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Wyszukujesz frazę "proteomics" wg kryterium: Wszystkie pola


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:
Proteomics of E.coli Nissle 1917 in response to Cocos nucifera sap and wine
Autorzy:
Chandrasekhar, K
Pramoda Kumari, J.
Powiązania:
https://bibliotekanauki.pl/articles/11862.pdf
Data publikacji:
2015
Wydawca:
Przedsiębiorstwo Wydawnictw Naukowych Darwin / Scientific Publishing House DARWIN
Tematy:
proteomics
Escherichia coli
plant response
coconut palm
Cocos nucifera
sap
wine
protein
probiotic
identification
scanning
Opis:
In the present study, we described the protein profile experimentally by 2D-PAGE and MALDI analysis to understand the stress mechanisms of cocoti sap and wine on E.coli Nissle 1917. We isolated one newly expressed protein from cocoti wine treated gel which is not present in both control and cocoti sap treated sample i.e. P21 prophage-derived head-stabilizing proteinVG03_ECOL6 (3n1) also called as Head protein gp3. This protein mainly activities related to the viral life cycle. It helps to attach the viral gene into host. The growth rate was delayed in cocoti wine treated E.coli Nissle 1917 when compared to control and cocoti sap treated samples. Stress mechanism induce many proteins they are involved in metabolic process, hydrolase activity, lyase activity, quinone binding, phosphotransferase system, carbohydrate metabolism, DNA binding, DNA repair, transferase activity, oxidoreductase, purine metabolism, transcription antitermination, transcription regulation and other related activities. We proved that the predicted protein structure quality, resolution, density and error plot values by QMEAN analysis. Based on these results, only two differentially expressed proteins under sap stress showed that the significant results, which were N-acetylgalactosamine-specific phosphotransferase enzyme IIB component 1, PTPB1_ECOLI and DinI-like protein Z3305/ECs2939 in prophage CP-933VDINI1_ECO57. In case of wine stress, the differentially expressed proteins were Transcription anti-termination protein RFAH- ECO57 NusA and PUR7- eco24- phosphoribosylamidazole-succinocarboxamide synthase showed significant results. ProtParam analysis indicating that the multiple physico-chemical characters of differentially expressed proteins were differed and compared. The phylogenetic tree represents the relationship in-between the differentially expressed proteins, were showed siblings (related) as well as monophytic clade.
Źródło:
International Letters of Natural Sciences; 2015, 41
2300-9675
Pojawia się w:
International Letters of Natural Sciences
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A short review on proteomics and its applications
Autorzy:
Chandrasekhar, K.
Dileep, A.
Lebonah, D.E.
Pramoda Kumari, J.
Powiązania:
https://bibliotekanauki.pl/articles/11309.pdf
Data publikacji:
2014
Wydawca:
Przedsiębiorstwo Wydawnictw Naukowych Darwin / Scientific Publishing House DARWIN
Tematy:
proteomics
application
protein function
protein structure
stress condition
metabolism
2-D electrophoresis
disease treatment
novel protein
Opis:
Proteomics is the large scale of study of proteins, particularly their function and structure. Proteomics is an excellent approach for studying changes in metabolism in response to different stress conditions. In the present review focused on different types of techniques for the analysis of expressed proteins. The techniques includes 2-D gel electrophoresis, MALDI-TOF/MS etc., play a vital role for the analysis of novel proteins and their role in disease maintenance and treatment. The review also concentrated on applicative perspective of proteomics in the fields of biomedical, agriculture and food.
Źródło:
International Letters of Natural Sciences; 2014, 12, 1
2300-9675
Pojawia się w:
International Letters of Natural Sciences
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:
Redox-mediated regulation of wheat seed dormancy revealed through modification-specific proteomics
Autorzy:
Bykova, N.
Hoehn, B.
Rampitsch, C.
Hu, J.
Fan, T.
