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Specific comments and suggestions: 1) It would greatly help the readers who have not closely followed the field to explain in the Introduction what are the current models and controversies in the field, and which specific questions/controversies the authors are resolving in this study.
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Hence, the various issues resolved in this study are relevant to many of the practical problems of hydrology, geophysics, petroleum engineering and seismology.
This may have led to a variety of inconsistencies that are resolved in this study by more extensive genomic and species sampling as well as more detailed curation of morphological specimens.
Five new clades resolved in this study are consequently here labeled clades 9 13.
Of the VRs with known ligands [ 14, 20, 24, 25], Vmn2r116 (also known as V2rp5) was not resolved in this study.
This finding is generally consistent with an NMR study in nanodiscs indicating that syb has a random coil structure in the SNARE motif, although signals in the coupling and TM helices were not resolved in this study.
While our data are consistent with the model that Int6 reduction can induce MMT, the molecular mechanism for how this occurs is complex and not resolved in this study.
This is consistent with the lack of major structural changes of the chromophore during the formation of Pr from Meta-F in Cph1Δ, so the Meta-Fr species resolved in this study seems to be consistent with the Meta-F intermediate resolved by cryo-trapping.
Whether this risk increase is associated with the disease or the treatment cannot be resolved in this study, but it is of clinical importance since it contributes to mortality and morbidity in cancer patients (van de Poll-Franse et al, 2007; Stewart et al, 2010).
We wished to test the hypothesis that following the gene duplication events in the MHPs (as resolved in this study), selective forces – specifically positive selection – have contributed to the observed changes in function in each of the 4 major groups of MHPs.
While not well resolved in this present study due to the lack of reference data and genomic sequences at an appropriate depth, terminal biosynthetic enzymes may be especially prone to non-vertical modes of evolution ([28]; consider also cyanobacterial monocyclic xanthophyll biosynthesis), presumably resulting from the minor adaptive significance of these changes.
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