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Limnofregata has likewise been utilized as a fossil calibration point for analyses of divergence timing in recent studies [27], [28].
Both Prophaethon [95], and more recently Lithoptila [27], [28], have been utilized as fossil calibration points for analyses of divergence timing in higher-level avian clades.
It has also been used in two recent analyses of divergence times within Silene and the Caryophyllaceae [ 4, 30].
Analyses of divergence times are fossil calibrated at the divergence of Mirandornithes (flamingos + grebes) and the divergence of crown grebes.
Additional file 15: Pairwise analyses of divergence based on the frequencies of OCT1 alleles in populations and in different world regions (the upper panel).
The analyses of divergence time were conducted with the penalized likelihood (PL) [ 22] and the nonparametric rate smoothing (NPRS) [ 23] methods.
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Together, with the analyses of the divergence between C. abortus and C. psittaci (Table 2) these results suggest that 84/2334 belongs to C. abortus.
AD, MF, and TJN designed and conducted analyses of molecular divergence times.
For each identified hsp70 copy, we aligned the orthologs between SD and SC and performed comparative analyses of sequence divergence.
For all analyses of interspecies divergence, we used C. remanei strain PB4641 (reference genome) and C. latens strain VX0082 (or VX0087 if the VX0082 allele was missing).
In earlier work the author points out that this is important to get away from potential sampling biases when performing analyses of functional divergence.
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