A Simple PCR-Based Method for the Preparation of DNA Size Markers

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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Critical nuclear DNA size and distribution associated with S phase initiation

Cell Biophysics ◽

10.1007/bf02788475 ◽

1986 ◽

Vol 8 (2) ◽

pp. 103-117 ◽

Cited By ~ 18

Author(s):

Claudio Nicolini ◽

Andrew S. Belmont ◽

Antonietta Martelli

Keyword(s):

Nuclear Dna ◽

S Phase ◽

Dna Size

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DNA Size Separation Employing Micro-Fabricated Monolithic Nano-Structure

Micro Total Analysis Systems 2002 ◽

10.1007/978-94-010-0295-0_71 ◽

2002 ◽

pp. 212-214 ◽

Cited By ~ 4

Author(s):

Yojiro Tezuka ◽

Masanori Ueda ◽

Yoshinobu Baba ◽

Hiroaki Nakanishi ◽

Takahiro Nishimoto ◽

...

Keyword(s):

Nano Structure ◽

Size Separation ◽

Dna Size

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DNA translocation to giant unilamellar vesicles during electroporation is independent of DNA size

Soft Matter ◽

10.1039/c9sm01274e ◽

2019 ◽

Vol 15 (45) ◽

pp. 9187-9194

Author(s):

Shaurya Sachdev ◽

Aswin Muralidharan ◽

Dipendra K. Choudhary ◽

Dayinta L. Perrier ◽

Lea Rems ◽

...

Keyword(s):

Electrophoretic Mobility ◽

Dna Delivery ◽

Dna Molecules ◽

Dna Translocation ◽

Giant Unilamellar Vesicles ◽

Unilamellar Vesicles ◽

Dna Size

DNA delivery into GUVs during electroporation is governed by bulk electrophoretic mobility implying a mechanism in which DNA molecules enter in their coiled conformation, as opposed to stochastic threading, through electro-pores.

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The influence of DNA size on the binding of antibodies to DNA in the sera of normal human subjects and patients with systemic lupus erythematosus (SLE)

Clinical & Experimental Immunology ◽

10.1046/j.1365-2249.1999.00875.x ◽

1999 ◽

Vol 116 (2) ◽

pp. 354-359 ◽

Cited By ~ 7

Author(s):

PISETSKY ◽

GONZALEZ

Keyword(s):

Systemic Lupus Erythematosus ◽

Lupus Erythematosus ◽

Human Subjects ◽

Systemic Lupus ◽

Normal Human ◽

Dna Size ◽

Antibodies To Dna

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Plasmid DNA Size Does Affect Nonviral Gene Delivery Efficiency in Stem Cells

Cellular Reprogramming ◽

10.1089/cell.2011.0093 ◽

2012 ◽

Vol 14 (2) ◽

pp. 130-137 ◽

Cited By ~ 28

Author(s):

Sofia Ribeiro ◽

Juergen Mairhofer ◽

Catarina Madeira ◽

Maria Margarida Diogo ◽

Cláudia Lobato da Silva ◽

...

Keyword(s):

Stem Cells ◽

Gene Delivery ◽

Plasmid Dna ◽

Nonviral Gene Delivery ◽

Dna Size ◽

Delivery Efficiency

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Near-atomic resolution structures of interdigitated nucleosome fibres

Nature Communications ◽

10.1038/s41467-020-18533-2 ◽

2020 ◽

Vol 11 (1) ◽

Cited By ~ 1

Author(s):

Zenita Adhireksan ◽

Deepti Sharma ◽

Phoi Leng Lee ◽

Curt A. Davey

Keyword(s):

Chromosome Structure ◽

Linker Histone ◽

Atomic Level ◽

Atomic Resolution ◽

Histone Binding ◽

Chromosome Architecture ◽

Genome Dynamics ◽

Modes Of Interaction ◽

Dna Size ◽

Fibre Packing

Abstract Chromosome structure at the multi-nucleosomal level has remained ambiguous in spite of its central role in epigenetic regulation and genome dynamics. Recent investigations of chromatin architecture portray diverse modes of interaction within and between nucleosome chains, but how this is realized at the atomic level is unclear. Here we present near-atomic resolution crystal structures of nucleosome fibres that assemble from cohesive-ended dinucleosomes with and without linker histone. As opposed to adopting folded helical ‘30 nm’ structures, the fibres instead assume open zigzag conformations that are interdigitated with one another. Zigzag conformations obviate extreme bending of the linker DNA, while linker DNA size (nucleosome repeat length) dictates fibre configuration and thus fibre–fibre packing, which is supported by variable linker histone binding. This suggests that nucleosome chains have a predisposition to interdigitate with specific characteristics under condensing conditions, which rationalizes observations of local chromosome architecture and the general heterogeneity of chromatin structure.

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DNA size in confined environments

Physical Chemistry Chemical Physics ◽

10.1039/c9cp01098j ◽

2019 ◽

Vol 21 (23) ◽

pp. 12566-12575 ◽

Cited By ~ 2

Author(s):

Marco Zoli

Keyword(s):

Dna Molecules ◽

Site Specific ◽

Twist Conformation ◽

End Distance ◽

End To End ◽

Crowded Environments ◽

Dna Size ◽

Macroscopic Parameters

For short DNA molecules in crowded environments, we evaluate macroscopic parameters such as the average end-to-end distance and the twist conformation by tuning the strength of the site specific confinement driven by the crowders.

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