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While these approximations certainly generate the simplest model for divergent evolution at synonymous sites, they need not be good to any particular degree of accuracy.
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Connecting these two key design skills, this paper presents a model of divergent visual reasoning for the study of creativity.
In addition to this model, we explored various models specifically designed for divergent proteins.
However, the topology of a phylogentic tree (1) can be model-dependent, especially for divergent sequences and (2) does not indicate which members of expanded groups are the most similar to those in other species, for example proteins in Class III that have expanded and functionally diverged in Arabidopsis.
Under the branch models there is little evidence for divergent selective regimes between these three clades and clade model tests are only significant for two loci, ASPM and MCPH1 (Additional file 2: Table S2c).
To address this possibility of divergent evolution of UCP1 and its paralogs via neutral processes, we used the MC model [ 31], which allows for divergent selection pressures at one site class between different clades of a phylogeny or between paralogs.
Recently the guppy has also been used as a model for studying speciation by divergent sexual selection [ 12, 19].
We also implemented the Paralog model [ 71]; which allows testing for divergent selection pressures among paralogs following a gene duplication event.
The CladeC model was applied to all extant branches to test for divergent evolution, and was compared to the M2_rel model described by [ 46].
Therefore, we hoped to identify differences between Pam3CSK4 and M. vaccae-mediated effects on DC as candidate mechanisms for divergent Th polarization in our model.
For example, in three regions, Galicia (Spain), the United Kingdom, and in Sweden, morphologically divergent ecotypes, adapted to crab predation or wave exposure live in sympatry, thus providing an excellent model for studies of evolutionary divergence and ecological speciation [18], [19].
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