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We find SINEs are powerful markers of speciation and conclude that the few inconsistencies with expected patterns of speciation likely represent incomplete lineage sorting, species hybridization and SINE-mediated genome rearrangement.
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Using a comparative genomics approach we show that certain fixed genetic differences in the TNF promoter serve as markers of primate speciation.
Thus per may possibly represent an example of a Drosophila speciation gene [ 19], and in fact it has been used as a molecular marker in a number of speciation and evolutionary studies, not only in Drosophila (reviewed in [ 20]) but also in other insects (e.g. [ 21]) including sand flies [ 22- 24].
Thus, mapping of rDNA sequences and heterochromatin may in some cases be used as an additional marker for understanding relationships and routes of speciation within Barbitistini.
Previous phylogenetic studies using a variety of markers have suggested an episodic rapid rate of speciation within the Delphinidae family [ 21- 28].
With few mechanisms for precise removal, SINE insertions are nearly homoplasy-free unidirectional markers and therefore informative in deciphering complex patterns of speciation [ 40, 50- 52].
As empirical evidence continues to mount demonstrating mito-nuclear discordance [ 21, 22], the use of nuclear markers has become essential to species delimitation and the study of speciation.
One translocation, found in 6 different isolates, including the type strain, has a geographically widespread distribution and a unique haplotype and may be a marker of an incipient speciation event.
It was concluded that the physical mapping of rDNA sequences and heterochromatin may be used as an additional marker for understanding interspecific relationships in these groups and their routes of speciation.
Evidence for this kind of speciation has been incomplete, however.
But unexpectedly, evolution of chemical defences also increases extinction rates -- even above the rate of speciation.
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