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Parsimony is often in the eye of the beholder, and its relevance in reconstructing evolution is in any case questionable.
p.3: The authors wrote: If every daughter cell's membrane kept track of who its parent was, reconstructing evolution would be a trivial task.
I feel that this is a bit misleading, it would inform us on a part of evolution: If every daughter cell's membrane kept track of who its parent was, reconstructing evolution of cell divisions would be a trivial task.
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Specifically Mason and coworkers reconstructed evolution of the KAP-α family, determining the presence of an ancient KAP-α1/KAP-α1-like subfamily with evidence for lineage-specific expansion into KAP-α2 and KAP-α3 forms in the Opisthokonta and further expansions and secondary losses in Metazoa [5].
To reconstruct evolution within Cuvierina and to provide a phylogenetic perspective of outgroup relationships, 30 Cuvierina sequences were compared to other Cavoliniid taxa.
To determine the relative contribution of intron loss and gain to these patterns, we used previously published methods [ 17, 18] to reconstruct evolution.
Similar methods can be applied to reconstruct evolution of other features for which orthologous relationships can be established, e.g. intron positions in eukaryotic genes.
We have examined the evolution of both class-1 and class-2 RF protein families across eukaryotes and archaea in order to reconstruct evolution of their involvement in mRNA quality control mechanisms.
We have analysed datasets of the eRF1/Dom34p and eRF3/Hbs1p/Ski7p protein families in eukaryotes and archaea in order to reconstruct evolution of three different mRNA quality control mechanisms that are known to be governed by these proteins.
We reconstructed evolution within the genus Cuvierina based on ML and fossil-calibrated Bayesian phylogenetic analyses of the combined COI + 28S sequence data (Additional file 3 and Figure 6, respectively).
We used parsimony analysis to reconstruct evolution of donor splice sites and inferred 298 GT > GC conversion events compared to 40 GC > GT conversion events in primate and rodent genomes.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com