Wyniki wyszukiwania - Biblioteka Nauki

1

Faster and cheaper PCR on a standard thermocycler

100%

Sobczak K. , Kozlowski P. , Krzyzosiak W. J.

Acta Biochimica Polonica

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1995

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tom 42

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nr 3

EN

The PCR conditions have been optimized to make the process faster and more economical. When short DNA fragments are to be amplified, the time of denaturation, annealing and extension steps can be as short as 1 s each, and the yield of PCR product is still high, sufficient for many types of analysis. The PCR can be done even in a reaction volume as low as 1 jxl. The recommended volume, 2.5 jil or 5 jil, allows significant savings in the laboratory budget especially for laboratories which use PCR frequently and on a large scale.

2

Assessment of prevalence of HPV DNA in colorectal adenocarcinoma in patients from the Podlasie region

80%

Miąsko A. , Chomczyk M. , Pancewicz–Wojtkiewicz, J , Roszkowski A. , Kędra B. , Borzym - Kluczyk M. , Szynaka B. , Chyczewski L.

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nr 2

84-89

EN

Purpose: The aim of the study was to assess the prevalence of human papillomavirus (HPV) DNA in colorectal adenocarcinoma in patients from the Podlasie region undergoing surgery for the tumor. Materials and methods: We examined 40 solid colorectal tumors taken during surgical treatment at the 2nd Department of General and Gastrointestinal Surgery, Medical University of Białystok. HPV was detected by means of polymerase chain reaction (PCR) and in situ hybridization (ISH). The tests were performed on formalin-fixed, paraffin-embedded tumor tissue. Two pairs of primers were used for the detection of HPV DNA by PCR. Pair pU-1M/pU-2R enables detection and identification of high-risk HPV (HPV 16, 18, 31, 33, 35, 52b, 58), while pair pU-31B/pU-2R enables detection and identification of low-risk HPV (HPV 6, 11). The ISH was performed with the use of biotin-labelled dsDNA probes, using Wide Spectrum HPV DNA Probe Cocktail Biotinylated kit, DAKO Cyto-mation. Results: HPV DNA was found in 21 (52.5%) of the examined colorectal tumors. The PCR revealed the presence of viral DNA in 19 (47.5%) tumors. The ISH revealed the presence of HPV DNA in 16 (40%) of the examined tumors. Conclusion: The findings of this study correlate with similar results conducted by other research groups. However, this is the first study of colorectal tumor samples taken from patients of the Podlasie region. Therefore, the association between environmental factors, HPV infection, and tumor stage should also be verified in a larger study population. Further studies confirming the presence of HPV DNA in colorectal tumor tissue in populations from different regions of Poland are needed.

3

Application of polymerase chain reaction-restriction fragment length polymorphism (RFLP-PCR) in the analysis of single nucleotide polymorphisms (SNPs)

80%

Tarach P.

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tom 17

48-53

EN

Polymerase chain reaction-restriction fragment length polymorphism (RFLP-PCR) is a technique used to identify single nucleotide polymorphisms (SNPs) based on the recognition of restriction sites by restriction enzymes. RFLP-PCR is an easy-to-perform and inexpensive tool for initial analysis of SNPs potentially associated with some monogenic diseases, as well as in genotyping, genetic mapping, lineage screening, forensics and ancient DNA analysis. The RFLP-PCR method employs four steps: (1) isolation of genetic material and PCR; (2) restriction digestion of amplicons; (3) electrophoresis of digested fragments; and (4) visualisation. Despite its obsolescence and the presence of high-throughput DNA analysis techniques, it is still applied in the analysis of SNPs associated with disease entities and in the analysis of genetic variation of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). RFLP-PCR is a low-cost and low-throughput research method allowing for the analysis of SNPs in the absence of specialised equipment, and it is useful when there is a limited budget.

4

Detection of bovine leucocyte adhesion deficiency [BLAD] carriers using a new PCR test

80%

Kaminski S. , Czarnik U.

Journal of Applied Genetics

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1997

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tom 38

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nr 1

EN

In this report we demonstrate a simple, effective and reliable diagnostic test of BLAD carrier detection based on specific PCR amplification of a 367 bp CD18 gene fragment and RFLP analysis using Taq I restriction enzyme. In a non-random population of 220 animals we found 48 BLAD carriers. Within the amplified PCR fragment an unknown intron sequence of 159 bp was identified.

5

Detection of the coccoid form of Campylobacter jejuni with the use of polymerase chain reaction

80%

Korsak D. , Popowski J.

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tom 45

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nr 3-4

6

Rapid DNA extraction for screening soil filamentous fungi using PCR amplification

80%

Plaza G. A. , Upchurch R. , Brigmon R. L. , Whitman W. B. , Ulfig K.

