Molecular Evolution Simulations

Molecular Evolution Simulations Visually

Explore molecular evolution - the study of evolutionary changes at the molecular level. Learn through interactive visualizations, simulations, and detailed examples.

Molecular Evolution DNA & Protein Mutations Sequence Divergence Phylogenetic Relationships Selective Constraints Molecular Clocks Visual Simulation

What is Molecular Evolution?

Molecular evolution is the study of evolutionary changes at the molecular level, primarily through the analysis of DNA, RNA, and protein sequences. It examines how genetic sequences change over time and how these changes contribute to evolutionary processes such as speciation, adaptation, and the emergence of new functions.

Molecular Evolution Processes

Molecular Clock

Interactive visualization showing the molecular clock hypothesis and rate of sequence divergence

Phylogenetic Tree Builder

Visualization of evolutionary relationships and phylogenetic tree construction

Interactive Molecular Evolution Simulation

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Process Steps

1

Sequence Alignment

Align homologous DNA, RNA, or protein sequences to identify similarities and differences.

2

Identify Mutations

Detect nucleotide or amino acid substitutions, insertions, and deletions.

3

Calculate Genetic Distance

Measure evolutionary distance based on sequence divergence.

4

Construct Phylogeny

Build evolutionary trees showing relationships between sequences.

5

Estimate Divergence Times

Use molecular clock to estimate when lineages diverged.

Molecular Evolution Calculators

Molecular Clock Calculator

Estimated Divergence Time:

Enter values and click calculate to see results

Genetic Distance Calculator

Result:

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Differences from Related Fields

Molecular Evolution vs. Population Genetics

Molecular Evolution: Focuses on evolutionary changes at the molecular level, analyzing DNA/RNA/protein sequences.

Population Genetics: Studies genetic variation within populations and how allele frequencies change over time.

Molecular Evolution vs. Phylogenetics

Molecular Evolution: Studies the processes that cause molecular changes over evolutionary time.

Phylogenetics: Focuses on reconstructing evolutionary relationships and building phylogenetic trees.

Molecular Evolution vs. Comparative Genomics

Molecular Evolution: Examines evolutionary processes at the molecular level across time.

Comparative Genomics: Compares entire genomes between different species at a specific point in time.

Real-World Examples

Example: Human-Chimpanzee Divergence

Comparative analysis of human and chimpanzee genomes reveals that they share approximately 98.8% of their DNA sequences. Using molecular clock analysis, scientists estimate that the human and chimpanzee lineages diverged approximately 5-7 million years ago.

Molecular Evolution Insights:

  • Most differences are in non-coding regions
  • Positive selection in genes related to brain development
  • Conservation of essential genes across both species

Result: Molecular evolution analysis provides precise estimates of divergence time and identifies genes under selection.

Example: HIV Molecular Evolution

Analysis of HIV sequences using molecular evolution techniques revealed that HIV-1 group M originated from a single cross-species transmission from chimpanzees to humans around 1920 in Kinshasa, Democratic Republic of Congo. The virus has since diversified into multiple subtypes.

Molecular Evolution Principles:

  • Rapid mutation rate due to error-prone reverse transcriptase
  • High genetic diversity within infected individuals
  • Selection pressure from immune system drives evolution

Result: Molecular evolution analysis traced the origin and spread of HIV, informing public health strategies.

Example: Lactase Persistence Evolution

The ability to digest lactose in adulthood (lactase persistence) evolved independently in multiple human populations through different mutations in regulatory regions near the lactase gene. Molecular evolution analysis shows this trait evolved around 7,500-10,000 years ago in association with animal domestication.

Molecular Evolution Principles:

  • Convergent evolution of similar traits through different mutations
  • Positive selection in dairy farming populations
  • Regulatory mutations rather than protein-coding changes

Result: Molecular evolution reveals how human cultural practices shaped genetic evolution.

Multiple Choice Questions

1. What is the molecular clock hypothesis?

2. What does the neutral theory of molecular evolution propose?

3. Which is a characteristic of synonymous mutations?

4. What is the typical rate of molecular evolution in mammals?

5. What is purifying selection?

6. Which evolutionary force is most important at the molecular level?

Export/Import Data

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