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Wyniki wyszukiwania dla: FUNGI TYPING GENOTYPING
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Typing of Scopulariopsis and Microascus fungi by Random Amplified Polymorphic DNA (RAPD)
PublikacjaOBJECTIVES Scopulariopsis species and their teleomorphs of the genus Microascus are commonly isolated from soil, decaying plant material and indoor environments. Moreover, certain Scopulariopsis and Microascus species are recognised as opportunistic human pathogens. Although most species can be identified by detailed morphological study, phenotypic characters appear to overlap in several cases and morphology seems to be insufficient...
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Fungal Typin Methods
PublikacjaThe 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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Genotyping Techniques for Determining the Diversity of Microorganisms
PublikacjaTyping of microbial pathogens, or identifying bacteria at the strain level, is particularly important for diagnosis, treatment, and epidemiological surveillance of bacterial infections. This is especially the case for bacteria exhibiting high levels of antibiotic resistance or virulence, and those involved in nosocomial or pandemic infections. Strain typing also has applications in studying bacterial population dynamics. The part...
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A New Double Digestion Ligation Mediated Suppression PCR Method for Simultaneous Bacteria DNA-Typing and Confirmation of Species: An Acinetobacter sp. Model
PublikacjaWe have designed a new ddLMS PCR (double digestion Ligation Mediated Suppression PCR) method based on restriction site polymorphism upstream from the specific target sequence for the simultaneous identification and differentiation of bacterial strains. The ddLMS PCR combines a simple PCR used for species or genus identification and the LM PCR strategy for strain differentiation. The bacterial identification is confirmed in the...
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Ligation Mediated PCR methods, their possibilities and limitations
PublikacjaThe application of molecular diagnostics for bacterial strain typing or identifying bacteria at the strain level is of particular importance at present. However, among the many genotyping methods that are currently available, no single one is universally ideal. In this article, we thus review the Ligation Mediated PCR group methods as prospects from which to choose. We discuss different strategies for selecting the amplified PCR...
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A nosocomial outbreak of Candida parapsilosis in southern Sweden verified by genotyping
PublikacjaIn a haematology ward, Candida parapsilosis was found in blood cultures from 4 patients within a month. As C. parapsilosis is known to have a restricted genetic diversity, a combined methodological approach was adopted to establish a possible epidemiological relationship among the isolates (n = 9). Multilocus sequence typing and random amplified polymorphic DNA analysis suggested a clonal origin of the isolates. The clonal origin...
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Novel application of terminal restriction fragments length polymorphism method (t-RFLP) for identification of six clinically important Candida sp.
PublikacjaTerminal 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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Genetic Background and Antibiotic Resistance Profiles of K. pneumoniae NDM-1 Strains Isolated from UTI, ABU, and the GI Tract, from One Hospital in Poland, in Relation to Strains Nationally and Worldwide
PublikacjaIn recent years, there has been an observed increase in infections caused by carbapenem-resistant Klebsiella pneumonia (Kp) strains. The aim of this study was the phenotypic and genotypic analysis of eight K. pneumoniae NDM (Kp NDM) isolates, recovered in Poland during the years 2016 and 2018 from seven patients with urinary tract infections (UTIs), asymptomatic bacteriuria (ABU), or colonization of the gut. PCR melting profile...
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Typing of Candida isolates from patients with invasive infection and concomitant colonization
PublikacjaWe investigated the relationship between colonizing and invasive isolates from patients with candidaemia. Molecular typing was performed using random amplification of polymorphic DNA (RAPD) and multilocus sequence typing (MLST). We found MLST to be sufficient for typing Candida isolates, and that surveillance cultures are helpful in predicting concomitant invasive isolates, but not necessarily the pathogen involved in subsequent...
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New Approaches for Escherichia coli Genotyping
PublikacjaEasy-to-perform, fast, and inexpensive methods of differentiation of Escherichia coli strains beyond the species level are highly required. Herein two new, original tools for genotyping of E. coli isolates are proposed. The first of the developed method, a PCR-RFLP (polymerase chain reaction-restriction fragment length polymorphism) test uses a highly variable fliC gene, encoding the H antigen as a molecular target. The designing...
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Genotyping of clinical isolates of fluconazole-resistant Candida albicans
PublikacjaThe aim of the study was to compare the discriminatory power of RAPD-PCR method with using RSD10 primer and microsatellite analysis with using (GACA)4 primer for genotyping clinical isolates of fluconazole-resistant C. albicans. Isolates were received from patients of Children's Memorial Health Institute in Warsaw. However in the case of both tested methods low number of amplified fragments was generated, nine and six different...
