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Printable Handouts
Navigable Slide Index
- Introduction
- Natural selection (1)
- Natural selection (2)
- New techninques for detecting natural selection
- Evolutionary medicine (1)
- Detecting natural selection at the molecular level
- Why care about genes?
- Mutation
- Genetic drift
- The rate of drift
- Mutation and drift in populations (1)
- Mutation and drift in populations (2)
- Theta
- Detecting selection - the big picture
- The fate of selected vs.unselected (neutral) alleles
- Types of tests for selection using genetic data
- Aims
- Hardy-Weinberg disequilibrium (1)
- Hardy-Weinberg disequilibrium (2)
- Hardy-Weinberg disequilibrium (3)
- Allele frequency difference tests (1)
- Allele frequency difference - Fst
- Different Fst for different genes
- Lots of allele frequency data available
- Different alleles are favored in different populations
- European versus East Asian
- Fst and heterozygocity
- Allele frequency difference tests (2)
- SLC24A5
- Allele frequency difference tests (3)
- Variable site freqeuncy spectrum-based tests
- Genetic variation in population - gene tree (1)
- Genetic variation in population - gene tree (2)
- Genetic variation in population - gene tree (3)
- Coalescence tree
- Types of tree shapes (1)
- Types of tree shapes (2)
- Estimating theta
- Tajima's D
- Tests related to Tajima's D
- Fay and Wu's H (1)
- Derived variants
- Fay and Wu's H (2)
- How big is big?
- Seperating selection from demography
- Examples of use of Tajima's D and related tests
- Hudson-Kreitman-Aguade (HKA) test
- HKA test - illustration (1)
- HKA test
- HKA test - illustration (2)
- Example of HKA test application
- Tajima's D, HKA and related tests
- Haplotype conservarion based selection tests
- Allele age, frequency and selection (1)
- Haplotype conservation
- Haplotype and new mutations
- Haplotype decay
- Haplotype decay by mutation
- Haplotype decay by recombination
- Haplotype decay and time
- Allele age, frequency and selection (1)
- Haplotype decay and EHH
- EHH
- EHH for old core
- EHH for new core
- Real EHH graph for CD40 ligand gene (TNFSF5)
- EHH for lactase persistance-associated allele
- Haplotype conservation tests
- Understanding disease by recently selected genes
- Genes subject to recent selection
- Tests based on codon change
- Synonymous and non-synonymous substitutions
- ds, dn and omega
- Protein omega values
- Comparison of human/chimpanzee omega values
- Expression of putative positivly selected genes
- Combining data on codons
- The McDonald-Kreitman test
- McDonald-kreitman test - example
- Codon change tests
- Human accelerated regions (HARs) (1)
- 49 HARs
- HAR1
- Human accelerated regions (HARs) (2)
- Summary
- Evolutionary medicine (2)
Topics Covered
- Mutation and variation in populations
- The fate of mutations under random genetic drift and natural selection
- Measures of variation
- Detecting signatures of natural selection in genomic data
Talk Citation
Thomas, M. (2015, October 31). Evolutionary genetics: the detection of natural selection using molecular data [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved December 22, 2024, from https://doi.org/10.69645/FIDH6971.Export Citation (RIS)
Publication History
Financial Disclosures
- Dr. Mark Thomas has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.
Evolutionary genetics: the detection of natural selection using molecular data
A selection of talks on Genetics & Epigenetics
Transcript
Please wait while the transcript is being prepared...
0:00
Welcome to my talk on Detecting Natural Selection Using Molecular Data.
0:07
Charles Darwin defined natural selection as the preservation of
favorable variations and the rejection of injurious variations.
The beauty of natural selection is in its simplicity and its explanatory power.
And of course, Mr. Darwin understood this as well as anybody.
But look at the second sentence here.
Variations, neither useful nor injurious,
would not be affected by natural selection and will be left a fluctuating element.
It is in this sentence,
as we will see later,
that we have the basis for detecting signatures of natural selection in our genes.
0:42
Natural selection is a slow process and we're used to thinking of its consequences,
that is adaptions, as occurring over vast periods of time.
0:53
But new techniques for detecting natural selection based upon the analysis of
genetic variation allow us to see if
genes are evolving by natural selection within populations,
estimate when that natural selection started,
see if separate populations are evolving
differently in response to different environments,
and identify which genes have been evolving the most since two species split.
1:18
In the context of evolutionary medicine,
these new techniques allow us to examine the evolution of human traits,
to explain the presence of some inherited diseases,
to identify genes of medical importance,
to understand the processes by which pathogens
adapt to medical intervention and immunity,
and ultimately to investigate what makes us human.
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