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Search results for: gene cloning
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Identification and properties of the psychrophilic bacterium Desulfolatea psychrophila single-stranded DNA binding proteins
PublicationTo study the biochemical properties of SSB from Desulfolatea psychrophila (DpsSSB), we have cloned the ssb genes obtained by PCR and have developed Escherichia coli overexpression systems. The gene consists of an open reading frame of 426 nucleotides encoding SSB protein of 142 amino acids with a calculated molecular mass of 15.6 kDa and it is the smallest known bacterial SSB protein indentified to date. The amino-acid sequence...
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Antibiotic resistance and prevalence of class 1 and 2 integrons in Escherichia coli isolated from two wastewater treatment plants, and their receiving waters (Gulf of Gdansk, Baltic Sea, Poland)
PublicationIn this study, antimicrobial-resistance patterns were analyzed in Escherichia coli isolates from raw (RW) and treated wastewater (TW) of two wastewater treatment plants (WWTPs), their marine outfalls (MOut), and mouth of the Vistula River (VR). Susceptibility of E. coli was tested against different classes of antibiotics. Isolates resistant to at least one antimicrobial agent were PCR tested for the presence of integrons. Ampicillin-resistant...
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Interactions between polyphenolic antioxidants quercetin and naringenin dictate the distinctive redox-related chemical and biological behaviour of their mixtures
PublicationFood synergy concept is suggested to explain observations that isolated antioxidants are less bioactive than real foods containing them. However, mechanisms behind this discrepancy were hardly studied. Here, we demonstrate the profound impact of interactions between two common food flavonoids (individual: aglycones quercetin—Q and naringenin—N− or their glycosides rutin—R and naringin—N+ vs. mixed: QN− and RN+) on their electrochemical...
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A novel degree-hour method for rational design loading
PublicationCooling degree-hours (CDH) received the broadest application in evaluation of the ambient air cooling efficiency in power engineering (engine intake air cooling systems) and air conditioning. The current CDH numbers are defined as a drop in air temperature multiplied by associated time duration of performance and their summarized annual number is used to estimate the annual effect achieved due to sucked air cooling in power plants...
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SiMiSnoRNA: Collection of siRNA, miRNA, and snoRNA database for RNA Interference
PublicationObjective:The discovery of sequence specific gene silencing which occurs due to the presence of double-stranded RNAs has considerable impact on biology, revealing an unknown level of regulation of gene expression. This process is known as RNA interference (RNAi) or RNA silencing in which RNA molecules inhibit gene expression, typically by causing the destruction of specific mRNA molecule. Two types of small RNA molecules - small...
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Inserts amplification for knockout cassette construction
Open Research DataThe goal of the study was to obtain optimal conditions for amplification of upstream and downstream genes fragments and introduce a cleavage site for restriction enzymes into them thanks to which it will be possible to clone fragments into a plasmid containing elements of the knockout cassette. The constructed cassettes will enable the removal of the...
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Characteristics of the peanut chain in Europe – implications for peanut allergy
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Information Theory and Coding 2023/2024
e-Learning CoursesThe course is an auxiliary tool for completing the subject Information Theory and Coding.
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Sensitive Demonstration of the Twin-Core Couplers including Kerr Law Non-Linearity via Beta Derivative Evolution
PublicationTo obtain new solitary wave solutions for non-linear directional couplers using optical meta-materials, a new extended direct algebraic technique (EDAT) is used. This model investigates solitary wave propagation inside a fiber. As a result, twin couplers are the subject of this study. Kerr law is the sort of non-linearity addressed there. Because it offers solutions to problems with large tails or infinite fluctuations, the resulting...
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Novel application of terminal restriction fragments length polymorphism method (t-RFLP) for identification of six clinically important Candida sp.
PublicationTerminal restriction fragments length polymorphism method (t-RFLP) is a modified classical RFLP method. The main difference is based on carrying out PCR using a fluorescently labeled primer or primers. The result of such modification is that after digestion of amplicons only terminal fragments of PCR product (containing fluorescent dye) are visualized. T-RFLP method has found application in environmental microbiology and epidemiology....
