Web Access Research Portal

Researcher: Charleston, M (Associate Professor Michael Charleston)

Fields of Research

Population, Ecological and Evolutionary Genetics
Analysis of Algorithms and Complexity
Bioinformatics Software
Systems Biology
Higher Education
Host-Parasite Interactions
Simulation and Modelling
Forestry Management and Environment
Phylogeny and Comparative Analysis
Microbial Ecology
Pattern Recognition and Data Mining
Animal Systematics and Taxonomy
Speciation and Extinction
Behavioural Ecology
Terrestrial Ecology
Biological Mathematics
Conservation and Biodiversity
Computer-Human Interaction
Veterinary Epidemiology
Environmental Monitoring

Research Objectives

Expanding Knowledge in the Biological Sciences
Teaching and Instruction Technologies
Forest and Woodlands Land Management
Forest and Woodlands Flora, Fauna and Biodiversity
Expanding Knowledge in the Environmental Sciences
Application Software Packages (excl. Computer Games)
Ecosystem Adaptation to Climate Change
Native Forests
Climate Change Mitigation Strategies
Flora, Fauna and Biodiversity at Regional or Larger Scales
Ecosystem Assessment and Management of Forest and Woodlands Environments
Farmland, Arable Cropland and Permanent Cropland Flora, Fauna and Biodiversity

Career Best Publications

Research Publications

A conceptual model for reflecting on expected learning vs. demonstrated student performance; 15th Australasian Computing Education Conference (ACE2013)
A simple model explains the dynamics of preferential host switching among mammal RNA viruses; Evolution
A sub-quadratic time and space complexity solution for the dated tree reconciliation problem for select tree topologies; Workshop on Algorithms in Bioinformatics 2015
A time and space complexity reduction for coevolutionary analysis of trees generated under both a Yule and Uniform model; Computational Biology and Chemistry
Active subnetwork recovery with a mechanism-dependent scoring function; with application to angiogenesis and organogenesis studies; Bioinformatics
Adaptive collective foraging in groups with conflicting nutritional needs; Royal Society Open Science
An improved node mapping algorithm for the cophylogeny reconstruction problem; Coevolution: An Open Access Journal
Australian spiny mountain crayfish and their temnocephalan ectosymbionts: an ancient association on the edge of coextinction?; Proceedings of the Royal Society of London: Biological Sciences
Biological Network Edit Distance; Journal of Computational Biology
Collective foraging in spatially complex nutritional environments; Philosophical Transactions of the Royal Society B-Biological Sciences
Cospeciation; Encyclopedia of Evolutionary Biology
Draft Genome Sequence of Subantarctic Rhodococcus sp. Strain 1139; Genome Announcements
Draft genome sequences of three sub-Antarctic Rhodococcus spp., including two novel psychrophilic genomospecies; Genome Announcements
Draft sequences of two novel sub-Antarctic Williamsia species; Genome Announcements
Event-Based Cophylogenetic Comparative Analysis; Modern Phylogenetic Comparative Methods and their Application in Evolutionary Biology
Evolution of endogenous retroviruses in the Suidae: evidence for different viral subpopulations in African and Eurasian host species; Bmc Evolutionary Biology
Evolving nutritional strategies in the presence of competition: a geometric agent-based model; PLoS Computational Biology
From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem; Molecular Phylogenetics and Evolution
Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences; Mycologia
How to test bioinformatics software?; Biophysical Reviews
Introducing TreeCollapse: a novel greedy algorithm to solve the cophylogeny reconstruction problem; BMC Bioinformatics
Mining autograding data in computer science education; 18th Australasian Computer Science Week
Mitochondrial genome sequencing reveals potential origins of the scabies mite Sarcoptes scabiei infesting two iconic Australian marsupials; BMC Evolutionary Biology
Modelling nutrition across organizational levels: from individuals to superorganisms; Journal of Insect Physiology
Network modelling of gene regulation; Biophysical Reviews
Node fingerprinting: an efficient heuristic for aligning biological networks; Journal of Computational Biology
Node handprinting: a scalable and accurate algorithm for aligning multiple biological networks; Journal of Computational Biology
Nutritional ecology beyond the individual: a conceptual framework for integrating nutrition and social interactions; Ecology Letters
Phylogenetic codivergence supports coevolution of mimetic Heliconius butterflies; PLoS One
Phylogeny; Reference Module in Life Sciences (LIFE)
RASCAL: A randomized approach for coevolutionary analysis; Journal of Computational Biology
Simple, rapid and accurate genotyping-by-sequencing from aligned whole genomes with ArrayMaker; Bioinformatics
The emergence of sarcoptic mange in Australian wildlife: an unresolved debate; Parasites and Vectors
Towards sub-quadratic time and space complexity solutions for the dated tree reconciliation problem; Algorithms for Molecular Biology
Verification of phylogenetic inference programs using metamorphic testing; Journal of Bioinformatics and Computational Biology
Wing patterning genes and coevolution of Müllerian mimicry in Heliconius butterflies: support from phylogeography, cophylogeny, and divergence times; Evolution
WiSPA: a new approach for dealing with widespread parasitism; Quantitative Biology

Research Projects

A new integrated approach for ecologically sustainable forest management; Australian Research Council (ARC)
Evolutionary history and impact of adeno-associated viruses in Australia; Australian Research Council (ARC)
Machine learning algorithms to classify bird calls from acoustic data

Research Candidate Supervision