Powiązania:
https://bibliotekanauki.pl/articles/80787.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
seed dormancy
wheat
Triticum aestivum
reactive oxygen species
hormonal balance
cysteine
proteomics
abiotic stress
biotic stress
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 2
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
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:
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:
DIAGNOSTIC POTENTIAL OF SELECTED SALIVARY PROTEOMICS FOR AUTONOMIC NERVOUS SYSTEM ACTIVITY ASSESSMENT
Autorzy:
Dobrek, Lukasz
Powiązania:
https://bibliotekanauki.pl/articles/2137800.pdf
Data publikacji:
2020-05-14
Wydawca:
Fundacja Edukacji Medycznej, Promocji Zdrowia, Sztuki i Kultury Ars Medica
Tematy:
saliva
vasoactive intestinal peptide
neuropeptide Y
chromogranin A
α-amylase
Opis:
The clinical assessment of autonomic nervous system (ANS) functioning, enabling the diagnosis of autonomic neuropathy present in the course of many diseases, is currently based on performing simple cardiovascular reflexes (Ewing tests), analyzing heart rate variability (HRV) or heart rate turbulence (HRT), examining skin sweating or recording neurophysiological tests (e.g. microneurography). Laboratory assessment of ANS function is very scarce and practically only includes the plasma assessment of noradrenaline as a surrogate for the biochemical indicator of sympathetic activity. Recently, the possibility of evaluation of selected compounds present in saliva as laboratory markers of not only oral diseases but also systemic diseases has been raised. This work focuses on a brief description of the anatomy and physiology of the salivary glands and describes the formation of saliva, its composition and the use of this bodily fluid in laboratory diagnostics. In addition, the paper specifically discusses the possibility of determining selected compounds that are considered to reflect autonomic activity. A review of the literature indicates primarily four proteomics: two neuropeptides (vasoactive intestinal peptide (VIP) and neuropeptide Y (NPY) that are co-transmitters in autonomic fibers, chromogranin A, a synaptic vesicle protein and α-amylase, a hydrolytic enzyme pre-digesting carbohydrates in the oral cavity. These are currently the most widely investigated agents for their usefulness as laboratory markers of ANS activity.
Źródło:
Acta Neuropsychologica; 2020, 18(2); 285-303
1730-7503
2084-4298
Pojawia się w:
Acta Neuropsychologica
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:
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:
Progress and challenges in the proteomics of domestic pig in research on the female reproductive system
Autorzy:
Kolakowska, J.
Franczak, A.
Saini, Ravi Kanth Rao
Souchelnytskyi, Serhiy
Powiązania:
https://bibliotekanauki.pl/articles/961364.pdf
Data publikacji:
2016
Wydawca:
Uniwersytet Warmińsko-Mazurski w Olsztynie / Polskie Towarzystwo Magnezologiczne im. Prof. Juliana Aleksandrowicza
Opis:
The proteomics of pigs is developing dynamically, attracting much attention among representatives of medical and health sciences, veterinary medicine, agricultural and natural sciences. The pig has been widely studied in genetics and genomics. However, proteomic applications are still awaiting more extensive implementation, both in the use of pigs as animal models in biomedicine sciences, and in the exploration of physiological tracts important for pig production. Underdeveloped databases for identification and analysis of porcine proteins as well as the scarcity of detailed information on similarities and differences between humans and pigs at the molecular level are hampering the pig proteomics. However, the use of pigs in proteomic studies in both physiological and biomedical sciences is prevalent comparing to other farm animals. The focus of the reported pig model proteomics studies is on exploring physiology and diseases, and on improving pig breading and productivity. This species has been used as a model in proteomics studies involved in ocular, brain, nutritional and reproduction research, etc. In the present paper we discuss technologies and bioinformatic tools used in studies of a proteome to verify the peptide- and protein-based content and we summarize the current status of proteomic studies of pigs. We focus on studies of the female reproductive system because the examination and understanding of the biology of oocytes, the oviduct and the uterus could facilitate the identification of mechanisms involved in the prenatal development, and it may help to develop new treatment for infertility of farm animals.
