proteome in cell physiology, including the pathogenic potential of particular strains of staphylococci. In turn, understanding the bacterial physiology including the interconnections of particular factors within the extracellular proteomes is a key to the development of the ever needed, novel antibacterial strategies. Here, we briefly overview the latest applications of gel-based and gel-free proteomic techniques in the identification of the virulence factors within S. aureus secretome and surfacome. Such studies are of utmost importance in understanding the host-pathogen interactions, analysis of the role of staphylococcal regulatory systems and also the detection of posttranslational modifications emerging as important modifiers of the infection process.
Źródło:
Acta Biochimica Polonica; 2015, 62, 3; 367-381
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Immunogenic proteins in the somatic proteome of the adult cestode Hymenolepis diminuta - a proteomic approach
Autorzy:
Mlocicki, D.
Bien, J.
Salamatin, R.
Sulima, A.
Powiązania:
https://bibliotekanauki.pl/articles/6559.pdf
Data publikacji:
2016
Wydawca:
Polskie Towarzystwo Parazytologiczne
Tematy:
immunogenic protein
cestode
Hymenolepis diminuta
parasite
proteomics
Źródło:
Annals of Parasitology; 2016, 62, Suppl.
0043-5163
Pojawia się w:
Annals of Parasitology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Cell wall proteome of pathogenic fungi
Autorzy:
Karkowska-Kuleta, Justyna
Kozik, Andrzej
Powiązania:
https://bibliotekanauki.pl/articles/1038959.pdf
Data publikacji:
2015
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
proteomics
fungal pathogens
cell wall
Candida
Aspergillus
Cryptococcus
Opis:
A fast development of a wide variety of proteomic techniques supported by mass spectrometry coupled with high performance liquid chromatography has been observed in recent years. It significantly contributes to the progress in research on the cell wall, very important part of the cells of pathogenic fungi. This complicated structure composed of different polysaccharides, proteins, lipids and melanin, plays a key role in interactions with the host during infection. Changes in the set of the surface-exposed proteins under different environmental conditions provide an effective way for pathogens to respond, adapt and survive in the new niches of infection. This work summarizes the current state of knowledge on proteins, studied both qualitatively and quantitatively, and found within the cell wall of fungal pathogens for humans, including Candida albicans, Candida glabrata, Aspergillus fumigatus, Cryptococcus neoformans and other medically important fungi. The described proteomic studies involved the isolation and fractionation of particular sets of proteins of interest with various techniques, often based on differences in their linkages to the polysaccharide scaffold. Furthermore, the proteinaceous contents of extracellular vesicles ("virulence bags") of C. albicans, C. neoformans, Histoplasma capsulatum and Paracoccidioides brasiliensis are compared, because their production can partially explain the problem of non-classical protein secretion by fungi. The role assigned to surface-exposed proteins in pathogenesis of fungal infections is enormously high, thus justifying the need for further investigation of cell wall proteomes.
Źródło:
Acta Biochimica Polonica; 2015, 62, 3; 339-351
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Modular structurality and emergent functionality within knowledge representation systems
Autorzy:
Fedyniuk, Adam
Powiązania:
https://bibliotekanauki.pl/articles/429209.pdf
Data publikacji:
2016
Wydawca:
Uniwersytet Papieski Jana Pawła II w Krakowie
Tematy:
metamodelling
ontology
proteomics
connectomics
centrality
philosophy of information
Opis:
There are various approaches to ontology metamodelling, and the notion of biologically inspired modular knowledge representation systems can provide insight in the workings of such phenomena as emergent properties of network structures. What is more relevant from knowledge engineering standpoint, such approach could provide innovation and enhancement of the level of expression as well as overall functionality of modular ontologies. To do so, one needs to find biological structures that would be the basis for modularity on different levels of hierarchy within the artificial system. Network analysis tools as well as systems biology and biocomputing provide a framework for research in this field.
