Search results for: whole-genome sequencing
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Increasing K-Means Clustering Algorithm Effectivity for Using in Source Code Plagiarism Detection
PublicationThe problem of plagiarism is becoming increasingly more significant with the growth of Internet technologies and the availability of information resources. Many tools have been successfully developed to detect plagiarisms in textual documents, but the situation is more complicated in the field of plagiarism of source codes, where the problem is equally serious. At present, there are no complex tools available to detect plagiarism...
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ABSORPCJA, METABOLIZM I ROLA BIOLOGICZNA KWASÓW NUKLEINOWYCH OBECNYCH W ŻYWNOŚCI
PublicationKwasy nukleinowe należą do niedocenianych składników żywności, szczególnie surowej lub nisko przetworzonej. W niniejszej publikacji skupiono się na omówieniu przemian, jakim podlegają kwasy nukleinowe w przewodzie pokarmowym człowieka, procesie absorpcji nukleotydów oraz nukleozydów z przewodu pokarmowego, a także przedstawiono podstawowe etapy ich metabolizmu w komórkach organizmu. Produkty trawienia kwasów nukleinowych stanowią...
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A mechanistic model for fate and removal of estrogens in biological nutrient removal activated sludge systems
PublicationTwo estrogen fate and transformation models were integrated with a comprehensive activated sludge model (ASM) to predict estrogen removal based on biomass and solids production. Model predictions were evaluated against published full-scale plant data as well as results from a laboratory-scale sequencing batch reactor (SBR) fed synthetic wastewater. The estrogen fate model relating the rate of total estrogen degradation to soluble...
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Przydział narzędzi obróbkowych a efektywność szeregowania zadań produkcyjnych
PublicationThe paper addresses issues concerning the analysis of tool flow within a multi-machine machining cell, designated to small batch manufacturing a definite spectrum of prismatic parts. The approach utilises a method for job and tool allocation to work centres with limited number of machines and capacity of tool resources, based on the analysis of formalised relations: job - tool sets required. Selected allocation strategies are considered...
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Example of utilization of permeabilized microbial cells
PublicationThe benefits of using whole bacterial cells not only exclude expensive, laborious protein isolation and purification but also stabilize enzymes by cytosol components. Increase in activity of the cells can be achieved by cells permeabilization.
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Investigation of Microbes in the Stratosphere – Stardust Project
PublicationThe stratospheric microbiota has been investigated many times using the methods of classical microbiology. In this research a few modern methods, including NGS sequencing and multiple displacement amplification of DNA, were in use. The analysis of metagenome helped to determine the content of various species of bacteria in the sample collected in the stratosphere by a hydrogen-filled balloon holding...
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Novel DNA-binding protein from Nanoarchaeum equitans Kin4-M binds all kinds of nucleic acids
PublicationNanoarchaeum equitans is the only known representative of Archaea phylum Nanoarchaeota and stands out as one of the tiniest known living organism. What is more it has smallest genome, which is only 490.885 base pairs long. It is also one of the most compact genomes. According to predictions about 95% of the DNA encodes proteins or stable RNA. Nanoarchaeum equitans lacks genes for most vital metabolic pathways including lipid, cofactor,...
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Euro 2012 in Gdańsk, Poland. Is it worth using public funds?
PublicationThe aim of this study is to estimate the willingness - to - pay (WTP) among the community of the Pomeranian region, Poland in connection with intangible benefits and costs st emming from hosting the Euro 2012 in Gdansk. A survey conducted among 407 respondents was the source of information. The results of the study show that the average value of WTP benefit for the whole sample was 45,72 PLN2012 and WTP cost...
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Comparative Study of Machining Technology Selection to Manufacture Large-Size Components of Offshore Constructions
PublicationThe focus of this paper is on process planning for large parts manufacture in systems of definite process capabilities, involving the use of multi-axis machining centres. The analysis of machining heavy mechanical components used in off-shore constructions has been carried out. Setup concepts applied and operation sequences determined in related process plans underwent studies. The paper presents in particular a reasoning approach...
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Inhibition of the granular anammox process by the high concentration of free ammonia.
PublicationHigh concentrations of ammonia and nitrite, typical for reject water treatment in the anammox process with the use of high temperatures and pH, may cause free ammonia (FA) inhibition. In this study, the inhibitory effect of FA on anammox process rate was investigated in a bench-scale sequencing batch reactor (SBR) with granular anammox biomass. Results of the study present that the anammox process could be successfully operated...
