DNA-selective hybridization and dual strand invasion of short double-stranded DNA using pyren-1-ylcarbonyl-functionalized 4′-C-piperazinomethyl-DNA

2004 ◽  
pp. 1064-1065 ◽  
Author(s):  
Torsten Bryld ◽  
Torben Højland ◽  
Jesper Wengel
Keyword(s):  
Double Stranded Dna ◽  
Selective Hybridization ◽  
Strand Invasion

scholarly journals Cooperative strand invasion of double-stranded DNA by peptide nucleic acid

2005 ◽  
Vol 49 (1) ◽  
pp. 167-168 ◽  
Author(s):  
Toru Sugiyama ◽  
Yasutada Imamura ◽  
Wataru Hakamata ◽  
Masaaki Kurihara ◽  
Atsushi Kittaka
Keyword(s):  
Nucleic Acid ◽  
Peptide Nucleic Acid ◽  
Double Stranded Dna ◽  
Strand Invasion

scholarly journals Monitoring the Transcriptional Activity of Human Endogenous Retroviral HERV-W Family Using PNA Strand Invasion into Double-Stranded DNA

2018 ◽  
Vol 60 (2) ◽  
pp. 124-133 ◽  
Author(s):  
Grzegorz Machnik ◽  
Estera Skudrzyk ◽  
Łukasz Bułdak ◽  
Jarosław Ruczyński ◽  
Agnieszka Kozłowska ◽  
...  
Keyword(s):  
Transcriptional Activity ◽  
Double Stranded Dna ◽  
Strand Invasion

Promotion of Single-Strand Invasion of PNA to Double-Stranded DNA by Pseudo-Complementary Base Pairing

2019 ◽  
Vol 92 (2) ◽  
pp. 330-335 ◽  
Author(s):  
Narumi Shigi ◽  
Yuki Mizuno ◽  
Hiroko Kunifuda ◽  
Kazunari Matsumura ◽  
Makoto Komiyama
Keyword(s):  
Single Strand ◽  
Base Pairing ◽  
Double Stranded Dna ◽  
Strand Invasion

scholarly journals Sequence-specific recognition of double-stranded DNA by cooperative strand invasion

2006 ◽  
Vol 50 (1) ◽  
pp. 157-158
Author(s):  
Toru Sugiyama ◽  
Yasutada Imamura ◽  
Wataru Hakamata ◽  
Masaaki Kurihara ◽  
Atsushi Kittaka
Keyword(s):  
Specific Recognition ◽  
Double Stranded Dna ◽  
Strand Invasion

scholarly journals Mcmdc2, a minichromosome maintenance (MCM) paralog, is required for repair of meiotic DNA breaks and homolog pairing in mouse meiosis

2016 ◽  
Author(s):  
Adrian J. McNairn ◽  
Vera D. Rinaldi ◽  
John C. Schimenti
Keyword(s):  
Dna Breaks ◽  
Minichromosome Maintenance ◽  
Primordial Follicles ◽  
Homolog Pairing ◽  
Homologous Sequences ◽  
Chromosome Synapsis ◽  
Double Stranded Dna ◽  
Blm Helicase ◽  
Strand Invasion ◽  
Deficient Mice

AbstractThe mammalian Mcm-domain containing 2 (Mcmdc2) gene encodes a protein of unknown function that is homologous to the mini-chromosome maintenance family of DNA replication licensing and helicase factors. Drosophila melanogaster contains two separate genes, the “Mei-MCMs,” that appear to have arisen from a single ancestral Mcmdc2 gene. The Mei-MCMs are involved in promoting meiotic crossovers by blocking the anti-crossover activity of BLM helicase, a function performed by MSH4 and MSH5 in metazoans. Here, we report that MCMDC2-deficient mice of both sexes are viable but sterile. Males fail to produce spermatozoa, and formation of primordial follicles is disrupted in females. Histology and immunocytological analyses of mutant testes revealed that meiosis is arrested in Prophase I, and is characterized by persistent meiotic double-stranded DNA breaks (DSBs), failure of homologous chromosome synapsis and XY body formation, and an absence of crossing over. These phenotypes essentially phenocopy those of MSH4/5 deficient meiocytes. The data indicate that MCMDC2 is essential for invasion of homologous sequences by RAD51- and DMC1-coated ssDNA filaments, or stabilization of recombination intermediates following strand invasion, both of which are needed to drive stable homolog pairing and DSB repair via recombination in mice.