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Expression of a GDSL esterase from Pseudomonas sp. S9 in Pichiapastoris
PublicationCold active lipolytic enzymes are promising to replace the conventional enzymes processes of biotechnological industries. One of the most important feature of the cold-active lipases and esterases is that they offer economic benefits through energy saving. In general, they exhibit high activity at low temperatures and low thermostability at moderate temperatures. Lipolytic enzyme EstS9 was isolated from Pseudomonas sp. S9. A multiple...
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Metaheurystyki w kolorowaniu grafów
PublicationW rozdziale opisano cztery metaheurystyki wykorzystywane w problemie koloro-wania grafów: symulowane wyżarzanie, przeszukiwanie tabu, algorytmy gene-tyczne, algorytmy mrówkowe. Skupiono się głównie na zagadnieniach wykorzys-tania tych metod w badanym problemie.
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Novel single-stranded DNA-binding protein from psyvhrophilic bacterium Psychrobacter arcticus
PublicationTo study the biochemical properties of SSB from Psychrobacter arcticus (ParSSB), we have cloned the ssb genes obtained by PCR and have developed Escherichia coli overexpression systems. The gene consists of an open reading frame of 642 nucleotides encoding SSB protein of 213 amino acids with a calculated molecular mass of 22.8 kDa. The amino-acid sequence of ParSSB exhibits 49% identity and 57% similarity to Escherichia coli SSB....
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DNA methylation in cancer development, diagnosis and therapy-multiple opportunities for genotoxic agents to act as methylome disruptors or remediators
PublicationThe role of DNA methylation and recently discovered hydroxymethylation in the function of the human epigenome is currently one of the hottest topics in the life sciences. Progress in this field of research has been further accelerated by the discovery that alterations in the methylome are not only associated with key functions of cells and organisms, such as development, differentiation and gene expression, but may underlie a number...
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imPlatelet classifier: image‐converted RNA biomarker profiles enable blood‐based cancer diagnostics
PublicationLiquid biopsies offer a minimally invasive sample collection, outperforming traditional biopsies employed for cancer evaluation. The widely used material is blood, which is the source of tumor-educated platelets. Here, we developed the imPlatelet classifier, which converts RNA-sequenced platelet data into images in which each pixel corresponds to the expression level of a certain gene. Biological knowledge from the Kyoto Encyclopedia...
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Population-based case-control study of alpha 1-antitrypsin and SLC11A1 in Crohn's disease and ulcerative colitis.
PublicationBackground: Crohn’s disease (CD) and ulcerative colitis (UC) are chronic inflammatory diseases of the digestive tract. Genetic factors and an abnormal immune response to infections are suspected to be involved in inflammatory bowel diseases. Methods: In the present study 300 blood samples from CD patients (n 100), UC patients (n 100), and healthy controls (n 100) were taken from a population-based case-control study. PCR assays...
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Jerzy H. Czembor Prof. dr hab.
PeopleYear of birth: 1965, Poland, Work address: Plant Breeding and Acclimatization Institute –National research Institute (IHAR-PIB), Radzikow, 05-870 Blonie, Poland. Scientific disciplines: agricultural sciences, plant pathology, plant physiology, genetics. Specialization: phytopathology, mycology, plant genetics, molecular genetics, plant breeding, breeding for disease resistance, biotechnology, evaluation of genetic resources,...
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Search: Workshop on Search, Sorting and Coding
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IMA International Conference on Cryptography and Coding
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The Claude Shannon Workshop on Coding and Cryptography
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Development and Assessment of Regeneration Methods for Peptide-Based QCM Biosensors in VOCs Analysis Applications
PublicationCleaning a quartz crystal microbalance (QCM) plays a crucial role in the regeneration of its biosensors for reuse. Imprecise removal of a receptor layer from a transducer’s surface can lead to unsteady operation during measurements. This article compares three approaches to regeneration of the piezoelectric transducers using the electrochemical, oxygen plasma and Piranha solution methods. Optimization of the cleaning method allowed...