Polish Journal of Environmental Studies

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2004

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tom 13

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nr 3

EN

A simple and rapid procedure for efficiently isolating fungi DNA suitable for use as a template for PCR amplification and other molecular assays is described. The main advantages of the method are: (1) the mycelium is directly recovered from Petri-dish cultures; (2) the technique is rapid and relatively easy to perform , and (3) it allows for processing of around 50 samples during a single day; (4) it is inexpensive; (5) the quality and quantity of DNA obtained are suitable for molecular assays; (6) it can be applied to filamentous fungi from soil as well as from a fungi from other environmental sources; and (7) it does not require the use of expensive and specialized equipment or hazardous reagents.

7

The analysis of the plant genome of the population of Betula nana in the Linie Reserve using RAPD-PCR method

80%

Burnicka O. , Marszal J. , Dabrowska G.

Polish Journal of Natural Sciences. Supplement

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2003

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tom 01

8

Isolation of the DNA fragment reflecting the open reading frame II of the I-18 C gene of Chironomus tentans by the polymerase chain reaction. IV. The product of the applied technologies

80%

Borowicz B. P.

Journal of Plant Protection Research

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1997

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tom 37

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nr 1-2

EN

The Polymerase Chain Reaction and other molecular technologies were applied to isolate the DNA fragment reflecting the Open Reading Frame II of the I-18 C gene. This research object was realized and the importance of this result has been discussed in view of the mechanisms of the regulation of gene expression.

PL

Reakcja Łańcuchowa Polimerazy i inne technologie molekularne zostały zastosowane w celu izolacji fragmentu DNA odpowiadającego Otwartej Ramie Odczytu II genu I-18 C. Cel badawczy został zrealizowany i omówiono znaczenie tego wyniku w świetle mechanizmów regulacji ekspresji genu.

9

Methods of DNA isolation from poultry meal

70%

Natonek-Wisniewska M. , Slota E.

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2007

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tom 16

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nr 3

490-496

10

Genotyping by sequencing of Acanthamoeba and Naegleria isolates from the thermal pool distributed throughout Turkey

70%

Degerli S. , Degerli N. , Camur D. , Dogan O. , Ilter H.

Acta Parasitologica

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2020

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tom 65

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nr 1

11

Changes in microbial community structure during adaptation towards polyhydroxyalkanoates production

70%

Ciesielski S. , Klimiuk E. , Mozejko J. , Nowakowska E. , Pokoj T.

Polish Journal of Microbiology

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2009

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tom 58

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nr 2

131-139

EN

Polyhydroxyalkanoates (PHAs) are interesting as material for bioplastic production because they are recognized as biodegradable and could be produced from renewable resources. The industrial production of PHAs has already been used in practice by pure cultures. In recent years, many studies have been addressed of PHA production by mixed cultures. Nevertheless, while fermentation strategy to improve the PHA content of biomass, yield and productivity in pure cultures are well defined, knowledge about the operational condition for PHA synthesis by mixed culture is still very limited. The ecology of the microbial community of activated sludge remains largely unknown, primarily because of the difficulty of making detailed observation. Recently, developed molecular techniques allow determination of community composition from DNA extracted directly from biomass samples. This study examined the changes of bacterial communities in activated sludge through application of the molecular technique, ribosomal intergenic spacer analysis (RISA). Microbial communities from anaerobic-aerobic and ammonia limited fermentations were ascertained. The applied operational conditions were shown to select for a restricted microbial population, which were different in term of structure with respect to the initial microbial consortia in the activated sludge used as inoculum.

12

Molecular diagnostics of Sarcocystis spp. infections

70%

Polish Journal of Veterinary Sciences

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2012

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tom 15

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nr 3

EN

Protozoa of the genus Sarcocystis (phylum Apicomplexa, family Sarcocystidae) is one of the most common parasites affecting animals. Interspecies diagnostic of Sarcocystis genus was based on electron microscopy for many years. Because of absence of visible differences between species with reachable magnifications, light microscopy is useless. In many cases serological diagnostic method have lack of sensitivity. A variety of molecular methods have been developed and used to detect and identify Sarcocystis spp. and to assess the genetic diversity among this protozoan from different population/hosts. Nowadays, molecular diagnostic is the common, time/cost effective method used all over the world to interspecies differentiation.

13

Word Blending in Formal Languages

70%

Enaganti S. K. , Kari L. , Ng T. , Wang Z.