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Molecular identification and genotyping of Staphylococci: genus, species, strains, colnes, lineages, and interspecies exchanges
PublikacjaStaphylococci are increasingly recognized as etiological agents of many opportunistic human and animal infections, emphasizing the need for a rapid and accurate identification, even to a genotypical level of these bacteria. In the recent years, there has been a significant progress in typing and phylogenetic study of Staphylococcus species. Here, we describe molecular methods used in taxonomy as well as staphylococci characterization....
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A state of the art review on the use of fungi in biofiltration to remove volatile hydrophobic pollutants
PublikacjaThe physical/chemical abatement of gas pollutants creates many technical problems, is costly and entails significant environmental impacts. Biological purification of off-gases is a cheap and ecologically safe way of neutralization of gas pollutants. Despite the recent advances, the main technological challenge nowadays is the purification of volatile organic compounds (VOCs) of hydrophobic character due to their low solubility...
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The New LM-PCR/Shifter Method for the Genotyping of Microorganism
PublikacjaTechniques relies on the ligation of appropriates adapters (LM-PCR) as AFLP, PCR MP and ADSRRS are successfully used for epidemiological studies for prokaryotic and eukaryotic microorganisms. In this study we propose a new method, called the LM-PCR/Shifter, based on the use of a Class IIS restriction enzyme giving restriction fragments with different 4 base 5' overhangs (Shifter) and the ligation of appropriate oligonucleotide...
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Discrimination of selected fungi species based on their odour profile using prototypes of electronic nose instruments
PublikacjaThe paper presents practical application of an electronic nose technique to fast and efficient discrimination of the samples of different fungi species such as: Penicillium chrysogenum, Cladosporium herbarum, Rhizopus oryzae, Alternaria alternata. Two prototypes of electronic nose instrument were utilized for investigation of discrimination capability with respect to odour profile of these fungi: the first prototype was based on...
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PCR and real-time PCR assays to detect fungi of Alternaria alternata species
PublikacjaFungi of the Alternaria genus are mostly associated with allergic diseases. However, with a growing number of immunocompromised patients, these fungi, with A. alternata being the most prevalent one, are increasingly recognized as etiological agents of infections (phaeohyphomycoses) in humans. Nowadays, identification of Alternaria spp. requires their pure culture and is solely based on morphological criteria. Clinically, Alternaria...
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PCR-RFLP assays for species-specific identification of fungi belonging to Scopulariopsis and related genera
PublikacjaFungi of the Scopulariopsis genus, commonly found in the environment, are opportunistic pathogens that can cause various types of human infections. So far, no efficient molecular method has been developed for species differentiation among Scopulariopsis and related genera. In order to advance this field, we have evaluated performance of polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP) assays, based...
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Rapid Assays for Specific Detection of Fungi of Scopulariopsis and Microascus Genera and Scopulariopsis brevicaulis Species
PublikacjaPurpose 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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Evaluation of possibilities of genotyping of Candida glabrata clinical isolates with RAPD-PCR method and microsatellite analysis
PublikacjaThe aim of the study was to compare the discriminatory power of RAPD-PCR method using RSD10 primer and microsatellite (GACA)4 analysis for genotyping clinical isolates of C. glabrata. Isolates were received from patients of two Polish hospitals: Children's Memorial Health Institute in Warsaw (n=17) and Medical University of Gdansk (n=37). Species identification was confirmed by two phenotypic methods: growth on chromagar plates...
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The use of various species of fungi in biofiltration of air contaminated with odorous volatile organic compounds
PublikacjaAir pollution with odorous compounds is a significant social and environmental problem. This paper presents biological deodorization methods. The attention is focused on the application of biotrickling filters for air deodorization. Principles of their operation are discussed, indicating the key role of the selection of microorganisms responsible for the degradation of odorous compounds. A literature overview of the used fungal...
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Principles and applications of Ligation Mediated PCR methods for DNA-based typing of microbial organisms
PublikacjaA significant number of DNA-based techniques has been introduced into the field of microorganisms’ characterization and taxonomy. These genomic fingerprinting methods were developed to detect DNA sequence polymorphisms by using general principles, such as restriction endonuclease analysis, molecular hybridization, and PCR amplification. In recent years, some alternative techniques based on ligation of oligonucleotide adapters before...
