Geneland is a computer program whose main goal is to process
individual multilocus genetic data to detect population
structure, i.e sub-populations at (or close to) Hardy-Weinberg and linkage equilibrium.
Although the concept of population refers here to
genetic structure only, it is often realistic to assume that
populations are spatially organised. Toward this aim, Geneland is based on a spatially explicit model that
can make use of both geographic
and genetic informations to estimate the number of populations in a dataset and
delineate their spatial organisation.
Important areas of application include landscape genetics, conservation genetics, human genetics and epidemiology.
Geneland can handle all common types of co-dominant or dominant markers
(microsatellites, SNPs, AFLP, sequence data).
The program is released as an add-on to the free statistical program R and is currently available for Linux,
Mac-OS and Windows.
It includes a
fully clickable user interface requiring no particular knowledge of R.
G. Guillot and F. Santos
A computer program to simulate multilocus genotype data with spatially
auto-correlated allele frequencies. Molecular Ecology Resources,
9(4), 1112-1120, 2009.
[preprint] [Supplementary material]
G. Guillot.
Inference of structure in subdivided populations at low levels of genetic
differentiation. The correlated allele frequencies model revisited. Bioinformatics,
24:2222-2228, 2008.
[preprint] [Supplementary material]
G. Guillot, F. Santos and A. Estoup.
Analysing georeferenced population genetics data with Geneland:
a new algorithm to deal with null alleles and a
friendly graphical user interface. Bioinformatics, 24(11):1406-1407, 2008.
[preprint][Supplementary material]
G. Guillot, Mortier, F., Estoup, A.
Geneland: A program for landscape genetics. Molecular Ecology Notes, 5, 712-715, 2005.
G. Guillot, Estoup, A., Mortier, F. Cosson, J.F.
A spatial statistical model for landscape genetics. Genetics, 170, 1261-1280, 2005.
[preprint]
G. Guillot, R. Leblois, A. Coulon, A. Frantz
Statistical methods in spatial genetics. Molecular Ecology, to appear.
[preprint][Supplementary material]
G. Guillot
On the inference of spatial structure from population genetics data using the Tess program.
Bioinformatics 2009 (To appear)
[preprint] [Supplementary material]
M. Hansen and J. Hemmer-Hansen Landscape genetics goes to sea. Journal of Biology 6:6 2007.
[J. Biol. web site]
L. Excoffier and G. Heckel
Computer programs for population genetics data analysis: a survival guide.
Nature Reviews Genetics 7, 745-758, October 2006.
[pdf]
J. A. Galarza, J. Carreras-Carbonell,
E.Macpherson, M.Pascual, S. Roques, G.F. Turner and C. Ricod . The influence of oceanographic fronts and early-life-history traits
on connectivity among littoral fish species. PNAS, 106(5), 1473-1478, 2009.
[PNAS web site]
L. Joseph, G. Dolman, S. donnellan, K. M. Saint,
M. L. Berg, A.T. Bennet. Where and when does a ring start and end? Testing the ring-species hypothesis
in a species complex of Australian parrots. Proc. Roy. Soc. B, 275: 2431-2440, 2008.
[Proc. B web site]
Coulon A., Fitzpatrick J.W., Bowman R., Stith B.M.,
Makarewich C.A., Stenzler L.M. and Lovette I.J.
Congruent population structure inferred from dispersal behaviour and
intensive genetic surveys of the threatened Florida Scrub-Jay
(Aphelocoma coerulescens). Molecular Ecology, 17 1685-1701, 2008. [Mol. Ecol. web site][News and views]
U. Hannelius, E. Salmela,
T. Lappalainen, G. Guillot, C.M. Lindgren, U. von
Döbeln, P. Lahermo, P. and J. Kere. Population
substructure in Finland and Sweden revealed by a small number of
unlinked autosomal SNPs. BMC Genetics, 9:54, 2008.
[BMC Genetics]
B.N.Sacks, D.L. Bannasch, B.B. Chomel and H.B. Ernest
Generalist Species Can Diversify Populations in a Heterogeneous
Ecoregion. Molecular Biology and Evolution 25(7):1384-1394, 2008.
[Mol. Biol. Evol. web site]
M. Fontaine, S. Baird, et al.
Rise of oceanographic barriers in continuous populations of a cetacean:
the genetic structure of harbour porpoises in Old World waters.
BMC Biology, 2007.doi:10.1186/1741-7007-5-30
[pdf]
A. Coulon, G. Guillot
G., Cosson J.-F., Angibault J.M.A. Aulagnier S.,
Cargnelutti B., Galan M., Hewison A.J.M.
Genetic structure is influenced by lansdcape features. Empirical evidence from a roe deer
population. Molecular Ecology, 15 1669-1679, 2006.
[preprint]