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Properties of recombinant trehalose synthase from Deinococcus radiodurans expressed in Escherichia coli
PublicationA trehalose synthase gene from Deinococcus radiodurans(DSMZ 20539)containing 1659 bp reading frame encoding 552 amino acids was amplified using PCR. The gene was finally ligated into pET30Ek/LIC vector and expressed after isopropyl β-d-thiogalactopyranoside induction in Escherichia coli (DE3) Rosetta pLysS. The recombinanttrehalose synthase (DraTreS) containing a His6-tag at the C-terminus was purified by metal affinity chromatography...
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Thermodynamic analysis of the Compressed Air Energy Storage system coupled with the Underground Thermal Energy Storage
PublicationImprovement of flexibility is one of the key challenges for the transformation of the Polish Power System aiming at a high share of renewable energy in electricity generation. Flexible and dispatchable power plants will contribute to this ongoing transformation process as they compensate for fluctuations in electricity generation from renewable energy sources such as wind and photovoltaics. In this context, CAES storage tanks are...
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Microscopic examination of CuNiFeR pipeline
Open Research DataCopper and nickel alloys called cunifers (Cu, Ni, Fe and R – rest of alloy elements) have found wide application in the production of ship pipeline components in contact with sea water, such as, for example, the main engine cooling system. These alloys are characterized by a very high corrosion resistance, which is ensured by appropriately carried out...
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Macroscopic examination of CuNiFeR pipeline
Open Research DataCopper and nickel alloys called cunifers (Cu, Ni, Fe and R – rest of alloy elements) have found wide application in the production of ship pipeline components in contact with sea water, such as, for example, the main engine cooling system. These alloys are characterized by a very high corrosion resistance, which is ensured by appropriately carried out...
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Docking simulations, Molecular properties and ADMET studies of novel Chromane6,7diol analogues as potential inhibitors of Mushroom tyrosinase
PublicationResearch on inhibition of tyrosinase enzyme has attained significant value, because tyrosinase inhibitors have potential applications in medicine, cosmetics (as whitening agents) and in agriculture (as bioinsecticides). Determination and elucidation of new tyrosinase inhibitors are not only beneficial for medical purposes, but their promising applications in improving food quality and nutritional...
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Metody metagenomiczne w badaniu mikrobiomu jelitowego człowieka
PublicationMikroorganizmy zamieszkujące ciało człowieka to nie tylko komensale i groźne patogeny, ale także organizmy symbiotyczne pełniące kluczową rolę w zachowaniu homeostazy gospodarza. Badania metagenomiczne wykorzystujące techniki sekwen-cjonowania nowej generacji i metody bioinformatyczne pozwalają na dogłębne po-znanie mikrobiomu ludzkiego i poszukiwanie jego związku ze stanem zdrowia czło-wieka. Celem pracy jest omówienie różnych...
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Mechanisms of azole resistance among clinical isolates of Candida glabrata in Poland
PublicationCandida glabrata is currently ranked as the second most frequently isolated aetiological agent of human fungal infections, next only to Candida albicans. In comparison with C. albicans, C. glabrata shows lower susceptibility to azoles, the most common agents used in treatment of fungal infections. Interestingly, the mechanisms of resistance to azole agents in C. albicans have been much better investigated than those in C. glabrata....
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Discrimination of hospital isolates of Acinetobacter baumannii using repeated sequences and whole genome alignment differential analysis
PublicationAn optimized method for bacterial strain differentiation, based on combination of Repeated Sequences and Whole Genome Alignment Differential Analysis (RS&WGADA), is presented in this report. In this analysis, 51 Acinetobacter baumannii multidrug-resistance strains from one hospital environment and patients from 14 hospital wards were classified on the basis of polymorphisms of repeated sequences located in CRISPR region, variation...
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CaZnO-based nanoghosts for the detection of ssDNA, pCRISPR and recombinant SARS-CoV-2 spike antigen and targeted delivery of doxorubicin
PublicationOverexpression of proteins/antigens and other gene-related sequences in the bodies could lead to significant mutations and refractory diseases. Detection and identification of assorted trace concentrations of such proteins/antigens and/or gene-related sequences remain challenging, affecting different pathogens and making viruses stronger. Correspondingly, coronavirus (SARS-CoV-2) mutations/alterations and spread could lead to overexpression...