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Designing control strategies of aeration system in biological WWTP
PublicationThe paper presents the complete design processes of a novel aeration control systems in the SBR (Sequencing Batch Reactor) wastewater treatment plant (WWTP). Due to large energy expense and high influence on biological processes, the aeration system plays a key role in WWTP operation. The paper considers the aeration system for a biological WWTP located in the northeast of Poland. This system consists of blowers, the main collector...
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Modeling SARS‐CoV‐2 proteins in the CASP‐commons experiment
PublicationCritical Assessment of Structure Prediction (CASP) is an organization aimed at advancing the state of the art in computing protein structure from sequence. In the spring of 2020, CASP launched a community project to compute the structures of the most structurally challenging proteins coded for in the SARS-CoV-2 genome. Forty-seven research groups submitted over 3000 three-dimensional models and 700 sets of accuracy estimates on...
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Simple and low-cost wireless voting system
PublicationThis paper presents the concept of a simple and low-cost wireless voting system working on the 868 MHz frequency band. Described system is dedicated to general shareholders assemblies but it can be easily adapted for other applications. The main advantage is its simplicity and mobility as it consists solely of three components - voting modules, base station and a PC application from which the whole system is managed. This architecture...
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Simple and low-cost wireless voting system
PublicationThis paper presents the concept of a simple and low-cost wireless voting system working in the 868 MHz frequency band. The described system is dedicated to general shareholders assemblies but it can be easily adapted for other applications. The main advantage is its simplicity and mobility as it consists solely of three components - voting modules, a base station and a PC application from which the whole system is mamaged. This...
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Rapid Assays for Specific Detection of Fungi of Scopulariopsis and Microascus Genera and Scopulariopsis brevicaulis Species
PublicationPurpose Fungi of Scopulariopsis and Microascus genera cause a wide range of infections, with S. brevicaulis being the most prevalent aetiological agent of mould onychomycosis. Proper identification of these pathogens requires sporulating culture, which considerably delays the diagnosis. So far, sequencing of rDNA regions of clinical isolates has produced ambiguous results due to the lack of reference sequences in publicly available...
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Structure and the Biochemical Potential of the Bacterial Community in Wastewater Treatment Plant Effluent and in Receiving Waters: Northern Poland Case Study
PublicationWastewater treatment processes are monitored mainly in terms of biogenic substance removal efficiency. Little is known about the treated wastewater microbiome and its influence on the recipient. In this study, a wide range of methods (cultivation, microscopic analysis, New Generation Sequencing and Real Time PCR) were employed to determine the bacterial community composition of the treated wastewater and its receiver. Preliminary...
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Simplified stability analysis of steel cylindrical silos with corrugated walls and vertical columns
PublicationIn the paper a simplified stability analysis of steel cylindrical silos composed of corru¬gated walls and vertical open-sectional columns was proposed. The whole 3D silo was modeled as a single column resting on elastic foundation provided by the silo walls. In proposed formula for the calculation of the foundation stiffness the curvature of the silo walls was taken into account. Three different analyses were carried out using...
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CORROSION TESTING OF SAMPLES ACCORDING TO ASTM G36
PublicationAt the end of the study, samples were found to have structures characteristic for intercrystalline corrosion. This indicates that the samples provided (fragments of the whole) were sensitized before starting the study in boiling MgCl2.On cross sections, fine cracks are observed on all samples tested.
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Epigenetic regulation and regeneration: the search for differentially methylated genes in the MRL mouse
PublicationThe MRL mouse is an inbred laboratory strain, which was developed in the 60’s of the 20th century and has been extensively used as a model of lupus erythematosus. The regenerative abilities of the strain were discovered in the 90' when the MRL mouse was shown to close 2 mm hole punches made in the ear pinnae four weeks after injury without scarring. The phenomenon has not been observed in other mouse strains, where the holes...
