genomic DNA Articles
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The role of genomic DNA and introns in gene transfer
This paper deals with the advantages of using genomic DNA from developed organs in gene transfer and the production of transgenic organisms. It also discusses the role of introns, the functional genes and how they are integrated into the host genomic. The integrated unfunctional DNA never causes defects or deleterious effects but on the contrary it causes repair and heterosis. The utilisation of ...
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Eliminating false positives in a qPCR assay for the detection of the
uidA gene inEscherichia coli Due to contaminant Escherichia coli DNA present in recombinant Taq polymerase reagents, it is not possible to reliably detect low levels of E. coli in samples using the quantitative polymerase chain reaction (qPCR) assay. Native Taq polymerase was successfully used in this study to detect five uidA gene copies (5 fg of genomic DNA) of the uidA gene. ...
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Evaluating the insecticidal genes and their expressed products in bacillus thuringiensis strains by combining pcr with mass spectrometry
By a combination of PCR and mass spectrometry, a total of five cry genes (cry1Aa, cry1Ac, cry2Aa, cry2Ab, and cry1Ia) were detected in genomic DNA from the wild-type Bacillus thuringiensis strain 4.0718, and three protoxins (Cry1Aa, Cry1Ac, and Cry2Aa) were identified in the strain's parasporal crystals. These results indicated that this complementary method may be useful in evaluating B. ...
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Application of DNA technology to study the genetic biodiversity of yeast strains (S. cerevisiae) based on RAPD markers
A genomic DNA of nine yeast strains has been extracted from total cellular DNA, previously amplified according to RAPD procedure. Two random 10-mer primers were used to assay polymorphisms among nine yeast strains: Candida albicans, Candida tropicals, Rhodotuala glutinis, Saccharomyces cerevisiae GT160-34B, positive control (standard DNA) yeast, S. cerevisiae GT160-346 Mutant, S. cerevisiae ...
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Rapid, specific and quantitative polymerase chain reaction (PCR) detection of pathogenic protozoa
Entamoeba histolytica for drinking water supplyIn this study, a quantitative species-specific polymerase chain reaction (PCR) method to rapidly detect E. histolytica in water is developed. First, the specificity of E. histolytica PCR detection was verified by using species-specific primers of 16S-like rRNA genes to clearly differentiate it from the closely related amoebae species E. dispar and E. moshkovskii. The sensitivity of this method ...
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Determination of pyrimidine dimers in the genomic DNA of Escherichia coli during photoreactivation following inactivation by medium-pressure UV lamp
A polychromatic medium-pressure (MP) UV lamp was compared with a monochromatic low-pressure (LP) UV lamp to investigate the inactivation and the subsequent photoreactivation of Escherichia coli . An endonuclease sensitive site (ESS) assay was applied to determine the number of UV-induced pyrimidine dimers in the genomic DNA of E.coli in parallel with a conventional colony forming assay. more than ...
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A strategy for Ordered single molecule Sequencing based on Nanomanipulation (OsmSN)
In this mini-review we present the concept and the advancement of a novel strategy termed "ordered single molecule sequencing based on nanomanipulation (OsmSN)" for whole-genome sequencing. Techniques have been developed to integrate the processes including dissection and isolation of DNA molecules with sufficient spatial resolution together with the subsequent single molecule PCR to ...
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Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16s rrna.
We describe a new molecular approach to analyzing the genetic diversity of complex microbial populations. This technique is based on the separation of polymerase chain reaction-amplified fragments of genes coding for 16S rRNA, all the same length, by denaturing gradient gel electrophoresis (DGGE). DGGE analysis of different microbial communities demonstrated the presence of up to 10 ...
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Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
We describe a new molecular approach to analyzing the genetic diversity of complex microbial populations. This technique is based on the separation of polymerase chain reaction-amplified fragments of genes coding for 16S rRNA, all the same length, by denaturing gradient gel electrophoresis (DGGE). DGGE analysis of different microbial communities demonstrated the presence of up to 10 ...
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Does the antibacterial activity of silver nanoparticles depend on the shape of the nanoparticle? A study of the gram-negative bacterium escherichia coli
We describe a new molecular approach to analyzing the genetic diversity of complex microbial populations. This technique is based on the separation of polymerase chain reaction-amplified fragments of genes coding for 16S rrna, all the same length, by denaturing gradient gel electrophoresis (DGGE). DGGE analysis of different microbial communities demonstrated the presence of up to 10 ...
