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We focus on three particular parameters: divergence to D. simulans, recombination rate, and gene density.
See text for migration rate parameter values; divergence times are measured in years.
However, UCLD analyses failed to converge even after 50 million generations, thus limiting our ability to interpret parameter and divergence time estimates.
On the other hand, for another parameter, sequence divergence, both the V1R and T2R receptor families of Latimeria examined here are more similar to those of teleosts than to those of later diverging members of their own lobe-finned lineage.
When comparing the two groups, no statistically significant differences were found (p > 0.05) for any of the parameters, and the mandibular divergence parameter was found to be of borderline significance.
This model involves the following parameters: sequence divergence t, measured in the number of nucleotide substitutions per codon, the transition/transversion rate ratio κ and the rate ratio ω = dN/dS.
To better estimate the date since the splitting event, IMa parameters of divergence between populations (tIMa) were converted into years.
My results demonstrate that using alternative priors on parameters and divergence models improved the behavior of the msBayes model.
More knowledge about population parameters and divergence times is necessary to distinguish between these two sources of tree incongruence in this tribe.
ABC is currently widely used to test scenarios and to estimate parameters including divergence time and population size in plants, animals and pathogens e.g. [ 5- 9].
Therefore we interpreted the coalescent parameters of divergence time and effective population size from the analysis using the model of isolation-without-migration.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com