Źródło:
Journal of Elementology; 2016, 21, 4
1644-2296
Pojawia się w:
Journal of Elementology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Renal function during metabolic acidosis
Autorzy:
Kurpinska, A.K.
Skrzypczak, W.F.
Powiązania:
https://bibliotekanauki.pl/articles/3008.pdf
Data publikacji:
2010
Wydawca:
Instytut Medycyny Wsi
Tematy:
renal function
metabolic acidosis
acid-case imbalance
acid-base homeostasis
renal tubule
excretion
reabsorption
proteomics
Źródło:
Journal of Pre-Clinical and Clinical Research; 2010, 04, 1
1898-2395
Pojawia się w:
Journal of Pre-Clinical and Clinical Research
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:
Mass spectrometry approaches in proteomic and metabolomic studies
Autorzy:
Rodziewicz, P.
Swarcewicz, B.
Chmielewska, K.
Powiązania:
https://bibliotekanauki.pl/articles/80650.pdf
Data publikacji:
2014
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
proteomics
metabolomics
genomic DNA
nuclear magnetic resonance
mass spectrometry
Fourier transform infrared spectroscopy
Raman spectroscopy
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2014, 95, 3
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Oxidative signalling in seed germination and dormancy
Autorzy:
Bailly, C.
Powiązania:
https://bibliotekanauki.pl/articles/81220.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
seed dormancy
germination
genetic background
environment condition
abscisic acid
gibberellin
reactive oxygen species
Arabidopsis
proteomics
transcriptomics
transduction
hormone signalling
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 2
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
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:
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:
Forest tree research in post genomic era. Introduction to systems biology of broadleaves
Autorzy:
Staszak, A.M.
Pawlowski, T.A.
Powiązania:
https://bibliotekanauki.pl/articles/41059.pdf
Data publikacji:
2012
Wydawca:
Polska Akademia Nauk. Instytut Dendrologii PAN
Tematy:
forest tree
tree
genomics
proteomics
woody plant
biology
broadleaf
plant reproduction
plant physiology
Opis:
Trees are long living organisms, rarely used in molecular experiments because of large size of the genome and long time of reproduction cycle. Sequencing data from Populus trichocarpa genome allowed for the development of research on the processes associated with tree biology such as secondary wood formation, long-term perennial growth, seasonal changes, biotic interactions, evolution etc. Reference data enable the investigation of non-model trees such as Quercus or Fagus, having ecological and economic significance. During projects scientists use genomic, transcriptomic, proteomic and metabolomic approaches which contribute to better understanding of the physiological processes regulating tree biology. Data collected from these multiple studies need to be integrated. The integration of data is the subject of the newly established field of science called systems biology. This review presents progress in tree research after finishing the sequencing project of Populus. It concentrates on modern trends in 'omics' and systems biology study of temperate broadleave trees during the last 10 years of studies.
Źródło:
Dendrobiology; 2012, 68
1641-1307
Pojawia się w:
Dendrobiology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
High throughput protein production
Autorzy:
Tworak, A.
Podkowinski, J.
Figlerowicz, M.
