Evolution and molecular ecology
- Life on earth
- History of life on earth
- Review of major plant and animal groups
- Bird families and species as examples of evolutionary processes
- The theory of evolution
- History
- the concept of fitness
- Natural selection
- Sexual selection
- Genetic drift
- Variation in natural populations
- DNA and genes
- Types of variation
- Mutation
- Gene frequencies
- Hardy-Weinberg ratio
- Additive genetic model
- Quantitative variation and fitness
- Maintenance of variation
- Measuring genetic variation
- Quantitative genetics
- Molecular identification
- Molecular identification methods
- Identifying individuals
- Hybridisation
- Defining species Variation in natural populations
- Phylogeography
- Genetic variation in space
- Genetic variation in time
- Applied phylogeography
- Taxonomy
- Principles and cladistics
- Molecular phylogenies
- Comparative method
Principles of ecology: individuals to ecosystems
- Basic ecological processes4
- Definitions
- Abiotic components of ecosystems
- Energy flux through ecosystems
- Terrestrial ecosystems
- Review of major terrestrial ecosystems
- Role of history and geology
- Nutrients, soils & the decomposition cycle4
- Plant-herbivore interactions4
- Population dynamics4
- Abundance
- Measuring birth and death rates; life tables
- Demographic stochasticity
- Environmental stochasticity
- Intraspecific competition4
- Interspecific competition4
- Predation4
- Lotka-Volterra equations
- Parasitism
- Mutualism4,6
- The influence of population interactions4v
- Keystone species
- Functional groups
- Ecosystem engineering
- Behavioural ecology as a discipline and framework6
- Life history strategies6,3
- Solitary foraging behaviour6
- Group foraging behaviour and competition6
- Starvation/predation risk trade-off
- anti-predation behaviour6,5
- Choice of breeding habitat6
- Dispersal6,4
- Sexual selection6
- Mating systems and parental care6
- Cooperation and altruism6
- Communication6
Conservation biology
- What is conservation biology?
- Biodiversity theory and measures
- Extinctions
- Small and declining populations
- Metapopulations
- Habitat fragmentation
- Edge effects
- Island biogeography
- Theory of management of harvested populations
- Sustainable forestry uses
- Bushmeat and hunting
- Pest control
- Behavioural ecology and conservation
- Individual based population models
- The species approach to conservation
- Conservation genetics
- Captive breeding
- Prioritisation of conservation of genetic resources
- Reintroductions
- The habitat approach to conservation
- Habitat management
- Habitat creation
- The area or hotspot approach to conservation
- The protected area approach
- Nature reserve design
- Networks of protected areas
- Humans and protected areas
- The economics of nature conservation
- Direct economic values
- Indirect values
- Ecotourism
- Cost benefit analysis
- Conservation education
- Teaching and learning
- Changing behaviours
- Networking and marketing for conservation
- Conservation policy and politics
- Common land and resources
- Human needs other than conservation and conflicts
- Local people and conservation
- Global issues
- Sustainable development
- Ecosystem service
- Anthropogenic effects on ecosystems
- Pollution
- Introduced species
- Global warming
- Genetically modified crops
- Urban habitats
- Agricultural habitats
- Bird conservation in Africa: an overview case study Hazell Thompson
Biostatistics and experimental design
Biostatistics and experimental design
To be taught primarily within workshops using R, where the students tackle problems from real datasets, and often data sets they have collected as part of the Field Techniques course below.
- The scientific method
- Philosophy of science
- Why is statistics impotant?
- What is hypothesis testing?
- What is a null hypothesis?