Discrimination of monomer from multimer DNA disk-shaped toruses by freezeetch TEM

1984 ◽  
Vol 42 ◽  
pp. 210-211
Author(s):  
George C. Ruben ◽  
Kenneth A. Marx
Keyword(s):  
Biochemical Data ◽  
Dna Structures ◽  
Ice Surface ◽  
Double Stranded Dna ◽  
Data Support ◽  
Dna Organization ◽  
Trivalent Cations

In vitro collapse of DNA by trivalent cations like spermidine produces torus (donut) shaped DNA structures thought to have a DNA organization similar to certain double stranded DNA bacteriophage and viruses. This has prompted our studies of these structures using freeze-etch low Pt-C metal (9Å) replica TEM. With a variety of DNAs the TEM and biochemical data support a circumferential DNA winding model for hydrated DNA torus organization. Since toruses are almost invariably oriented nearly horizontal to the ice surface one of the most accessible parameters of a torus population is annulus (ring) thickness. We have tabulated this parameter for populations of both nicked, circular (Fig. 1: n=63) and linear (n=40: data not shown) ϕX-174 DNA toruses. In both cases, as can be noted in Fig. 1, there appears to be a compact grouping of toruses possessing smaller dimensions separated from a dispersed population possessing considerably larger dimensions.

Synchrony of Digestion of SV40 DNA by Exonuclease III Determined by EM

1975 ◽  
Vol 33 ◽  
pp. 674-675
Author(s):  
Ray Wu ◽  
G. Ruben ◽  
B. Siegel ◽  
P. Spielman ◽  
E. Jay
Keyword(s):  
Dark Field ◽  
Uranyl Acetate ◽  
Enzyme Digestion ◽  
Dna Molecules ◽  
Exonuclease Iii ◽  
Aluminum Films ◽  
Double Stranded Dna ◽  
Before And After ◽  
Exo Iii ◽  
Sv40 Dna

A method for determining long nucleotide sequences of double-stranded DNA is being developed. It involves (a) the synchronous digestion of the DNA from the 3' ends with EL coli exonuclease III (Exo III) followed by (b) resynthesis with labeled nucleotides and DNA polymerase. A crucial factor in the success of this method is the degree to which the enzyme digestion proceeds synchronously under proper conditions of incubation (step a). Dark field EM is used to obtain accurate measurements on the lengths and distribution of the DNA molecules before and after digestion with Exo III, while gel electrophoresis is used in parallel to obtain a mean length for these molecules. It is the measurements on a large enough sample of individual molecules by EM that provides the information on how synchronously the digestion proceeds. For length measurements, the DNA molecules were picked up on 20-30 Å thick carbon-aluminum films, using the aqueous Kleinschmidt technique and stained with 7.5 x 10-5M uranyl acetate in 90% ethanol for 3 minutes.

Torus Circumference and Thickness Parameters From a Linear DNA Size Series Suggest How Toruses Self-Assemble

1985 ◽  
Vol 43 ◽  
pp. 522-523
Author(s):  
George C. Ruben ◽  
Kenneth A. Marx
Keyword(s):  
Tertiary Structure ◽  
Dna Complexes ◽  
Tertiary Structures ◽  
Self Assembling ◽  
Double Stranded Dna ◽  
Calf Thymus ◽  
Dna Organization ◽  
Condensed Dna ◽  
Dna Size

Certain double stranded DNA bacteriophage and viruses are thought to have their DNA organized into large torus shaped structures. Morphologically, these poorly understood biological DNA tertiary structures resemble spermidine-condensed DNA complexes formed in vitro in the total absence of other macromolecules normally synthesized by the pathogens for the purpose of their own DNA packaging. Therefore, we have studied the tertiary structure of these self-assembling torus shaped spermidine- DNA complexes in a series of reports. Using freeze-etch, low Pt-C metal (10-15Å) replicas, we have visualized the microscopic DNA organization of both calf Thymus( CT) and linear 0X-174 RFII DNA toruses. In these structures DNA is circumferentially wound, continuously, around the torus into a semi-crystalline, hexagonal packed array of parallel DNA helix sections.

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