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We used this robust molecular clock estimate as well as estimates derived from a Bayesian model for rate variation among lineages.
Historical IHHNV population demography in the northwestern Pacific coast of Mexico was inferred from a Bayesian skyline plot incorporating the mean rate of 1.39×10−4 substitution/site/year for the 85 sequences obtained in this study (excluding the 4 used in the molecular clock estimate).
Our third denominator was a molecular clock estimate of divergence times [ 42, 43].
Our molecular clock estimate suggests the divergence between Nematostella and Edwardsiella occurred sometime between the early Triassic Period (215 mya) and the early Devonian (>360 mya).
In criticizing this scenario, Steeman et al. [ 21] noted that their molecular clock estimate placed the divergence between these species at 20 Ma, well before the middle Miocene regressions mentioned by Hamilton et al. [ 14].
The accuracy of the presented molecular clock estimate is thus not critical to arrive to the conclusion of a pre-Holocene split between clade 3-3 and 3-4.
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Here we show that the precision of molecular clock estimates of times has been grossly over-estimated.
Where feasible, we used molecular clock estimates to date the ages of the respective lineages.
Molecular clock estimates calibrated by new fossil discoveries indicate that these groups originated and had begun to diversify by at least the mid-Cambrian5.
This genetic separation occurred at ca. 145 240 ka, based on the late Quaternary outwash terrace dating, in agreement with "molecular clock" estimates.
Together with contemporary fossil finds19,25,26,27,28, Lijinganthus suggests a Core Eudicot Boom at the transition from the Early to Late Cretaceous and helps to narrow the gap between fossil record and molecular clock estimates.
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