nicolas puillandre - opening plenary
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Large scale species delimitation method for hyperdiverse groupsTRANSCRIPT
LARGE SCALE SPECIES DELIMITATION METHOD FOR HYPERDIVERSE GROUPS
Nicolas PuillandreGuillaume Achaz, Sarah Samadi
[email protected]@atheris.ch
Species hypothesesBarcodedatabase
…
?
Lophiotoma acuta
Lophiotoma jickelli
Turris garnonsii
Turridrupa bijubata
Gemmula unilineata
Species delimitation: the easy way
Most species already known, characters and criteria congruent
intra-interspecific limit deduced from the other species
Gemmula bianca n. sp.
de Queiroz 2007
"Species concepts"
Problem I : "The grey zone"
The characters do not differenciate at the same rythm
All the criteria will not lead to the same species hypotheses
Species = hypotheses validated or rejected with the addition of new data:
Criteria: Similarity, Biological (direct and indirect), PhylogeneticCharacters: DNA, Morphology, Ecology, Geography…
Methods: Cross tests, Morphospecies, Trees/networks, Genetic structure, Distances
Conoidea ScratchingConvulsions, death
HyperactivityHypersensitivity
Depression, paralysisRollings
TremorChill, death
4,000 described species, probably more than 15,000
Problem II: Hyperdiverse and largely unknown groups
Lophiotoma acuta
Turris garnonsii
Problem II: Hyperdiverse and largely unknown groups
Problem III: The shell
I. cingulifera I. devoizei I. musivumX. legitima
Kantor et al. 2008 Zool. Sc.
cranaos
punicea
badifasciata
consors
tippetti
stenos
paratractoides
atractoides
neocaledonica
netrion
solomonensis
episoma
Puillandre et al. 2010 Syst. & Biodiv.
Convergence
Phenotypic plasticity
How to propose species hypotheses in this context?
Problem I: "The grey zone" Problem II: Hyperdiverse and largely unknown groups Problem III: The shell
DNA sequences
Exploratory method (without a priori hypotheses)
A new method based only on DNA sequences:
ABGD, Automatic Barcode Gap Discovery
?
ABGD
0.08
0.09
0.12
0.03
0.05 0.05
Nb.
of s
peci
men
pai
rsGenetic distances
x
Rank ix
Der
ivati
ve (x
)
Rank ix
Puillandre et al 2011 Mol. Ecol.
ABGD
Der
ivati
ve (x
)
Rank ix
Recursiveapproach
Prior threshold p
p
Estimated θ
θ
Posterior threshold P
P
N groups
Final partition
http://wwwabi.snv.jussieu.fr/public/abgd
p
# of groups
Puillandre et al 2011 Mol. Ecol.
Look for "next peak"
Application to the Turridae
Taïwan (1 specimen)
Philippines (281)
Solomon (54)
Chesterfield (32)
Norfolk (32)
Vanuatu (600)
Sequencing of the COI gene (Barcode fragment) Analysis with ABGD and GMYC (Pons et al. 2006)
PSH = Primary Species Hypotheses
85-103 PSH
ABGDGMYC
87 SSH
Phylogeny COIPhylogeny 28S
Genetic structureBathymetry
LocalityMorphology
SSH = Secondary Species Hypotheses
INTEGRATIVE TAXONOMY
Application to the Turridae
Conclusion
ABGD, for hyperdiverse and unknown groups: easy, fast and reproducible
But…
Problems in the grey zone: overlap coalescent/speciation
Several a priori thresholds can lead to several species partitions
Recursive approach to take into account variation in evolutionary rates
INTEGRATIVE TAXONOMY:
Need to turn Primary Species Hypotheses into Secondary Species Hypotheses
Acknowledgments
Muséum National d’Histoire Naturelle, ParisSarah Samadi
Marie-Catherine-BoisselierPhilippe Bouchet
Annie TillierCeline Bonillo
Josie LambourdièreMagalie Castelin
Yuri Kantor
City University of New-YorkMandë Holford
Maria-Vittoria Modica
Université Paris 6Guillaume AchazSophie BrouilletAmaury Lambert
Atheris Laboratories, GenevaReto Stöcklin
Philippe Favreau