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Wavelet spectrogram - based DNA analysis for the assessment of Cryptosporidium spp. Gp60 subgenotypes variation

I. M. NEAGOE1,2, S. MICLOS3,* , D. POPESCU4,5, D. SAVASTRU3, V. I. R. NICULESCU6, M. DAMIAN2, L. LAZAR1,7, S. DONTU3, M. TAUTAN3

Affiliation

  1. “Carol Davila” University of Medicine and Pharmacy, 19-21 D. Gerota St., Bucharest, Romania
  2. National Institute of R&D for Microbiology and Immunology “Cantacuzino”, Spl. Independentei 103, Bucharest, Romania
  3. National Institute of R&D for Optoelectronics - INOE 2000, 409 Atomistilor St., Magurele, Ilfov, RO-077125, Romania
  4. Institute of Mathematical Statistics and Applied Mathematics of Romanian Academy, Calea 13 Septembrie 13, Bucharest, Romania
  5. Faculty of Biology, University of Bucharest, Spl. Independentei 91-95, Bucharest, Romania
  6. National Institute for Laser, Plasma and Radiation Physics, 409 Atomistilor St., P.O.Box MG-36, Bucharest-Magurele, RO-077125, Romania
  7. “Colentina” Clinical Hospital, 19-21 Stefan cel Mare St., Bucharest, Romania

Abstract

Some variable regions of Cryptosporidium gp60 gene may have a potential implication in the pathogenesis of disease caused by this parasite. DNA sequencing provides enough material to specific computational processing methods for the characterization of DNA diversity. A wavelet spectrogram method has been adopted to evaluate the degree of similarity and difference of variable DNA information between three subgenotypes of two species of Cryptosporidium parasite. One of the three wavelet spectrogram analyzed DNA sequences, was extracted, amplified, sequenced in our laboratories, and deposited in GenBank. Using additional a mathematically index and Multidimensional Scaling tool, we emphasized some features of analyzed Gp60 subgenotypes in the perspective of wavelet analysis..

Keywords

Wavelet spectrogram analysis, Multidimensional Scaling, DNA sequence, Cryptosporidium genetic diversity, Gp60 gene.

Citation

I. M. NEAGOE, S. MICLOS, D. POPESCU, D. SAVASTRU, V. I. R. NICULESCU, M. DAMIAN, L. LAZAR, S. DONTU, M. TAUTAN, Wavelet spectrogram - based DNA analysis for the assessment of Cryptosporidium spp. Gp60 subgenotypes variation, Optoelectronics and Advanced Materials - Rapid Communications, 8, 7-8, July-August 2014, pp.814-819 (2014).

Submitted at: Dec. 4, 2013

Accepted at: July 10, 2014