SMILE

Stochastic Models for the Inference of Life Evolution

Bibtex

@article{raquin_experimental_2008,
Author = {Raquin, Anne-Laure and Depaulis, Frantz and Lambert,
Amaury and Galic, Nathalie and Brabant, Philippe and
Goldringer, Isabelle},
Title = {Experimental estimation of mutation rates in a wheat
population with a gene genealogy approach},
Journal = {Genetics},
Volume = {179},
Number = {4},
Pages = {2195--2211},
abstract = {Microsatellite markers are extensively used to
evaluate genetic diversity in natural or experimental
evolving populations. Their high degree of polymorphism
reflects their high mutation rates. Estimates of the
mutation rates are therefore necessary when
characterizing diversity in populations. As a
complement to the classical experimental designs, we
propose to use experimental populations, where the
initial state is entirely known and some intermediate
states have been thoroughly surveyed, thus providing a
short timescale estimation together with a large number
of cumulated meioses. In this article, we derived four
original gene genealogy-based methods to assess
mutation rates with limited bias due to relevant model
assumptions incorporating the initial state, the number
of new alleles, and the genetic effective population
size. We studied the evolution of genetic diversity at
21 microsatellite markers, after 15 generations in an
experimental wheat population. Compared to the parents,
23 new alleles were found in generation 15 at 9 of the
21 loci studied. We provide evidence that they arose by
mutation. Corresponding estimates of the mutation rates
ranged from 0 to 4.97 x 10(-3) per generation (i.e.,
year). Sequences of several alleles revealed that
length polymorphism was only due to variation in the
core of the microsatellite. Among different
microsatellite characteristics, both the motif repeat
number and an independent estimation of the Nei
diversity were correlated with the novel diversity.
Despite a reduced genetic effective size, global
diversity at microsatellite markers increased in this
population, suggesting that microsatellite diversity
should be used with caution as an indicator in
biodiversity conservation issues.},
doi = {10.1534/genetics.107.071332},
issn = {0016-6731},
language = {eng},
month = aug,
pmcid = {PMC2516091},
pmid = {18689900},
year = 2008
}