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Quantifying population structure on short timescales

Joost Raeymaekers, Luc Lens UGent, Frederik Van den Broeck, Stefan Van Dongen and Filip AM Volckaert (2012) MOLECULAR ECOLOGY. 21(14). p.3458-3473
abstract
Quantifying the contribution of the various processes that influence population genetic structure is important, but difficult. One of the reasons is that no single measure appropriately quantifies all aspects of genetic structure. An increasing number of studies is analysing population structure using the statistic D, which measures genetic differentiation, next to GST, which quantifies the standardized variance in allele frequencies among populations. Few studies have evaluated which statistic is most appropriate in particular situations. In this study, we evaluated which index is more suitable in quantifying postglacial divergence between three-spined stickleback (Gasterosteus aculeatus) populations from Western Europe. Population structure on this short timescale (10 000 generations) is probably shaped by colonization history, followed by migration and drift. Using microsatellite markers and anticipating that D and GST might have different capacities to reveal these processes, we evaluated population structure at two levels: (i) between lowland and upland populations, aiming to infer historical processes; and (ii) among upland populations, aiming to quantify contemporary processes. In the first case, only D revealed clear clusters of populations, putatively indicative of population ancestry. In the second case, only GST was indicative for the balance between migration and drift. Simulations of colonization and subsequent divergence in a hierarchical stepping stone model confirmed this discrepancy, which becomes particularly strong for markers with moderate to high mutation rates. We conclude that on short timescales, and across strong clines in population size and connectivity, D is useful to infer colonization history, whereas GST is sensitive to more recent demographic events.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
GENETIC DIFFERENTIATION, FUNDAMENTAL-CONCEPTS, F-ST, STICKLEBACK GASTEROSTEUS-ACULEATUS, population genetics, parallel evolution, microsatellites, landscape genetics, genetic divergence, isolation by distance, SELECTION, EVOLUTION, DNA, DIVERGENCE, G(ST), COMPUTER-PROGRAM
journal title
MOLECULAR ECOLOGY
Mol. Ecol.
volume
21
issue
14
pages
3458 - 3473
Web of Science type
Article
Web of Science id
000306087100009
JCR category
ECOLOGY
JCR impact factor
6.275 (2012)
JCR rank
10/135 (2012)
JCR quartile
1 (2012)
ISSN
0962-1083
DOI
10.1111/j.1365-294X.2012.05628.x
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
3218071
handle
http://hdl.handle.net/1854/LU-3218071
date created
2013-05-18 13:55:18
date last changed
2016-12-19 15:47:19
@article{3218071,
  abstract     = {Quantifying the contribution of the various processes that influence population genetic structure is important, but difficult. One of the reasons is that no single measure appropriately quantifies all aspects of genetic structure. An increasing number of studies is analysing population structure using the statistic D, which measures genetic differentiation, next to GST, which quantifies the standardized variance in allele frequencies among populations. Few studies have evaluated which statistic is most appropriate in particular situations. In this study, we evaluated which index is more suitable in quantifying postglacial divergence between three-spined stickleback (Gasterosteus aculeatus) populations from Western Europe. Population structure on this short timescale (10 000 generations) is probably shaped by colonization history, followed by migration and drift. Using microsatellite markers and anticipating that D and GST might have different capacities to reveal these processes, we evaluated population structure at two levels: (i) between lowland and upland populations, aiming to infer historical processes; and (ii) among upland populations, aiming to quantify contemporary processes. In the first case, only D revealed clear clusters of populations, putatively indicative of population ancestry. In the second case, only GST was indicative for the balance between migration and drift. Simulations of colonization and subsequent divergence in a hierarchical stepping stone model confirmed this discrepancy, which becomes particularly strong for markers with moderate to high mutation rates. We conclude that on short timescales, and across strong clines in population size and connectivity, D is useful to infer colonization history, whereas GST is sensitive to more recent demographic events.},
  author       = {Raeymaekers, Joost and Lens, Luc and Van den Broeck, Frederik and Van Dongen, Stefan and Volckaert, Filip AM},
  issn         = {0962-1083},
  journal      = {MOLECULAR ECOLOGY},
  keyword      = {GENETIC DIFFERENTIATION,FUNDAMENTAL-CONCEPTS,F-ST,STICKLEBACK GASTEROSTEUS-ACULEATUS,population genetics,parallel evolution,microsatellites,landscape genetics,genetic divergence,isolation by distance,SELECTION,EVOLUTION,DNA,DIVERGENCE,G(ST),COMPUTER-PROGRAM},
  language     = {eng},
  number       = {14},
  pages        = {3458--3473},
  title        = {Quantifying population structure on short timescales},
  url          = {http://dx.doi.org/10.1111/j.1365-294X.2012.05628.x},
  volume       = {21},
  year         = {2012},
}

Chicago
Raeymaekers, Joost, Luc Lens, Frederik Van den Broeck, Stefan Van Dongen, and Filip AM Volckaert. 2012. “Quantifying Population Structure on Short Timescales.” Molecular Ecology 21 (14): 3458–3473.
APA
Raeymaekers, J., Lens, L., Van den Broeck, F., Van Dongen, S., & Volckaert, F. A. (2012). Quantifying population structure on short timescales. MOLECULAR ECOLOGY, 21(14), 3458–3473.
Vancouver
1.
Raeymaekers J, Lens L, Van den Broeck F, Van Dongen S, Volckaert FA. Quantifying population structure on short timescales. MOLECULAR ECOLOGY. 2012;21(14):3458–73.
MLA
Raeymaekers, Joost, Luc Lens, Frederik Van den Broeck, et al. “Quantifying Population Structure on Short Timescales.” MOLECULAR ECOLOGY 21.14 (2012): 3458–3473. Print.