Fundamenta Informaticae

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2020

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tom Vol. 171, nr 1-4

151--173

EN

In this paper we define and investigate a binary word operation that formalizes an experimentally observed outcome of DNA computations, performed to generate a small gene library, and implemented using a DNA recombination technique called Cross-pairing Polymerase Chain Reaction (XPCR). The word blending between two words αωγ1 and γ2ωβ that share a non-empty overlap w, results in αωβ. Interestingly, this phenomenon has been observed independently in linguistics, under the name “blend word” or “portmanteau”, and is responsible for the creation of words in the English language such as smog (smoke + fog), labradoodle (labrador + poodle), and Brangelina (Brad + Angelina). Technically, word blending is related to the binary word operation Latin product, the crossover operation, and simple splicing. We study closure properties of the families in the Chomsky hierarchy under word blending, language equations involving this operation, and its descriptional state complexity when applied to regular languages. We also define iterated word blending and show that, for a given alphabet, there are finitely many languages that can be obtained from an initial language by iterated word blending.

14

Quantitative real-time PCR in cancer research

70%

Mocellim S. , Rossi C. R. , Marincola F. M.

Archivum Immunologiae et Therapiae Experimentalis

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2003

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tom 51

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nr 5

15

Sibling species within Paramecium jenningsi revealed by RAPD

70%

Skotarczak B. , Przybos E. , Wodecka B. , Maciejewska A.

Acta Protozoologica

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2004

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tom 43

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nr 1

16

Isolation of the DNA fragment reflecting the open reading frame II of the I-18 C gene of Chironomus tentans by the polymerase chain reaction. II. The technology for the preparation of the template

70%

Borowicz B. P.

Journal of Plant Protection Research

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1997

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tom 37

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nr 1-2

EN

The technology for the preparation of the template in the research aimed to isolate the DNA fragment reflecting the Open Reading Frame II of the I-18 C gene is presented i.e. the linearisation of the template by Bam H I digestion, the purification of the template and the estimation of the template concentration.

PL

Przedstawiono technologię przygotowywania matrycy DNA w badaniach zmierzających do izolacji Otwartej Ramy Odczytu II genu I-18 C Chironomus tentans. Technologia ta obejmowała linearyzację DNA matrycy poprzez trawienie Bam H I oraz oczyszczenie matrycy i oznaczenie stężenia matrycowego DNA.

17

Detection of circulating breast cancer cells in peripheral blood by a two-marker reverse transcriptase-polymerase chain reaction assay

70%

Fabisiewicz A. , Kulik J. , Kober P. , Brewczynska E. , Pienkowski T. , Siedlecki J. A.

Acta Biochimica Polonica

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2004

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tom 51

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nr 3

EN

The aim of this study was to use a two-marker assay for the detection of breast cancer cells circulating in patients' blood. We have applied a PCR-based methodology to follow up the possibility of the development of metastatic disease in stage I and II patients who had undergone curative surgery. Since the number of circulating cancer cells in peripheral blood is very low, the technique for their detection needs to be not only highly sensitive, but also very specific. The reverse transcriptase-polymerase chain reaction (RT-PCR) technique may improve the sensitivity of breast cancer cell detection up to only a few cells per one million. The principle of the RT-PCR assay is to amplify a messenger RNA characteristic for breast epithelial cells in a blood sample. Since we do not expect such cells to be circulating in peripheral blood of healthy subjects, detection of the characteristic mRNA should indicate the presence of circulating breast cancer cells. We analyzed the usefulness of three mRNA markers: cytokeratin 19 (CK19), mammaglobin (hMAM) and S subunit of human chorionic gonadotropin (S-hCG) for this test. Blood samples (112) were obtained from 55 patients, in stages I and II, with or without metastasis to regional lymph nodes (N0 or N1). We found that a two-marker assay increases the sensitivity of detection of breast cancer cells in comparison with a single-marker one. Combination of two tumor-specific mRNA markers, hMAM/CK19 or S-hCG/CK19, allowed the detection of circulating breast cancer cells in 65% of N1 patients and 38% of N0 patients. By comparison, the combination hMAM/-hCG allowed the detection of circulating breast cancer cells in the blood of 68% of N1 patients and 46% of N0 patients. Addition of the third marker did not significantly increase the detection sensitivity.

18

Localization of calcitonin mRNA using in situ labeling with reverse transcriptase and PCR

70%

Zabel M. , Ciesielska U. , Wysocka T.

Folia Histochemica et Cytobiologica. Supplement

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1996

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tom 34

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nr 1

19

Apolipoprotein E genotypes in sporadic early and late-onset Alzheimer's disease

70%

Kowalska A. , Florczak J. , Pruchnik-Wolinska D. , Kraszewski A. , Wender M.

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tom 46

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nr 3

20

Genotypic identification of shigatoxic Escherichia coli O26 strains by means of multiplex-PCR

70%

Baldy-Chudzik K. , Janusz E. , Stosik M.

Cellular and Molecular Biology Letters

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2002

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tom 07

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nr Suppl.