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Our results also point to a higher degree of interaction divergence in those interactome nodes that show divergent duplication history, perhaps related to selective pressure by species-specific pathogen types.
That may have two reasons: Either the protein interaction data are biased in a way that is not compatible with the GraphAlignment Bayesian model, or different rates of interaction divergence occur between high-confidence orthologs (the training set) and proteins with low sequence similarity.
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The absolute conservation of residues and domains involved in interaction, despite divergence in other parts of the N-terminus, suggests an evolutionary conserved mechanism of modulation of Shal (Kv4) subunits by accessory subunits, which predates the vertebrate evolutionary branching point of mammals and fish.
[Author's response: We have removed it.] My understanding is that the data in this case do not permit to distinguish between the models of protein convergence in terms of interactions and divergence in terms of the overall structure.
Apart from the potential dosage sensitivity of metabolic interaction, simultaneous expression divergence (subfunctionalization, DDC model [ 30]) of both interacting enzymes-homeologs could also promote the retention of homeologs, in which the coordinated expressional divergence has the strongest effect in achieving the simultaneous retention of enzyme-homeologs.
Moreover, the significant morph × sex interaction indicates a divergence of sexual size dimorphism between morphs.
Moreover, the significant species × sex interaction indicates a divergence of sexual size dimorphism among species.
Further exploration of the data (not shown) suggests that the interaction between long divergence times between groups with and without this tRNA and a low sample size creates uncertainty in the contrast estimation.
As stated above, the other HNWD genes are likely additional incompatibility genes whose interacting partners are unknown, so that incompatible interactions with het-c may not be the only interactions that promote divergence of the repeats.
Rtt107, the Brc1 homolog in Saccharomyces cerevisiae, has a very different pattern of genetic interactions, indicating evolutionary divergence of functions and DNA damage responses.
Much has been learned from Drosophila concerning the molecular interplay between the sexes that takes place after mating, yet little is known about how these reproductive interactions contribute to divergence.
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