Powiązania:
https://bibliotekanauki.pl/articles/80317.pdf
Data publikacji:
2011
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
activity
cloning
DNA sequencing
expression
high throughput
human genome
Human Genome Project
large scale proteomics
new technology
protein folding
protein production
purification
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2011, 92, 2
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
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:
A proteomics approach to identify the differential protein level in cardiac muscle of diabetic rat
Autorzy:
Karthik, Dhanaraj
Vijayakumar, Ravichandran
Pazhanichamy, Kalailingam
Ravikumar, Sivanesan
Powiązania:
https://bibliotekanauki.pl/articles/1039290.pdf
Data publikacji:
2014
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
diabetes mellitus
cardiac muscle proteome
2D electrophoresis
MALDI-TOF-MS
phylogenetic analysis
Opis:
Background: Cardiovascular proteomics investigation reveals the characterization and elucidation of the novel therapeutic targets and strategies to prevent the development of heart failure associated diabetic complication by using 2DE and MS. Methods: The experimental animals were made diabetic with a single intraperitoneal injection of alloxan (150 mg/kg of bw). Albino rats were randomly divided into four individual groups: Group-I control (n=6), group-II alloxan-induced diabetic rats, untreated (n=6), group-III (n=6) and group-IV (n=6) alloxan-induced diabetic rats were treated with aqueous and ethanolic extracts of Cynodon dactylon for 15 days, respectively. Animals were euthanized to collect the heart tissues and blood samples. 2DE sample preparation, gel running and staining (n=6: each groups) were performed at the same time to avoid variation. The result of six gel images from each group were analyzed and evaluated as one match set with 2D software (P<0.05). Results: The above experiment revealed two up-regulated proteins in group-II i.e. NTF4 and ETFB. Conclusions: NTF4 is a neuro-protective agent for neuro-degenerative diseases. It will prevent diabetic secondary complications, such as diabetic polyneuropathy and cardiomyopathy. ETFB is active in the mitochondria, the energy-producing centres in cells. It is clear from the experiment that because of up-regulation of ETFB more energy is availabile and the electron transfer for heart during diabetes is possible, what leads to reduce the oxidative stress and free-radical formation. The up-regulated proteins reduced CVD that occurred just before overt hyperglycaemia due to administration of C. dactylon. This approach established the preliminary reference map for decoding cellular mechanisms linked between pathogenesis CVD and diabetes.
Źródło:
Acta Biochimica Polonica; 2014, 61, 2; 285-293
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Electronegativity and intrinsic disorder of preeclampsia-related proteins
Autorzy:
Polanco, Carlos
Castañón-González, Jorge
Uversky, Vladimir
Buhse, Thomas
Samaniego Mendoza, José
Calva, Juan
Powiązania:
https://bibliotekanauki.pl/articles/1038693.pdf
Data publikacji:
2017
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
preeclampsia
intrinsically disordered proteins
structural proteomics
bioinformatics
antimicrobial peptides
polarity index method
lipoproteins
angiogenesis proteins
Opis:
Preeclampsia, hemorrhage, and infection are the leading causes of maternal death in underdeveloped countries. Since several proteins associated with preeclampsia are known, we conducted a computational study which evaluated the commonness and potential functionality of intrinsic disorder of these proteins and also made an attempt to characterize their origin. The origin of the preeclampsia-related proteins was assessed with a supervised technique, a Polarity Index Method (PIM), which evaluates the electronegativity of proteins based solely on their sequence. The commonness of intrinsic disorder was evaluated using several disorder predictors from the PONDR family, the charge-hydropathy plot (CH-plot) and cumulative distribution function (CDF) analyses, and using the MobiDB web-based tool, whereas potential functionality of intrinsic disorder was studied with the D2P2 resource and ANCHOR predictor of disorder-based binding sites, and the STRING tool was used to build the interactivity networks of the preeclampsia-related proteins. Peculiarities of the PIM-derived polar profile of the group of preeclampsia-related proteins were then compared with profiles of a group of lipoproteins, antimicrobial peptides, angiogenesis-related proteins, and the intrinsically disordered proteins. Our results showed a high graphical correlation between preeclampsia proteins, lipoproteins, and the angiogenesis proteins. We also showed that many preeclampsia-related proteins contain numerous functional disordered regions. Therefore, these bioinformatics results led us to assume that the preeclampsia proteins are highly associated with the lipoproteins group, and that some preeclampsia-related proteins contain significant amounts of functional disorders.
Źródło:
Acta Biochimica Polonica; 2017, 64, 1; 99-111
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Identification of mare colostrum proteins
Identyfikacja bialek siary klaczy – badania wstępne
Autorzy:
Medeńska, W.
Dratwa-Chałupnik, A.
Ożgo, M.
Cichy, A.
Pikuła, R.
Bobik, J.