Źródło:
Semina Scientiarum; 2016, 15
1644-3365
Pojawia się w:
Semina Scientiarum
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Identification of serum proteome components associated with progression of non-small cell lung cancer
Autorzy:
Pietrowska, Monika
Jelonek, Karol
Michalak, Malwina
Roś, Małgorzata
Rodziewicz, Paweł
Chmielewska, Klaudia
Polański, Krzysztof
Polańska, Joanna
Gdowicz-Kłosok, Agnieszka
Giglok, Monika
Suwiński, Rafał
Tarnawski, Rafał
Dziadziuszko, Rafał
Rzyman, Witold
Widłak, Piotr
Powiązania:
https://bibliotekanauki.pl/articles/1039297.pdf
Data publikacji:
2014
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
cancer staging
early detection
lung cancer
proteomics
serum biomarkers
Opis:
The aim of the present study was to perform comparative analysis of serum from patients with different stages of non-small cell lung cancer (NSCLC) using the three complementary proteomic approaches to identify proteome components associated with the progression of cancer. Serum samples were collected before any treatment from 200 patients with NSCLC, including 103 early stage, 64 locally advanced and 33 metastatic cancer samples, and from 200 donors without malignancy. The low-molecular-weight fraction of serum proteome was MALDI-profiled in all samples. Serum proteins were characterized using 2D-PAGE and LC-MS/MS approaches in a representative group of 30 donors. Several significant differences were detected between serum samples collected from patients with early stage cancer and patients with locally advanced cancer, as well as between patients with metastatic cancer and patients with local disease. Of note, serum components discriminating samples from early stage cancer and healthy persons were also detected. In general, about 70 differentiating serum proteins were identified, including inflammatory and acute phase proteins already reported to be associated with the progression of lung cancer (serum amyloid A or haptoglobin). Several differentiating proteins, including apolipoprotein H or apolipoprotein A1, were not previously associated with NSCLC. No significant differences in patterns of serum proteome components were detected between patients with adenocarcinoma and squamous cell carcinoma. In conclusion, we identified the biomarker candidates with potential importance for molecular proteomic staging of NSCLC. Additionally, several serum proteome components revealed their potential applicability in early detection of the lung cancer.
Źródło:
Acta Biochimica Polonica; 2014, 61, 2; 325-331
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Surfaceome of pathogenic yeasts, Candida parapsilosis and Candida tropicalis, revealed with the use of cell surface shaving method and shotgun proteomic approach
Autorzy:
Karkowska-Kuleta, Justyna
Zajac, Dorota
Bochenska, Oliwia
Kozik, Andrzej
Powiązania:
https://bibliotekanauki.pl/articles/1038923.pdf
Data publikacji:
2015
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
cell surface shaving
proteomics
fungal pathogens
cell wall
Candida
Opis:
In the course of infections caused by pathogenic yeasts from the genus Candida, the fungal cell surface is the first line of contact with the human host. As the surface-exposed proteins are the key players in these interactions, their identification can significantly contribute to discovering the mechanisms of pathogenesis of two emerging pathogens from this genus, C. parapsilosis and C. tropicalis. Therefore, the aim of the present study was to identify the cell wall-attached proteins of these two species with the use of cell surface shaving and a shotgun proteomic approach. Different morphological forms of C. parapsilosis and C. tropicalis cells obtained after growth under various conditions were subjected to this treatment. This allowed to indicate the most abundant cell surface proteins on the basis of the normalized spectral abundance factors. In case of yeast-like forms these were, among others, proteins similar to a chitinase, glyceraldehyde-3-phosphate dehydrogenase and an inducible acid phosphatase for C. parapsilosis, and a constitutive acid phosphatase, pyruvate decarboxylase and glyceraldehyde-3-phosphate dehydrogenase for C. tropicalis. In case of pseudohyphal forms, proteins similar to a cell surface mannoprotein Mp65, chitinase and glycosylphosphatidylinositol-anchored transglycosylase Crh11 were identified at the cell surface of C. parapsilosis. The Rbt1 cell wall protein, a hyphally regulated cell wall protein and proteins from agglutinin-like sequence protein family were found as the most abundant on C. tropicalis pseudohyphae. Apart from the abovementioned proteins, several additional covalently bound and atypical cell wall proteins were also identified. These results extend the current knowledge regarding the molecular basis of virulence of these two non-albicans Candida species.
Źródło:
Acta Biochimica Polonica; 2015, 62, 4; 807-819
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Proteomics profiles reveal the potential roles of proteins involved in chicken macrophages stimulated by Lipopolysaccharide
Autorzy:
Li, S.