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Monument of History in Gdynia - Problems with Protection of the Main Representative Axis of the City
PublicationThe spatial idea of the main representative axis was presented in 1938 in the project of the Representative District of Gdynia and partly realised in 1938-1939. Although the whole area was included in the Gdynia's Monument of History, now its spatial integration is on thread by the controversial current development plans
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The influence of selenium addition during germination of Brassica seeds on health-promoting potential of sprouts
PublicationThe correlation among selenium uptake, the content of bioactive compounds in sprouts, and biological activities triggered in cultured human cells by sprout extracts was investigated. Seeds of Brassica crops and rye were treated with SeO2 water solution. The selenium levels in sprouts increased from 1.0-4.1 to 53.3-382 μg/g dw with no influence on plant physiology according to the indices used. Neither the composition of glucosinolates...
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Case Study on the Use of Unmanned Aerial Vehicles for the Maintenance of Ocean Engineering Facilities
PublicationThe article presents the concept of using innovative unmanned aerial vehicles (UAVs), including autonomous UAV-I for inspection activities, auxiliary and transport works in the processes of servicing large-scale ocean engineering structures in the offshore part of the sea. The proposed areas of application of UAV-I devices and key technologies determining the possibility of using these vehicles in difficult operating conditions...
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MIC1-MAG1-SAG1 chimeric protein, a most effective antigen for detection of human toxoplasmosis
PublicationThis study describes a Toxoplasma gondii IgG ELISA test based on a new chimeric antigen containing three immunodominant regions from MIC1, MAG1 and SAG1 proteins of a parasite and shows that this test is useful for diagnostic purposes and may replace the lysed and whole-cell antigens.
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The Application of Fibres from Recycled Postconsumer Tyres for Concrete Reinforcement
PublicationPoland as a Member State is obliged to implement the EU specific environmental legislation focused on the reduction, transport and treatment of waste. The Landfill Directive prohibited the landfilling of whole tyres and their by-products. Although the EU Directive of Waste limits the use of tyres as secondary fuel, Poland is still the EU leader in burning tyres in cement kilns. Post-consumer tyres are utilised in a number of...
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Buckling Analysis of Cold Formed Silo Column
PublicationThe paper is devoted to stability analysis of different models of steel cold formed silo column. The steel cylindrical silos are often composed of corrugated walls and vertical open-sectional columns uniformly placed along the silo circumference. Both the whole 3D silo, a simplified model consisting of one column with a part of the silo walls, and a single column resting on elastic foundation provided by the silo walls were analyzed....
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Sulfammox process_task 1
Open Research DataAnaerobic ammonia-oxidizing bacteria have a more comprehensive metabolism thanexpected - there may be other electron acceptors that oxidize ammonium nitrogen under anaerobicconditions, in addition to the well-known nitrite nitrogen, one of which is sulfate in the sulfammoxprocess. Sulfate-containing compounds are part of the medium for the anammox process,...
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Why Are Left-Handed G-Quadruplexes Scarce?
PublicationG-quadruplexes (G4s) are nucleic acid structures crucial for the regulation of gene expression and genome maintenance. While they hold promise as nanodevice components, achieving desired G4 folds requires understanding the interplay between stability and structural properties, like helicity. Although right-handed G4 structures dominate the experimental data, the molecular basis for this preference over left-handed helicity is unclear....
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The Factors Affecting Group Identity of Cluster Structures
PublicationThe paper provides a new approach to cluster analysis, basing on a sociologically rooted concept of identity. The authors state that identity in cluster structures is formed by two main groups of factors – uncontrollable or slightly controllable factors (identity mix) and factors that can be fully controlled by a cluster initiative (corporate identity mix). It means that the cluster coordinator is able to consciously build the...
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ESTIMATION OF THE WILLINGNESS-TO-PAY FOR PRESERVING THE FOOTBALL ARENA IN GDANSK
PublicationThe European Football Championship (Euro 2012) organized in Poland became the pretext for a number of infrastructural changes. A high level of expenditure makes the Polish event the most expensive among events of this magnitude. The fact that these changes were 100% financed by public funds raises the question of whether these funds were used in a substantiated way. Therefore, the aim of this study is...
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Optoelectronic device for hematocrit measurements
PublicationAn optoelectronic system for measurements of hematocrit level (HCT) in the whole human blood is presented. Proposed system integrates a dedicated optoelectronic sensor, a microcontroller and a small LCD display in a low cost, battery-powered, handheld device. Chosen method for determining blood hematocrit level is based on optical properties of whole blood in visible and NIR wavelength range. Measurements with the use of proposed...