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Marek Adamowicz dr hab. inż.
PeopleStopień naukowy doktora uzyskał w 2008 r. na Wydziale Elektrotechniki i Automatyki Politechniki Gdańskiej. W latach 2005 – 2011 pracował na Akademii Morskiej w Gdyni. W 2010 r. jako laureat programu NCBR LIDER wybrał Wydział Elektrotechniki i Automatyki Politechniki Gdańskiej jako jednostkę realizującą swój projekt z zakresu szerokopasmowych przyrządów półprzewodnikowych i ich zastosowań w elektrowniach wiatrowych. Od 2011 roku...
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Naturally occurring mitochondrial DNA heteroplasmy in the MRL mouse
PublicationThe MRL/MpJ mouse is an inbred laboratory strain of Mus musculus, known to exhibit enhanced autoimmunity, increased wound healing, and increased regeneration properties. We report the full-length mitochondrial DNA (mtDNA) sequence of the MRL mouse (Accession # EU450583), and characterize the discovery of two naturally occurring heteroplasmic sites. The first is a T3900C substitution in the TpsiCloop of the tRNA methionine gene...
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Deep Learning-Based, Multiclass Approach to Cancer Classification on Liquid Biopsy Data
PublicationThe field of cancer diagnostics has been revolutionized by liquid biopsies, which offer a bridge between laboratory research and clinical settings. These tests are less invasive than traditional biopsies and more convenient than routine imaging methods. Liquid biopsies allow studying of tumor-derived markers in bodily fluids, enabling the development of more precise cancer diagnostic tests for screening, disease monitoring, and...
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A Perspective on Missing Aspects in Ongoing Purification Research towards Melissa officinalis
PublicationMelissa officinalis L. is a medicinal plant used worldwide for ethno-medical purposes. Today, it is grown everywhere; while it is known to originate from Southern Europe, it is now found around the world, from North America to New Zealand. The biological properties of this medicinal plant are mainly related to its high content of phytochemical (bioactive) compounds, such as flavonoids, polyphenolic compounds, aldehydes, glycosides...
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Tensile test of part of CuNiFeR pipeline
Open Research DataCopper and nickel alloys called cunifers (Cu, Ni, Fe and R – rest of alloy elements) have found wide application in the production of ship pipeline components in contact with sea water, such as, for example, the main engine cooling system. These alloys are characterized by a very high corrosion resistance, which is ensured by appropriately carried out...
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Genetic Variability of Hepatitis B Virus Isolates in Poland
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Dissection of σE‐dependent cell lysis in Escherichia coli: roles of RpoE regulators RseA, RseB and periplasmic folding catalyst PpiD
PublicationTo understand the mechanism of sigma(E)-dependent cell lysis, we examined the consequences of deletion derivatives of rpoE regulators rseA, rseB and rseC on sigma(E) transcription, on levels of free versus membrane-bound sigma(E) and on OMP-biogenesis limiting factor(s) that could impact cell lysis. RT-PCR showed that individual nonpolar DeltarseA and DeltarseB increased the rpoE expression to varying extents, with pronounced induction...
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matK sequences alignment of Oncidium Sw. species
Open Research DataComparison of matK gene sequences of 28 species of Oncidium Sw.. Alignment was created using Clustal Omega ver.1.2.4 in SnapGene software 7.1.1.
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Dataset of non-isomorphic graphs being coloring types (K5-e,Km-e;n), 2<m<5, 1<n<R(K5-e,Km-e)
Open Research DataFor K5-e and Km-e graphs, the type coloring (K5-e,Km-e;n) is such an edge coloring of the full Kn graph, which does not have the K5-e subgraph in the first color (no edge in the graph) or the Km-e subgraph in the second color (exists edge in the graph). Km-e means the full Km graph with one edge removed.The Ramsey number R(K5-e,Km-e) is the smallest...
