Publication detail

Determination of relationship among mycoplasmas based on RGB and non-RGB spectrogram analysis

KUBICOVÁ, V. PROVAZNÍK, I.

Original Title

Determination of relationship among mycoplasmas based on RGB and non-RGB spectrogram analysis

Czech Title

Determination of relationship among mycoplasmas based on RGB and non-RGB spectrogram analysis

English Title

Determination of relationship among mycoplasmas based on RGB and non-RGB spectrogram analysis

Type

conference paper

Language

en

Original Abstract

The study of evolutionary relationships among groups of organisms is nowadays based on comparison of particular genes or families of genes. We suggest comparing information in whole genome for determination of similarity among organisms. In the present work, the RGB and non-RGB spectrogram analysis is discussed as a tool for determination of relationship among mycoplasmas. Spectrograms of four whole Mycoplasma genomes are constructed and significant features are extracted. We have included occurrence and position of tandem and dispread repetitive stretches and occurrence and position of large noncoding parts to the group of significant features. Based on this method, we have stated the relationship among four Mycoplasmas and our results were compared with a phylogenetic tree constructed by a hidden Markov model from sequences of proteins of known structure as presented in literature.

Czech abstract

The study of evolutionary relationships among groups of organisms is nowadays based on comparison of particular genes or families of genes. We suggest comparing information in whole genome for determination of similarity among organisms. In the present work, the RGB and non-RGB spectrogram analysis is discussed as a tool for determination of relationship among mycoplasmas. Spectrograms of four whole Mycoplasma genomes are constructed and significant features are extracted. We have included occurrence and position of tandem and dispread repetitive stretches and occurrence and position of large noncoding parts to the group of significant features. Based on this method, we have stated the relationship among four Mycoplasmas and our results were compared with a phylogenetic tree constructed by a hidden Markov model from sequences of proteins of known structure as presented in literature.

English abstract

The study of evolutionary relationships among groups of organisms is nowadays based on comparison of particular genes or families of genes. We suggest comparing information in whole genome for determination of similarity among organisms. In the present work, the RGB and non-RGB spectrogram analysis is discussed as a tool for determination of relationship among mycoplasmas. Spectrograms of four whole Mycoplasma genomes are constructed and significant features are extracted. We have included occurrence and position of tandem and dispread repetitive stretches and occurrence and position of large noncoding parts to the group of significant features. Based on this method, we have stated the relationship among four Mycoplasmas and our results were compared with a phylogenetic tree constructed by a hidden Markov model from sequences of proteins of known structure as presented in literature.

Keywords

RGB spectrogram, AR model DNA, DFT

RIV year

2012

Released

14.07.2012

Location

Řecko

ISBN

978-618-5009-04-5

Book

PROCEEDINGS of the 10th International Conference on INFORMATION COMMUNICATION TECHNOLOGIES IN HEALTH

Pages from

299

Pages to

305

Pages count

7

BibTex


@inproceedings{BUT93137,
  author="Vladimíra {Kubicová} and Ivo {Provazník}",
  title="Determination of relationship among mycoplasmas based on RGB and non-RGB spectrogram analysis",
  annote="The study of evolutionary relationships among groups of organisms is nowadays based on comparison of particular genes or families of genes. We suggest comparing information in whole genome for determination of similarity among organisms. In the present work, the RGB and non-RGB spectrogram analysis is discussed as a tool for determination of relationship among mycoplasmas. Spectrograms of four whole Mycoplasma genomes are constructed and significant features are extracted. We have included occurrence and position of tandem and dispread repetitive stretches and occurrence and position of large noncoding parts to the group of significant features. Based on this method, we have stated the relationship among four Mycoplasmas and our results were compared with a phylogenetic tree constructed by a hidden Markov model from sequences of proteins of known structure as presented in literature.",
  booktitle="PROCEEDINGS of the 10th International Conference on INFORMATION COMMUNICATION TECHNOLOGIES IN HEALTH",
  chapter="93137",
  howpublished="electronic, physical medium",
  year="2012",
  month="july",
  pages="299--305",
  type="conference paper"
}