Chen, Y.
Xue, W.
Wang, Q.
Huai, Z.
An, C.
Wang, Y.
Powiązania:
https://bibliotekanauki.pl/articles/16647586.pdf
Data publikacji:
2023
Wydawca:
Polska Akademia Nauk. Czasopisma i Monografie PAN
Tematy:
chicken macrophage (HD11)
immune response
lipopolysaccharide (LPS)
proteomics
Opis:
Lipopolysaccharide (LPS), a core part of gram-negative bacteria, is crucial for inducing an inflammatory response in living things. In the current study, we used LPS from Salmonella to stimulate chicken macrophages (HD11). Proteomics was used to investigate immune-related proteins and their roles further. Proteomics investigation revealed 31 differential expression proteins (DEPs) after 4 hours of LPS infection. 24 DEPs expressions were up-regulated, while seven were down-regulated. In this investigation, ten DEPs were mainly enriched in S. aureus infection, complement, and coagulation cascades, which were all implicated in the inflammatory response and clearance of foreign pathogens. Notably, complement C3 was shown to be up-regulated in all immune-related pathways, indicating that it is a potential protein in this study. This work contributes to a better understanding and clarification of the processes of Salmonella infection in chickens. It might bring up new possibilities for treating and breeding Salmonella-infected chickens.
Źródło:
Polish Journal of Veterinary Sciences; 2023, 26, 2; 265-274
1505-1773
Pojawia się w:
Polish Journal of Veterinary Sciences
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Desorption/ionization on silicon for small molecules: a promising alternative to MALDI TOF.
Autorzy:
Kraj, Agnieszka
Dylag, Tomasz
Gorecka-Drzazga, Anna
Bargiel, Sylwester
Dziuban, Jan
Silberring, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1043452.pdf
Data publikacji:
2003
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
proteomics
porous silicon
catecholamines
peptides
DIOS
mass spectrometry
desorption/ionization
MALDI TOF
Opis:
A method has been developed for laser desorption/ionization of catecholamines from porous silicon. This methodology is particularly attractive for analysis of small molecules. MALDI TOF mass spectrometry, although a very sensitive technique, utilizes matrices that need to be mixed with the sample prior to their analysis. Each matrix produces its own background, particularly in the low-molecular mass region. Therefore, detection and identification of molecules below 400 Da can be difficult. Desorption/ionization of samples deposited on porous silicon does not require addition of a matrix, thus, spectra in the low-molecular mass region can be clearly readable. Here, we describe a method for the analysis of catecholamines. While MALDI TOF is superior for proteomics/peptidomics, desorption/ionization from porous silicon can extend the operating range of a mass spectrometer for studies on metabolomics (small organic molecules and their metabolites, such as chemical neurotransmitters, prostaglandins, steroids, etc.).
Źródło:
Acta Biochimica Polonica; 2003, 50, 3; 783-787
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
New proteases of the chloroplast envelope – what do they do there?
Autorzy:
Adam, Z.
Powiązania:
https://bibliotekanauki.pl/articles/80681.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
protease
chloroplast
thylakoid
proteomics
allene oxide synthase
jasmonic acid
serine protease
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 3
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Sperm mitochondrial dysfunction and oxidative stress as possible reasons for isolated asthenozoospermia
Autorzy:
Nowicka-Bauer, K.
Lepczynski, A.
Ozgo, M.
Kamieniczna, M.
Fraczek, M.
Stanski, L.
Olszewska, M.
Malcher, A.
Skrzypczak, W.
Kurpisz, M.K.
Powiązania:
https://bibliotekanauki.pl/articles/70952.pdf
Data publikacji:
2018
Wydawca:
Polskie Towarzystwo Fizjologiczne
Tematy:
sperm motility
mitochondrial dysfunction
asthenozoospermia
oxidative stress
reactive oxygen species
proteomics
patient
Źródło:
Journal of Physiology and Pharmacology; 2018, 69, 3
0867-5910
Pojawia się w:
Journal of Physiology and Pharmacology
Dostawca treści:
Biblioteka Nauki
Artykuł
Wyświetlanie 1-15 z 32

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