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Dendrimers against fungi – A state of the art review
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ALIS-FLP: amplified ligation selected fragment-length polymorphism method for microbial genotyping
PublikacjaA DNA fingerprinting method known as ALIS-FLP (amplified ligation selected fragment-length polymorphism) has been developed for selective and specific amplification of restriction fragments from TspRI restriction endonuclease digested genomic DNA. The method is similar to AFLP, but differs in that only one specific restriction enzyme (TspRI) is used. The cohesive ends of the DNA fragments are ligated with two types of oligonucleotide....
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The New LM-PCR/Shifter Method for the Genotyping of Microorganisms Based on the Use of a Class IIS Restriction Enzyme and Ligation Mediated PCR
PublikacjaThis study details and examines a novel Ligation-Mediated - Polymerase Chain Reaction (LM-PCR) method. Named the LM-PCR/Shifter, it relies on the use of a Class IIS restriction enzyme giving restriction fragments with different 4 base, 5' overhangs, this being the Shifter, and the ligation of appropriate oligonucleotide adapters. A sequence of 4-base, 5' overhangs of the adapter and a 4-base sequence of the 3' end of the primer(s)...
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Carbon assimilation profiles of mucoralean fungi show their metabolic versatility
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Harnessing endophytic fungi for biosynthesis of selenium nanoparticles and exploring their bioactivities
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Bioprospecting endophytic fungi for antifeedants and larvicides and their enhancement by gamma irradiation
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Molecular typing of clinical isolates of Escherichia coli by a new PCR MP method
PublikacjaTypowanie epidemiologiczne bakterii jest rutynową procedurą stosowaną w badaniach zakażeń szpitalnych i wymaga stosowania odpowiednich metod o wysokim potencjale różnicującym. Przedstawiliśmy możliwości nowej techniki PCR MP w różnicowaniu szczepów E. coli. Rezultaty zostały porównane z wynikami uzyskanymi metodą PFGE.
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Molecular typing of clinical isolates of Escherichia coli by a new PCR MP method
PublikacjaTypowanie epidemiologiczne bakterii jest rutynową procedurą stosowaną w badaniach zakażeń szpitalnych i wymaga stosowania odpowiednich metod o wysokim potencjale różnicującym. Przedstawiliśmy możliwości nowej techniki PCR MP w różnicowaniu szczepów E. coli. Rezultaty zostały porównane z wynikami uzyskanymi metodą PFGE.
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Motility activity, slime production, biofilm formation and genetic typing by ERIC-PCR for Pseudomonas aeruginosa strains isolated from bovine and other sources (human and environment)
PublikacjaThe molecular-typing strategy, ERIC-PCR was used in an attempt to determine the genomic relationship of 28 P. aeruginosa strains isolated from faeces of healthy bovine, bovine mastitis and from faeces of hospital patients as well as from environment. ERIC-PCR fingerprinting revealed large molecular differentiation within this group of isolates. Twenty two out of 28 strains tested generated unique patterns of DNA bands and only...
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What about the multidrug resistance in fungi? - comparison of voriconazole and ''old'' azoles.
PublikacjaPorównano wyniki oznaczeń aktywności przeciwgrzybowej voriconazolu- nowego leku przeciwgrzybowego z pierścieniem azolowym, z lekami poprzedniej generacji. Zaobserwowano znaczny spadek aktywności biologicznej voriconazolu (podobnie jak starszych leków, takich jak fluconazol czy ketoconazol) względem komórek wielolekoopornych, co stanowi przesłankę, że nowy lek jest substratem dla głównych pomp kształtujących zjawisko wielolekooporności...
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Fungi of entomopathogenic potential in Chytridiomycota and Blastocladiomycota, and in fungal allies of the Oomycota and Microsporidia
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Bioprospecting endophytic fungi for bioactive metabolites and use of irradiation to improve their bioactivities
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A personalised approach to prostate cancer screening based on genotyping of risk founder alleles
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Molecular taxonomy of scopulariopsis-like fungi with description of new clinical and environmental species
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The mechanism of overcoming multidrug resistance (MDR) of fungi by amphotericin B and its derivatives
PublikacjaPrzeprowadzono badania porównawcze w celu określenia aktywności i cytotoksyczności amfoterycyny B (AmB) i jej pochodnych wobec standardowego szczepu S. cerevisiae i jego transformantów zawierających geny C. albicans kodujące białka oporności wielolekowej (MDR) typu ABC i MFS. Pochodne AmB: amid 3-dimetyloaminopropylowy amfoterycyny B oraz ester metylowy N-metylo-N-D-fruktopiranozylo-amfoterycyny B wykazały efekt fungistatyczny...
