Properties of Topological Networks of Flexible Polygonal Chains

• Autorzy: J. Arsuaga , Y. Diao , M. Klingbeil , V. Rodriguez
• Języki publikacji: EN

Abstrakty

EN

Trypanosomatida parasites, such as Trypanosoma and Leishmania, are the cause of deadly diseases in many third world countries. The three dimensional structure of their mitochondrial DNA, known as kinetoplast DNA (kDNA), is unique since it is organized into several thousands of minicircles that are topologically linked. How and why the minicircles form such a network have remained unanswered questions. In our previous work we have presented a model of network formation that hypothesizes that the network is solely driven by the confinement of minicircles. Our model shows that upon confinement a percolation network forms. This network grows into a space filling network, called saturation network, upon further confinement of minicircles. Our model also shows, in agreement with experimental data, that the mean valence of the network (that is, the average number of minicircles topologically linked to any minicircle in the network) grows linearly with minicircle density. In our previous studies however we disregarded DNA flexibility and used rigid minicircles to model DNA, here we address this limitation by allowing minicircles to be flexible. Our numerical results show that the topological characteristics that describe the growth and topology of the minicircle networks have similar values to those observed in the case of rigid minicircles suggesting that these properties are robust and therefore a potentially adequate description of the networks observed in Trypanosomatid parasites.

Słowa kluczowe

EN

kDNA; minicircles; minicircle networks; random minicircle networks; linking

Kategorie tematyczne

• 57M25: Knots and links in S 3
• 92B99: None of the above, but in this section

• Wydawca: De Gruyter Open
• Czasopismo: Molecular Based Mathematical Biology
• Rocznik: 2014
• Tom: 2
• Numer: 1

Daty

otrzymano

2014-08-14

zaakceptowano

2014-09-29

online

2014-10-12

Twórcy

autor

J. Arsuaga

• Department of Mathematics, Department of Molecular and Cellular Biology, University of
  California at Davis, Davis CA 95616, USA

autor

Y. Diao

• Department of Mathematics and Statistics, University of North Carolina at Charlotte, Charlotte, NC 28223, USA

autor

M. Klingbeil

• Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA

autor

V. Rodriguez

• Department of Physics and Astronomy, San Francisco State University, San Francisco, CA 94116, USA

Bibliografia

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Identyfikatory

DOI

10.2478/mlbmb-2014-0007