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Improving SBR Performance Alongside with Cost Reduction through Optimizing Biological Processes and Dissolved Oxygen Concentration Trajectory
PublicationAuthors of this paper take under investigation the optimization of biological processes during the wastewater treatment in sequencing batch reactor (SBR) plant. A designed optimizing supervisory controller generates the dissolved oxygen (DO) trajectory for the lower level parts of the hierarchical control system. Proper adjustment of this element has an essential impact on the efficiency of the wastewater treatment process as well...
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Chronic Rhinosinusitis—Microbiological Etiology, Potential Genetic Markers, and Diagnosis
PublicationChronic rhinosinusitis (CRS) is a significant public health problem. Bacterial colonization and impaired mucociliary clearance play a significant role in the inflammatory process. Several inflammatory pathways and host defense elements are altered in CRS, which may contribute to observed differences in the microbiome. To date, researching CRS has been difficult due to limited access to the studied tissue and a lack of available...
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A comprehensive approach to SBR modelling for monitoring and control system design
PublicationThe aim of this research is to provide a comprehensive description of the Sequencing Batch Reactor (SBR) modelling for monitoring, control, and plant operational optimisation validation. The paper provides a detailed modelling of the SBR, its components and constituent processes. For this purpose, the mass balance principle and continuity equations were provided with a reactive term implemented using Activated Sludge Model (ASM)....
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Praseodymium substituted lanthanum orthoniobate: Electrical and structural properties
PublicationThe results of ionic transport and structural measurements for the lanthanum orthoniobate doped by praseodymium are presented and discussed. The influence of calcium co-doping on these properties has also been analyzed. The results suggest the predominant protonic conductivity for the investigated system in the whole range of investigated temperatures. The influence of calcium co-doping on phase purity is analyzed.
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Preparation, composition and properties of fish silage produced with post-coagulation sludge
PublicationPost-coagulation sludge was added to fish fydrolyzates (silage). Silage was prepared using whole sprats. Technology of the process has been modified and sulphuric acid was replaced with phosphoric acid. The objective was to evaleuate the quality of produced silage during storage, particulary the changes of peroxide value and amount of free acids in silage fat.
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Overhead wires detection by FPGA real-time image processing
PublicationThe paper presents design and hardware implementation of real-time image filtering for overhead wires detection divided on image processing and results presentation blocks. The image processing block was separated from the whole implementation, and its delay and hardware complexity was analysed. Also the maximum frequency of image processing of the proposed implementation was estimated.
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Thermogravimetric measurement (TG) of 10 wt.% Ce0.8La0.2O2-NiO-YSZ anode for DIR-SOFC
Open Research DataThe daataset includes the thermogravimetric measurement (TG) of Ce0.8La0.2O2-NiO-YSZ anode for DIR-SOFC. The mesurement was performed under synthestic air atmosphere. The anode was composed of NiO-YSZ cermet composite (90 wt%) and Ce0.8La0.2O2-s additive (10wt%) with the addition of poroformer - PMMA granules 8um diameter (40 vol.% of whole powder volume)....
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Thermogravimetric measurement (TG) of 20wt.% Ce0.8La0.2O2-NiO-YSZ anode for DIR-SOFC
Open Research DataThe daataset includes the thermogravimetric measurement (TG) of Ce0.8La0.2O2-NiO-YSZ anode for DIR-SOFC. The mesurement was performed under synthestic air atmosphere. The anode was composed of NiO-YSZ cermet composite (80 wt%) and Ce0.8La0.2O2-s additive (20wt%) with the addition of poroformer - PMMA granules 8um diameter (40 vol.% of whole powder volume)....
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Impedance Spectra of RC Model as a Result of Testing Pulse Excitation Measurement Method Dataset
PublicationThe dataset titled Impedance spectra of RC model as a result of testing pulse excitation measurement method contains the impedance spectrum of an exemplary test RC model obtained using pulse excitation. The dataset allows presentation of the accuracy of the impedance spectroscopy measuring instrument, which uses the pulse excitation method to shorten the time of the whole spectrum acquisition.
