Constructing Phylogenetic Networks based on Trinets

Oldman, James (2015) Constructing Phylogenetic Networks based on Trinets. Doctoral thesis, University of East Anglia.

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The motivation of phylogenetic analysis is to discover the evolutionary
relationships between species, with the broader aim of understanding
the origins of life. Our understanding of the molecular character-
istics of species through DNA sequencing permanently changed the
approach to understanding the evolution of species. Indeed, the ad-
vancement of technology has played a major role in the fast sequencing
of DNA as well as the use of computers in solving biological problems
in general. These evolutionary relationships are often visualised and
represented using a phylogenetic tree. As a natural generalisation of
phylogenetic trees, phylogenetic networks are used in biology to rep-
resent evolutionary histories that contain reticulate, or non-treelike
events such as recombination, hybridisation and horizontal gene trans-
fer. The reconstruction of explicit phylogenetic networks from biolog-
ical data is currently an active area of phylogenetics research. Here
we consider the problem of constructing such networks from trinets,
that is, phylogenetic networks on three leaves. More speci�cally, we
present the SeqTrinet and TriLoNet methods, which form a supernet-
work based approach to constructing level-1 phylogenetic networks
directly from multiple sequence alignments.

Item Type: Thesis (Doctoral)
Faculty \ School: Faculty of Science > School of Computing Sciences
Depositing User: Users 7376 not found.
Date Deposited: 22 Jun 2016 08:44
Last Modified: 30 Sep 2016 00:38


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