- Type I and Type II error
- Power
- Stratified random sampling
- Pseudoreplication
- Bias
- Biological versus statistical significance
- Power and accuracy in estimating mean from samples
- Principles of experimental design
- How to design an experiment
- Statistics and experimental design
- Different types of data
- Continuous variables
- Factors
- Distribution and measures of central tendency
- Frequency and histograms
- The normal distribution
- Binomial and Poisson distributions
- Transformations
- Mean and standard deviation
- Confidence intervals
- General linear modelling
- Degrees of freedom
- Introduction to predictive equations – model building
- Residuals and normality (assumptions of parametric tests)
- Correlation and covariance
- Parametric correlation
- Spearman rank
- Data reduction
- Non-parametric statistics
- How do they differ from parametric tests
- Mann-whitney U tests
- Signs test
- Kruskall-Wallis 1-way ANOVA
- Frequency analysis
- chi square
- Exact probability tests
- Generalised linear mixed models
- Random factors
- Repeated measures
- Non-linear regression
- Curve fitting
- Binary logistic regression
- Poisson regression
Practical course 1: Field Techniques
Practical course 1: Field Techniques
To be taught primarily with the context of field exercises or min-projects where the students design a sampling program, and go out and collect the data.
- Basic field skills
- Field craft
- Observation techniques
- Binoculars and telescopes
- Recording data in the field
- Bird identification
- Bird topography
- Field marks
- Descriptions
- Use of field guides
- Use of bird calls and playback
- Sampling (in conjunction with Biostatistics and experimental design)
- Bird census techniques
- Species lists
- McKinnon lists
- Transects
- Point counts
- Distance sampling in the field
- Format of data for using DISTANCE
- Mayfield estimates
- Scale
- Vegetation density
- Vegetation characteristics
- Focal sampling
- Scan sampling
- Behavioural measures
- Life history traits
- Breeding parameters
- Nest survival
- Survival
- Habitat association
- Presence/absence and density
- Habitat classification
- Vegetation sampling
- Invertebrate sampling
- Measurement of abiotic factors
- Bird specific techniques
- Ringing and colour marking
- Biometrics
- Radio tracking
- Migration
- Diet estimation
- Foraging rates and energy intake
- Vigilance rates
Practical course 2: Computing skills
Practical course 2: Computing skills
- PC file management
- Sharing files
- Viruses
- Backups
- Word processing
- Word
- Reference databases
- End note or Reference Manager
- Internet resources and search skills
- Internet etiquette
- Spreadsheets
- Excel
- Uses and limitations
- Formulas
- Efficient data entry
- Organising analysis
- File management
- Code driven statistical analysis: R (and as an integral part of the Biostatistics course)
- Programming in R
- Code files
- Data exploration
- Data synthesis
- Data manipulation (compute, if, select etc.)
Practical course 3: Writing and Presentation skills
Practical course 3: Writing and Presentation skills
- Scientific writing
- Structure
- Editing
- Preparation of figures and tables
- Graphing data
- Graphics packages
- PowerPoint
- Great features to use in Powerpoint
- Misuse of Powerpoint
- The process and requirements of scientific publishing
- Peer review
- Refereeing
- Writing for a non-scientific audience
- Popular journalism
- Press releases
- Report writing
- Seminar presentation
- Speed and delivery styles
- Dealing with questions
Course Textbooks
The course follows these text books:
- Evolutionary genetics John Maynard Smith
- An introduction to molecular ecology Trevor Beebe & Graham Rowe
- Evolutionary ecology of birds Peter Bennett and Ian Owens
- Ecology: From Individuals to Ecosystems Begon, Townsend & Harper
- Behavioural Ecology: An evolutionary approach 4th Edition John Krebs & Nick Davies
- Behavioural Ecology Danchin, Giraldeau & Cezilly
- Conservation Science & Action William Sutherland
- Essentials of conservation biology Richard Primack 4th Edition
- Conservation education and outreach techniques Jacobson, McDuff & Monroe
- Conservation: Linking ecology, economics and culture Borgerhoff Mulder & Coppolillo
- The conservation handbook: research, management and policy William Sutherland
- Ecological census techniques: A handbook William Sutherland
- Bird Census techniques Colin Bibby et al.
- Bird ecology and conservation William Sutherland, Ian Newton & Rhys Green
- Modern statistics for the life sciences Alan Grafen & Rosie Hails
- Statistics: An introduction using R Michael J. Crawley