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Widespread theta synchrony and high-frequency desynchronization underlies enhanced cognition
PublicationThe idea that synchronous neural activity underlies cognition has driven an extensive body of research in human and animal neuroscience. Yet, insufficient data on intracranial electrical connectivity has precluded a direct test of this hypothesis in a whole-brain setting. Through the lens of memory encoding and retrieval processes, we construct whole-brain connectivity maps of fast gamma (30-100 Hz) and slow theta (3-8 Hz) spectral...
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Fungal Typin Methods
PublicationThe broad application of the molecular techniques in mycoses diagnosis is related to increase of infections caused by fungi in many countries. The oldest typing methods relaying on fenotypic observation, physiological and biochemical examination have had very limited importance from decades. Novadays, the molecular biology methods took their place. Most of the genotyping methods have been devoleped to be applied for typing of bacteria...
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An Approximation of the Zero Error Capacity by a Greedy Algorithm
PublicationWe present a greedy algorithm that determines a lower bound on the zero error capacity. The algorithm has many new advantages, e.g., it does not store a whole product graph in a computer memory and it uses the so-called distributions in all dimensions to get a better approximation of the zero error capacity. We also show an additional application of our algorithm.
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An Approximation of the Zero Error Capacity by a Greedy Algorithm.
PublicationWe present a greedy algorithm that determines a lower bound on the zero error capacity. The algorithm has many new advantages, e.g., it does not store a whole product graph in a computer memory and it uses the so-called distributions in all dimensions to get a better approximation of the zero error capacity. We also show an additional application of our algorithm.
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Molecular differences in mitochondrial DNA (mtDNA) genomes of dogs with malignant mammary tumours
Open Research DataThe aim of this study was to determine molecular defects in mitochondrial DNA with the use of large-scale genome analysis in malignant canine mammary gland tumours and indicate whether these changes were linked with the carcinogenesis process. With the use of the NGS technology, we sequenced 27 samples of mtDNA isolated from blood and tumours obtained...
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Pathogenesis of psoriasis in the “omic” era. Part II. Genetic, genomic and epigenetic changes in psoriasis
PublicationPsoriasis is a multifactorial disease in which genetic, environmental and epigenetic factors regulating gene expression play a key role. In the “genomic era”, genome-wide association studies together with target genotyping platforms performed in different ethnic populations have found more than 50 genetic susceptible markers associated with the risk of psoriasis which have been identified so far. Up till now, the strongest association...
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Toxoplasma godnii recombinant chimeric antigens - IgM and IgG ELISAs - mouse serum samples
Open Research DataThis study presents an evaluation of tetravalent recombinant chimeric proteins containing fragments of the Toxoplasma gondii antigens, SAG2, SAG1, GRA1, GRA2, MIC1, MAG1, ROP1 and AMA1, as potential replacements of a the soluble, whole-cell tachyzoite lysate (TLA) used in serological assays. Recombinant chimeric proteins (SAG1-MIC1-MAG1-GRA2, SAG2-GRA1-ROP1-GRA2,...
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Toxoplasma gondii recombinant chimeric antigens - IgG and IgM ELISAs - human serum samples
Open Research DataThis study presents an evaluation of tetravalent recombinant chimeric proteins containing fragments of the Toxoplasma gondii antigens, SAG1, SAG2, GRA1, GRA2, MIC1, MAG1, ROP1 and AMA1, as potential replacements of a the soluble, whole-cell tachyzoite lysate (TLA) used in serological assays. Recombinant chimeric proteins (SAG1-MIC1-MAG1-GRA2, SAG2-GRA1-ROP1-GRA2,...
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Epitaph of Edward Blemke in St. Mary's Church in Gdańsk
Open Research DataThe data set concerns epigraphy. It refers to the epitaph placed in St. Mary’s Church in Gdańsk, that is dedicated to Edward Blemke, a citizen of Gdańsk who was in city council as a juror, almost till his death in 1593. The epitaph, made in 1591, is one of the greatest and the most beautiful in the whole basilica. Data set contains one general photo...
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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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Integration of the sulfate reduction and anammox processes for enhancing sustainable nitrogen removal in granular sludge reactors
PublicationThe Anammox and Sulfate Reduction Ammonium Oxidation processes were compared in two granular sequencing batch reactors operated for 160 days under anammox conditions. It was hypothesized that increasing the concentration of SO42− may positively influence the rate of N removal under anaerobic conditions and it was tested whether SO42− reduction and anammox occur independently or are related to each other. The cooperation of N-S...