Powiązania:
https://bibliotekanauki.pl/articles/3131472.pdf
Data publikacji:
2020
Wydawca:
Zachodniopomorski Uniwersytet Technologiczny w Szczecinie. Wydawnictwo Uczelniane ZUT w Szczecinie
Tematy:
colostrum
mare
proteomics
animal feeding
functional protein
foal growth
development
two-dimensional electrophoresis
Źródło:
Acta Scientiarum Polonorum. Zootechnica; 2020, 19, 4; 25-31
1644-0714
Pojawia się w:
Acta Scientiarum Polonorum. Zootechnica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A novel approach for identifying DNA repair pathways proteins using an evolutionary approach: Plasmodium falciparum case study
Autorzy:
Milanowska, K.
Wojtczak, J.
Powiązania:
https://bibliotekanauki.pl/articles/80413.pdf
Data publikacji:
2016
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
DNA repair
pathway
ortholog
pipeline
Plasmodium falciparum
proteomics
protein
profile analysis
Hidden Markov model
multiple sequence alignment
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2016, 97, 4
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Method for mass spectrometry spectrum deisotoping based on fuzzy inference systems
Autorzy:
Glodek, Anna
Polańska, Joanna
Powiązania:
https://bibliotekanauki.pl/articles/747419.pdf
Data publikacji:
2018
Wydawca:
Polskie Towarzystwo Matematyczne
Tematy:
fuzzy logic, fuzzy inference systems, deisotoping, mass spectrometry, algorithms, proteomics, applied mathematics
fuzzy logic, fuzzy inference systems, deisotoping, mass spectrometry, algorithms, MALDI ToF
Opis:
Celem niniejszego artykułu jest omówienie zaproponowanego algorytmu do identyfikacji obwiedni izotopowych, opartego na teorii systemów rozmytych. Obecnie proteomika jest ściśle powiązana z chorobami nowotworowymi. Dlatego też bardzo ważne jest precyzyjne zidentyfikowanie białek znajdujących się w obszarze raka; stosowana jest w tym celu spektrometria masowa. Jedną z technik spektrometrii masowej jest MALDI. Otrzymane dane będące widmem masowym składają się ze stosunku masy do ładunku jonów oraz intensywnosci pików. W celu przetworzenia danych, usunięcia szumu, linii bazowej etc. stosuje się przetwarzanie wstępne. Identyfikacja obwiedni izotopowych jest częścią procesu przetwarzania wstępnego w proteomice. Polega ona na identyfikacji izotopów wchodzących w skład obwiedni izotopowej, a także pozwala na zredukowanie wymiaru danych. Istnieje wiele algorytmów do identyfikacji obwiedni izotopowej, jednak każdy z nich dedykowany jest dla innego rodzaju techniki spektrometrii masowej (MALDI, LC-MS, ESI, etc.) bądź dla konkretnego rodzaju cząsteczek. Dlatego też zaproponowany algorytm został oparty na teorii systemów rozmytych, a reguły wnioskowania zostały oparte na wieloletnich doświadczeniach eksperta w dziedzinie spektrometrii masowej. Przetestowany był on na danych uzyskanych z Instytutu Onkologii im. Marii Skłodowskiej-Curie w Gliwicach, pochodzących z badań nad rakiem głowy i szyi dla losowo wybranej grupy peptydów i lipidów. Wyniki autorskiego algorytmu do identyfikacji obwiedni izotopowych porównano z jedną z istniejących metod do identyfikacji obwiedni izotopowych.
Nowadays, mass spectrometry is widely used in proteomics for confident and precise identification of the protein. One of the most important steps in the signal analysis is deisotoping because some peaks in the spectrum are not the unique compound, but there are members of an isotopic envelope. Although the mass spectrometry is present in proteomics for a long time already, the problem of isotope peaks identification is not solved yet. The existing algorithms, usually designed for the particular type of spectrometer, are semi-supervised and do not give satisfactory results. We propose a new algorithm based on fuzzy inference systems that can accurately identify the isotopic envelopes in the spectrum of the complex structure.
Źródło:
Mathematica Applicanda; 2018, 46, 1
1730-2668
2299-4009
Pojawia się w:
Mathematica Applicanda
Dostawca treści:
Biblioteka Nauki
Artykuł

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