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Phylogeography of the sand dollar genus Encope: implications regarding the Central American Isthmus and rates of molecular evolution.
Coppard SE
,
Lessios HA
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Vicariant events have been widely used to calibrate rates of molecular evolution, the completion of the Central American Isthmus more extensively than any other. Recent studies have claimed that rather than the generally accepted date of ~3 million years ago (Ma), the Isthmus was effectively complete by the middle Miocene, 13 Ma. We present a fossil calibrated phylogeny of the new world sand dollar genus Encope, based on one nuclear and four mitochondrial genes, calibrated with fossils at multiple nodes. Present day distributions of Encope are likely the result of multiple range contractions and extinction events. Most species are now endemic to a single region, but one widely distributed species in each ocean is composed of morphotypes previously described as separate species. The most recent separation between eastern Pacific and Caribbean extant clades occurred at 4.90 Ma, indicating that the Isthmus of Panama allowed genetic exchange until the Pliocene. The rate of evolution of mitochondrial genes in Encope has been ten times slower than in the closely related genera Mellita and Lanthonia. This large difference in rates suggests that splits between eastern Pacific and Caribbean biota, dated on the assumption of a "universal" mitochondrial DNA clock are not valid.
Figure 1. Phylogeny of Encope and the other genera of Mellitidae based on concatenated COI, ATPase-6, ATPase-8, 16S and 28S data reconstructed with MrBayes and RAxML and rooted on L. sexiesperforata. Clade credibility values >75% of Maximum Likelihood (first number next to node) and >85% of Bayesian (second number) reconstruction are shown. Numbers after locality names indicate individuals with indistinguishable haplotypes, scale bar reflects number of changes per site. Names next to terminal branches indicate the morphology of the specimens; names to the right of the pictures are our interpretation as to species affiliation according to the molecular phylogeny. Colors represent geographic range (red = Atlantic and Caribbean, blue = eastern Pacific, green = Gulf of California, black = unknown). Aboral club-spine structures (lateral view) are shown next to subclades in E. micropora.
Figure 2. Bayesian estimates of median molecular divergence times (dates next to nodes) based on concatenated COI, ATPase-6, ATPase-8, 16S, and 28S data, as derived from analysis using BEAST and calibrated using the fossil record. Black dots indicate temporally constrained nodes. Images of fossils indicate the oldest known occurrence of each constrained species. Bars indicate 95% Highest Posterior Density (HPD) limits. The fossil designated E. sp. 1 is the undescribed species from the Gatun Formation mentioned in the text. Ages of stages and epoch series are based on International Commission on Stratigraphy stratigraphic chart90 (Aquit. = Aquitanian, Lang. = Langhian, Serr. = Serravallian, Mes. = Messinian, Za. = Zanclean, Pi. = Piacenzian, Plio. = Pliocene, G. = Gelasian, C. = Calabrian, M. = Middle, Pleist. = Pleistocene). Error bars represent 95% Highest Posterior Density (HPD) intervals.
Amster,
Life history effects on the molecular clock of autosomes and sex chromosomes.
2016, Pubmed
Amster,
Life history effects on the molecular clock of autosomes and sex chromosomes.
2016,
Pubmed
Bacon,
Biological evidence supports an early and complex emergence of the Isthmus of Panama.
2015,
Pubmed
Bromham,
The genome as a life-history character: why rate of molecular evolution varies between mammal species.
2011,
Pubmed
Coppard,
A new genus of mellitid sand dollar (Echinoidea: Mellitidae) from the eastern Pacific coast of the Americas.
2016,
Pubmed
,
Echinobase
Coppard,
Phylogeography of the sand dollar genus Mellita: cryptic speciation along the coasts of the Americas.
2013,
Pubmed
,
Echinobase
Darriba,
jModelTest 2: more models, new heuristics and parallel computing.
2012,
Pubmed
De Baets,
Tectonic blocks and molecular clocks.
2016,
Pubmed
Drummond,
Relaxed phylogenetics and dating with confidence.
2006,
Pubmed
Drummond,
Bayesian phylogenetics with BEAUti and the BEAST 1.7.
2012,
Pubmed
Elango,
Variable molecular clocks in hominoids.
2006,
Pubmed
Galtier,
Mitochondrial whims: metabolic rate, longevity and the rate of molecular evolution.
2009,
Pubmed
Gillooly,
The rate of DNA evolution: effects of body size and temperature on the molecular clock.
2005,
Pubmed
Hasegawa,
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA.
1985,
Pubmed
Heads,
Dating nodes on molecular phylogenies: a critique of molecular biogeography.
2005,
Pubmed
Hickerson,
Test for simultaneous divergence using approximate Bayesian computation.
2006,
Pubmed
,
Echinobase
Hickman,
Geologic youth of galapagos islands confirmed by marine stratigraphy and paleontology.
1985,
Pubmed
Ho,
Time-dependent rates of molecular evolution.
2011,
Pubmed
Ho,
Biogeographic calibrations for the molecular clock.
2015,
Pubmed
Hoorn,
Geology. An early start for the Panama land bridge.
2015,
Pubmed
Kingman,
Origins of the coalescent. 1974-1982.
2000,
Pubmed
Kirby,
Lower Miocene stratigraphy along the Panama Canal and its bearing on the Central American Peninsula.
2008,
Pubmed
Lessios,
DIVERGENCE IN ALLOPATRY: MOLECULAR AND MORPHOLOGICAL DIFFERENTIATION BETWEEN SEA URCHINS SEPARATED BY THE ISTHMUS OF PANAMA.
1981,
Pubmed
,
Echinobase
Lessios,
Population structure and speciation in tropical seas: global phylogeography of the sea urchin Diadema.
2001,
Pubmed
,
Echinobase
Maddison,
Interactive analysis of phylogeny and character evolution using the computer program MacClade.
1989,
Pubmed
Martin,
Body size, metabolic rate, generation time, and the molecular clock.
1993,
Pubmed
Martínez,
Extinct and extant sand dollars (Clypeasteroida: Echinoidea) from Uruguay.
2005,
Pubmed
,
Echinobase
Mendes,
Gene Tree Discordance Causes Apparent Substitution Rate Variation.
2016,
Pubmed
Montes,
Middle Miocene closure of the Central American Seaway.
2015,
Pubmed
Moorjani,
Variation in the molecular clock of primates.
2016,
Pubmed
Nabholz,
The erratic mitochondrial clock: variations of mutation rate, not population size, affect mtDNA diversity across birds and mammals.
2009,
Pubmed
O'Dea,
Formation of the Isthmus of Panama.
2016,
Pubmed
Pierrat,
Antarctic, Sub-Antarctic and cold temperate echinoid database.
2012,
Pubmed
,
Echinobase
Ronquist,
MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space.
2012,
Pubmed
Stamatakis,
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies.
2014,
Pubmed
Tamura,
MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.
2013,
Pubmed
Tamura,
Prospects for inferring very large phylogenies by using the neighbor-joining method.
2004,
Pubmed
Tamura,
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees.
1993,
Pubmed
Willis,
Rethinking migration.
2015,
Pubmed
Winston,
Early and dynamic colonization of Central America drives speciation in Neotropical army ants.
2017,
Pubmed
Zigler,
Speciation on the coasts of the new world: phylogeography and the evolution of bindin in the sea urchin genus Lytechinus.
2004,
Pubmed
,
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