Cleavage pattern of DNA caused by endonuclease: Theoretical modeling and experimental verification

Shio Inagaki, Li Liu, Masahiro Takinoue, Kenichi Yoshikawa

Research output: Contribution to journalArticle

Abstract

In apoptotic cells, genomic DNA molecules are fragmented into multiple fragments with lengths that are integer multiples of approximately 180-200 base pairs (bp), i.e., the size of a single nucleosome. Here we propose a simple mathematical model for interpreting this cleavage pattern of DNA. Under the condition of a purely stochastic cleavage process, we derive a time evolution of the probability distribution of the fragment length by a Poisson distribution. We examine the applicability of our model by analyzing experimental results with apoptotic cells. Our model enables us to satisfactorily interpret the experimental trends. Interestingly, this theoretical fitting of the experimental data provides kinetic information for the cleavage reaction.

Original languageEnglish
Article number063701
JournalApplied Physics Letters
Volume96
Issue number6
DOIs
Publication statusPublished - Feb 22 2010

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cleavage
deoxyribonucleic acid
fragments
integers
mathematical models
trends
kinetics
molecules

All Science Journal Classification (ASJC) codes

  • Physics and Astronomy (miscellaneous)

Cite this

Cleavage pattern of DNA caused by endonuclease : Theoretical modeling and experimental verification. / Inagaki, Shio; Liu, Li; Takinoue, Masahiro; Yoshikawa, Kenichi.

In: Applied Physics Letters, Vol. 96, No. 6, 063701, 22.02.2010.

Research output: Contribution to journalArticle

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