Use of average mutual information signatures to construct phylogenetic trees for fungi

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Average mutual information (AMI) has been applied to many fields, including various aspects of bioinformatics. In this paper, we evaluate its performance as a measure of evolutionary distance between sequences. We use the internal transcribed spacer (ITS) regions for 16 fungal sequences as representative sequences used for species comparison. We generate profiles based on the AMI for each species' ITS sequence. We then populate a distance matrix for the set of species using either a Euclidean or correlation distance between AMI profiles. We generate phylogenetic trees using the distance matrices as input. While these trees do not exactly match the accepted fungal phylogeny, there are sufficient commonalities to merit further investigation of AMI as a distance metric and tool for inferring relationships. We also simulate the evolution of an ITS sequence in order to observe how point mutations affect the distance between AMI profiles, concluding that a correlation distance performs slightly better than a Euclidean distance.

Original languageEnglish (US)
Title of host publication2017 IEEE International Conference on Electro Information Technology, EIT 2017
PublisherIEEE Computer Society
Pages398-403
Number of pages6
ISBN (Electronic)9781509047673
DOIs
StatePublished - Sep 27 2017
Event2017 IEEE International Conference on Electro Information Technology, EIT 2017 - Lincoln, United States
Duration: May 14 2017May 17 2017

Publication series

NameIEEE International Conference on Electro Information Technology
ISSN (Print)2154-0357
ISSN (Electronic)2154-0373

Other

Other2017 IEEE International Conference on Electro Information Technology, EIT 2017
CountryUnited States
CityLincoln
Period5/14/175/17/17

ASJC Scopus subject areas

  • Computer Science Applications
  • Information Systems
  • Control and Systems Engineering
  • Electrical and Electronic Engineering

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  • Cite this

    Sayood, K., Atkin, A. L., & Newcomb, G. (2017). Use of average mutual information signatures to construct phylogenetic trees for fungi. In 2017 IEEE International Conference on Electro Information Technology, EIT 2017 (pp. 398-403). [8053394] (IEEE International Conference on Electro Information Technology). IEEE Computer Society. https://doi.org/10.1109/EIT.2017.8053394