GeNeDis 2014 pp 163-172 | Cite as

Mitochondrial Fusion Through Membrane Automata

Conference paper
Part of the Advances in Experimental Medicine and Biology book series (AEMB, volume 820)

Abstract

Studies have shown that malfunctions in mitochondrial processes can be blamed for diseases. However, the mechanism behind these operations is yet not sufficiently clear. In this work we present a novel approach to describe a biomolecular model for mitochondrial fusion using notions from the membrane computing. We use a case study defined in BioAmbient calculus and we show how to translate it in terms of a P automata variant. We combine brane calculi with (mem)brane automata to produce a new scheme capable of describing simple, realistic models. We propose the further use of similar methods and the test of other biomolecular models with the same behaviour.

References

  1. 1.
    Alexiou A, Vlamos P (2012) A cultural algorithm for the representation of mitochondrial population. Adv Artif Int 2012:ID 457351. doi:10.1155/2012/457351 Google Scholar
  2. 2.
    Alexiou AT, Psiha MM, Rekkas JA, Vlamos PM (2011) A stochastic approach of mitochondrial dynamics. World Acad Sci Eng Technol 55, pp 77–80Google Scholar
  3. 3.
    Cardelli L (2005) Brane calculi. In: Computational methods in systems biology. Springer, New York, pp 257–278Google Scholar
  4. 4.
    Cardelli L, Păun G (2006) An universality result for a (mem) brane calculus based on mate/drip operations. Int J Found Comput Sci 17(01):49–68CrossRefGoogle Scholar
  5. 5.
    Chen H, Chan DC (2009) Mitochondrial dynamics-fusion, fission, movement, and mitophagy-in neurodegenerative diseases. Hum Mol Genet 18(R2):R169–R176PubMedCentralPubMedCrossRefGoogle Scholar
  6. 6.
    Csuhaj-Varjú E (2005) P automata. In: Membrane computing. Springer, New York, pp 19–35Google Scholar
  7. 7.
    Csuhaj-Varjú E (2010) P automata: concepts, results, and new aspects. In: Membrane computing. Springer, New York, pp 1–15Google Scholar
  8. 8.
    Csuhaj-Varjú E, Vaszil G (2003) P automata or purely communicating accepting p systems. In: Membrane computing. Springer, New York, pp 219–233Google Scholar
  9. 9.
    Csuhaj-Varjú E, Vaszil G (2008) (Mem) brane automata. Theor Comput Sci 404(1):52–60CrossRefGoogle Scholar
  10. 10.
    Csuhaj-Varjú E, Vaszil G (2013) On the power of p automata. In: Unconventional computation and natural computation. Springer, New York, pp 55–66Google Scholar
  11. 11.
    Freund R, Oswald M (2002) A short note on analysing p systems with antiport rules. Bull EATCS 8:231–236Google Scholar
  12. 12.
    Koski T (2001) Hidden Markov models for bioinformatics, vol 2. Springer, New YorkGoogle Scholar
  13. 13.
    Kubli DA, Gustafsson ÅB (2012) Mitochondria and mitophagy the yin and yang of cell death control. Circ Res 111(9):1208–1221PubMedCentralPubMedCrossRefGoogle Scholar
  14. 14.
    Longo DL, Archer SL (2013) Mitochondrial dynamics-mitochondrial fission and fusion in human diseases. New England J Med 369(23):2236–2251CrossRefGoogle Scholar
  15. 15.
    Martın-Vide C, Păun G, Pazos J, Rodrıguez-Patón A (2003) Tissue p systems. Theor Comput Sci 296(2):295–326CrossRefGoogle Scholar
  16. 16.
    Milner R, Parrow J, Walker D (1992) A calculus of mobile processes, I. Inf Comput 100(1):1–40CrossRefGoogle Scholar
  17. 17.
    Păun G (2000) Computing with membranes. J Comput System Sci 61(1):108–143CrossRefGoogle Scholar
  18. 18.
    Paun G, Rozenberg G, Salomaa A (2010) The Oxford handbook of membrane computing. Oxford University Press, Inc., OxfordCrossRefGoogle Scholar
  19. 19.
    Regev A, Panina EM, Silverman W, Cardelli L, Shapiro E (2004) Bioambients: an abstraction for biological compartments. Theor Comput Sci 325(1):141–167CrossRefGoogle Scholar
  20. 20.
    van der Bliek AM, Shen Q, Kawajiri S (2013) Mechanisms of mitochondrial fission and fusion. Cold Spring Harbor Persp Biol 55:a011072Google Scholar
  21. 21.
    Ye X, Tai W, Zhang D (2012) The early events of Alzheimer’s disease pathology: from mitochondrial dysfunction to bdnf axonal transport deficits. Neurobiol Aging 33(6):1122–e1PubMedGoogle Scholar

Copyright information

© Springer International Publishing Switzerland 2015

Authors and Affiliations

  1. 1.Department of InformaticsIonian UniversityCorfuGreece

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