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Model fitting – relationship between average evolutionary rate estimate and measurement timescale.
Further investigation has revealed that, in fact, the value of the rate estimate does not vary discretely, but continuously decreases as the measurement timescale increases [ 28].
As the value of the rate estimate continuously decreases with the measurement timescale, the TDRP should appear in, and is relevant to, every phylogenetic analysis.
Here, we use 14 extant FVs (Additional file 1: Table S1) as a case study to present direct evidence of a smooth decay of nucleotide substitution rate estimates as the measurement timescale increases.
However, as the rate estimate continuously decreases with the measurement timescale, this would posit that the biology of FVs has been continuously changing with time in such a way that that the viral rate of evolution gradually increases through time.
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As evolutionary rate estimates are dependent on their measurement timescales, their values must be used and interpreted under the context of the timescale of rate estimation.
One pragmatic approach to this problem is to infer evolutionary timescales by using an empirical model describing the relationship between rate estimates and their measurement timescales.
Our analyses show that the estimated values of the FV substitution rates decrease continuously with measurement timescales (Fig. 1), and the PL model is the best model for correcting for the TDRP.
The signals decrease over the measured timescales, indicating that the hole-transfer process occurs on shorter timescales than that of our measurement, and that the dynamics of recombination of electrons and holes across the P3HT/Sb2S3 interface are monitored instead.
In our study, we characterized this phenotypic variation and further detected evidence for local ecotypic adaptation for the CKS ecotype in the form of the longest timescale measurements of establishment and cover.
To our knowledge, the results reported here are the first measurements of the timescale and characteristics of progression from in situ neoplasia to invasive carcinoma and provide image-based evidence that DCIS may be a non-obligate precursor lesion with highly variable outcomes.
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