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Halotolerant fungi stimulate growth and mitigate salt stress in Alnus glutinosa Gaertn.
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Influence of titanium dioxide activated under visible light on survival of mold fungi
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Evaluation of multiple genetic markers for typing drug-resistant Mycobacterium tuberculosis strains from Poland
PublikacjaW publikacji przedstawiono wyniki genotypowania wielolekoopornych szczepów Mycobacterium tuberculosis izolowanych od pacjentów z Polski.
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Enhancing chain-elongating microbiomes: Sequential fungi-bacteria cooperation for efficient food waste upgrading using endogenous electron donors
PublikacjaThe upgrading of organic waste such as food waste (FW) into medium-chain carboxylates (MCC) is within a bio-based circular economy concept. An efficient chain elongation (CE) microbiome is difficult to obtain, which normally requires long-term acclimatization and an exogenous supplement of electron donor (ED, especially ethanol). In this study, the CE microbiome was rapidly shaped within 18 days and an efficient endogenous ethanol-based...
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Application of PCR-HRM method for microsatellite polymorphism genotyping in the LDHA gene of pigeons (Columba livia)
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Plant Tolerance to Drought Stress in the Presence of Supporting Bacteria and Fungi: An Efficient Strategy in Horticulture
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Genotyping and characterization of virulence factors in Escherichia coli strains isolated from patients from Polish hospital
PublikacjaZakażenia układu moczowego (UTIs - ang. urinary track infections) są jedną z najczęstszy infekcji, za które w 85% przypadków odpowiedzialne są bakterie Escherichia coli. Infekcje układu moczowego mogą prowadzić do groźnych powikłań m. in. odmiedniczkowego zapalenia nerek. Śmiertelność wśród tej grupy pacjentów wynosi 1-3%. Zakażenia układu moczowego występują również u ok. 7% kobiet ciężarnych. W pracy przebadano 82 szczepy E....
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Does the chemical modification of Nystatin A1 affect the drug's ability to overcome the multidrug resistance of fungi?
PublikacjaAlthough the contemporary medicine keeps moving forward, disseminated infections caused by fungal pathogens are an emerging challenge. The dramatic rise of fungal diseases, especially the most life-threatening systemic mycoses is associated with a permanently growing number of immunodeficient patients. Undoubted difficulties in the treatment of fungal infections are caused by lack of highly effective and selective antifungal drugs,...
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Fungi-derived agriculturally important nanoparticles and their application in crop stress management – Prospects and environmental risks
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Use of mycorrhizal fungi and phosphorus fertilization to improve the yield of onion (Allium cepa L.) plant
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Evaluation and comparison of random amplification of polymorphic DNA, pulsed field gel electrophoresis and ADSRRS-fingerprinting for typing Serratiamarcescens outbreaks.
PublikacjaADSRRS-fingerprinting, nowa metoda genotypowania oparta na supresji reakcji PCR została zastosowana do badań epidemiologicznych izolatów S. marcescens,pochodzących z trzech różnych epidemii Szpitala Publicznego w Gdańsku. Wyniki uzyskane metodą ADSRRS-fingerprinting porównano z wynikami uzyskanymi technikami RAPD-fingerprinting i PFGE.
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Leukemia and risk of recurrent Escherichia coli bacteremia: genotyping implicates E. coli translocation from the colon to the bloodstream.
PublikacjaIn patients with leukemia, the portal(s) and reasons for the persistence of an Escherichia coli recurrent bacteremia remain unclear. Adult Hematology Clinic (AHC) databases at the State Clinical Hospital in Gdańsk were reviewed to evaluate the frequency of E. coli bacteremia between 2002 and 2005. Blood and bowel E. coli strains were obtained and the genetic relatedness of the strains was analyzed. The rate of E. coli bacteremia...
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The effect of anatase and rutile crystallites isolated from titania P25 photocatalyst on growth of selected mould fungi
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Molecular typing of Staphylococcus aureus isolated from cows with mastitis in the east of Poland on the basis of polymorphism of genes coding protein A and coagulase
PublikacjaPolimorfizm genów kodujących białko A i koagulazę wykorzystano do badania zmienności genetycznej bakterii Staphylococcus aureus wyizolowanych z gruczołów mlekowych krów u których stwierdzono stan zapalny. W badanej grupie 82 szczepów wyróżniono 24 genotypy.