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Evaluation of DNA extraction methods and dilution treatment for detection and quantification of Acanthamoeba in water and biofilm by real-time PCR
Acanthamoeba, human pathogens and natural hosts of pathogenic bacteria, may be accurately detected and quantified by real-time PCR if Acanthamoeba DNA are properly extracted and PCR inhibitors are effectively eliminated. However, the optimization of DNA extraction methods has not been reported for Acanthamoeba. This study compared the effectiveness of two DNA extraction/purification methods ...
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Evaluation of DNA extraction methods and dilution treatment for detection and quantification of
Acanthamoeba in water and biofilm by real-time PCRAcanthamoeba, human pathogens and natural hosts of pathogenic bacteria, may be accurately detected and quantified by real-time PCR if Acanthamoeba DNA are properly extracted and PCR inhibitors are effectively eliminated. However, the optimization of DNA extraction methods has not been reported for Acanthamoeba. This study compared the effectiveness of two DNA extraction/purification methods ...
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Radioprotection by Acorus calamus: studies on in vivo DNA damage and repair
Whole-body exposure of mice to 4 Gy γ-irradiation resulted in considerable damage in the genomic DNA of peripheral blood leucocytes, bone marrow cells and splenocytes. An alkaline comet assay revealed that the nuclear DNA comet parameters of these cells, such as %DNA in tail, tail length, tail moment and Olive tail moment, had increased following whole-body γ-irradiation. Administration of Acorus ...
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Effect of photoreactivation on ultraviolet inactivation of
Microcystis aeruginosa Microcystis aeruginosa forms algal bloom in lakes. They produce toxic compounds such as microcystin. Against such algal problems, the effect of UV treatment was examined. In UV treatment, the effect of photoreactivation should be examined. Photoreactivation is a repair mechanism of genomic DNA damage by sunlight irradiation. UV treatment causes DNA damages on target cyanobacteria, however ...
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PCR amplification and DNA sequence of
mcy A gene: The distribution profile of a toxigenicMicrocystis aeruginosa in the Hartbeespoort Dam, South AfricaUsing new polymerase chain reaction (PCR) primers, a once known to be under-transcribed microcystin synthetase A (mcyA) gene from the only known toxigenic cyanobacterium Microcystis aeruginosa dominating the Hartbeespoort Dam was consistently amplified from genomic DNA extracted from a set of algal and cell free water samples collected across this dam. In addition to this, five more mcy genes ...
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Assessment of molecular methods as a tool for detecting pathogenic protozoa isolated from water bodies
Several species belong to the Cryptosporidium and Giardia genus, the main parasitic protozoa occurring in water, but only some of them are infectious to humans. We investigated the occurrence of Cryptosporidium and Giardia and identified their species in the water samples collected from natural water bodies in north-western Poland. A total of 600 samples from water bodies used for bathing, ...
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Influence of X-ray and/or CpG-DNA induced oxidative stress on adaptive response in human lymphocytes
Peripheral blood lymphocytes of apparently healthy donors were exposed to low-dose ionising radiation and/or human-genome CpG-DNA fragments accumulating in total extracellular DNA. Both factors administered separately appeared to induce transposition of the 1q12 loci of homologous chromosomes in lymphocytes from the pericentromeric region towards the centre of the nucleus; they were also shown to ...
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Metagenomes obtained by ‘deep sequencing’ – what do they tell about the enhanced biological phosphorus removal communities?
Metagenomics enables studies of the genomic potential of complex microbial communities by sequencing bulk genomic DNA directly from the environment. Knowledge of the genetic potential of a community can be used to formulate and test ecological hypotheses about stability and performance. In this study deep metagenomics and fluorescence in situ hybridization (FISH) were used to study a full-scale ...
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DNA-Stable Isotope Probing Technology (DNA-SIP)
Background DNA-stable isotope probing technology (DNA-SIP) is a molecular ecology technology that uses stable isotopes to trace the genomic DNA of microorganisms in complex environments. Making use of stable isotopes to trace microbial genomic DNA in complicated environments can realize the transformation of research from single microbial physiological process to physiology and ecology of ...
By BOC Sciences
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Effect of the disinfection agents chlorine, UV irradiation, silver ions, and TiO2 nanoparticles/near-UV on DNA molecules
Extracellular DNA in municipal wastewater and effluents from hospitals and R&D laboratories contains antimicrobial resistance and recombinant genes that are today considered as a new class of emerging contaminants. The objective of this research was to investigate the effect of disinfection agents on the integrity of DNA molecules by using real-time PCR. Escherichia coli cell suspensions and ...
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