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Dataset of non-isomorphic graphs being coloring types (K3-e,Km-e;n), 2<m<8, 1<n<R(K3-e,Km-e)
Open Research DataFor K3-e and Km-e graphs, the type coloring (K3-e,Km-e;n) is such an edge coloring of the full Kn graph, which does not have the K3-e subgraph in the first color (no edge in the graph) or the Km-e subgraph in the second color (exists edge in the graph). Km-e means the full Km graph with one edge removed.The Ramsey number R(K3-e,Km-e) is the smallest...
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Dataset of non-isomorphic graphs being coloring types (K4-e,Km-e;n), 2<m<7, 1<n<R(K4-e,Km-e)
Open Research DataFor K4-e and Km-e graphs, the type coloring (K4-e,Km-e;n) is such an edge coloring of the full Kn graph, which does not have the K4-e subgraph in the first color (no edge in the graph) or the Km-e subgraph in the second color (exists edge in the graph). Km-e means the full Km graph with one edge removed.The Ramsey number R(K4-e,Km-e) is the smallest...
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Dataset of non-isomorphic graphs being coloring types (K6-e,Km-e;n), 2<m<5, 1<n<R(K6-e,Km-e)
Open Research DataFor K6-e and Km-e graphs, the type coloring (K6-e,Km-e;n) is such an edge coloring of the full Kn graph, which does not have the K6-e subgraph in the first color (no edge in the graph) or the Km-e subgraph in the second color (exists edge in the graph). Km-e means the full Km graph with one edge removed. The Ramsey number R(K6-e,Km-e) is the smallest...
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THERMAL ANALYSIS AND DESIGN OF HYBRID MICROCHANNEL -MICROJET TEST PROBE
PublicationAccurate control of cooling parameters is required in ever wider range of technical applications. It is known that reducing the flow hydraulic diameter to an increase in the economy of cooling and improves its quality (Mikielewicz and Muszyński 2009). Present study describes research results related to the design and construction of the test stand for hybrid microjet- microchannel cooling modules study, which may be applied in...
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T cell Activation Is Driven by an ADP-Dependent Glukosinase Linking Enhanced Glycolysis with Mitochondrial Reactive Oxygen Species Generation
PublicationMitochondria-originating reactive oxygen species control T cell receptor (TCR)-induced gene expression. Here, we show that TCR-triggered activation of ADP-dependent glucokinase (ADPGK), an alternative, glycolytic enzyme typical for Archaea, mediates generation of the oxidative signal. We also show that ADPGK is localized in the endoplasmic reticulum and suggest that its active site protrudes toward the cytosol. The ADPGK-driven...
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No-Wait & No-Idle Open Shop Minimum Makespan Scheduling with Bioperational Jobs
PublicationIn the open shop scheduling with bioperational jobs each job consists of two unit operations with a delay between the end of the first operation and the beginning of the second one. No-wait requirement enforces that the delay between operations is equal to 0. No-idle means that there is no idle time on any machine. We model this problem by the interval incidentor (1, 1)-coloring (IIR(1, 1)-coloring) of a graph with the minimum...
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Marek Kubale prof. dr hab. inż.
PeopleDetails concerning: Qualifications, Experiences, Editorial boards, Ph.D. theses supervised, Books, and Recent articles can be found at http://eti.pg.edu.pl/katedra-algorytmow-i-modelowania-systemow/Marek_KubaleGoogle ScholarSylwetka prof. Marka Kubalego Prof. Marek Kubale pracuje na Wydziale ETI Politechniki Gdańskiej nieprzerwanie od roku 1969. W tym czasie napisał ponad 150 prac naukowych, w tym ponad 40 z listy JCR. Ponadto...
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Krzysztof Genc
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Rene Vidal
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Utilizing Genome-Wide mRNA Profiling to Identify the Cytotoxic Chemotherapeutic Mechanism of Triazoloacridone C-1305 as Direct Microtubule Stabilization
PublicationRational drug design and in vitro pharmacology profiling constitute the gold standard in drug development pipelines. Problems arise, however, because this process is often dicult due to limited information regarding the complete identification of a molecule’s biological activities. The increasing aordability of genome-wide next-generation technologies now provides an excellent opportunity to understand a compound’s diverse eects...
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International Workshop on Algebraic and Combinatorial Coding Theory
Conferences