Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Evolution of simple sequence repeats

G I Bell1

  • 1Theoretical Biology and Biophysics MS K710, Los Alamos National Laboratory, NM 87545, USA.

Computers & Chemistry
|March 1, 1996
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Resting beta-cells - A functional reserve?

Diabetes & metabolism·2016
Same author

Cell-cell adhesion in the immune system.

Immunology today·2014
Same author

GSK-3β function in bone regulates skeletal development, whole-body metabolism, and male life span.

Endocrinology·2013
Same author

In vitro scan for enhancers at the TCF7L2 locus.

Diabetologia·2012
Same author

Association of the KCNJ11 variant E23K with type 2 diabetes in Indo-Trinidadians.

The West Indian medical journal·2012
Same author

Intrapancreatic delivery of human umbilical cord blood aldehyde dehydrogenase-producing cells promotes islet regeneration.

Diabetologia·2012
Same journal

Constructing a useful tool for characterizing amino acid conformers by means of quantum chemical and graph theory indices.

Computers & chemistry·2002
Same journal

CLiBE: a database of computed ligand binding energy for ligand-receptor complexes.

Computers & chemistry·2002
Same journal

On the solution of mixed-integer nonlinear programming models for computer aided molecular design.

Computers & chemistry·2002
Same journal

Use of the Numerov method to improve the accuracy of the spatial discretisation in finite-difference electrochemical kinetic simulations.

Computers & chemistry·2002
Same journal

Automatic identification by 13C NMR of substituent groups bonded in natural product skeletons.

Computers & chemistry·2002
Same journal

A new redundant variable pruning approach--minor latent variable perturbation-PLS used for QSAR studies on anti-HIV drugs.

Computers & chemistry·2002
See all related articles

Simple Sequence Repeats (SSRs) length distributions can be explained by unbiased random walk models. These models, including the Birth and Death Model and Random Walk Model, accurately represent SSR abundance and length variations in eukaryote DNA.

Area of Science:

  • Genetics
  • Bioinformatics
  • Population Genetics

Background:

  • Simple Sequence Repeats (SSRs) are highly polymorphic DNA regions in eukaryotes.
  • SSRs exhibit frequent length mutations, typically involving the gain or loss of a single repeat unit.
  • Understanding the mechanisms driving SSR length distributions is crucial for genetic studies.

Purpose of the Study:

  • To investigate whether unbiased random walk models can explain the observed abundances and length distributions of SSRs.
  • To compare two specific random walk models: the Birth and Death Model (BDM) and the Random Walk Model (RWM).

Main Methods:

  • Developed two unbiased random walk models: a continuous-time BDM and a discrete-time RWM.
  • Incorporated parameters for source rate (S) and termination time (T) reflecting mutation and selection processes.

Related Experiment Videos

  • Analyzed expected repeat numbers (N(k)) for infinite and finite termination times.
  • Compared model predictions with empirical data from GT.AC repeats in human DNA.

    • Main Results:

    • Both BDM and RWM provide reasonable fits to SSR length distributions when averaged over multiple loci.
    • The models accurately represent both the absolute number of loci and their length distributions.
    • Founder effects are significant for individual loci, making averaged data more suitable for model comparison.
    • For GT.AC repeats in humans, both models fit well with an initial repeat length (n0) of two units.

    Conclusions:

    • Unbiased random walk models, particularly when considering averaged data, can effectively explain SSR length distributions.
    • The BDM and RWM provide a theoretical framework for understanding SSR evolution and polymorphism.
    • The findings have implications for SSR marker selection and analysis in genetic research.