TreeBASE Search-Matrices for study 16597

@ARTICLE{TreeBASE2Ref23824, author = {Fabio Scarpa and Piero Cossu and Daria Sanna and Tiziana Lai and Jon L. Norenburg and Marco Curini-Galletti and Marco Casu}, title = {An 18S and 28S-based clock calibration for marine Proseriata (Platyhelminthes)}, year = {2015}, keywords = {Meiofauna; Isthmus of Panama; mutation rates; relaxed molecular clock; divergence time; calibration point.}, doi = {10.1016/j.jembe.2014.10.020}, url = {http://}, pmid = {}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {463}, number = {}, pages = {22--31}, abstract = {Geminate species are a powerful tool for calibrating the molecular clock in marine organisms, and their adoption is mandatory for soft-bodied taxa, which lack fossil records. The first attempt to calibrate the molecular clock in taxa belonging to meiofaunal microturbellaria (Platyhelminthes: Proseriata) based on geminate species is presented here. We used two species pairs from both sides of the Isthmus of Panama: Minona gemella (Caribbean) and Minona cf gemella (Pacific); Parotoplana sp. nov. 1 (Caribbean) and Parotoplana sp. nov. 2 (Pacific). The mutation rates per million years were estimated for both geminate species pairs on two ribosomal regions, the complete nuclear small subunit rDNA (18S) gene and the partial nuclear large subunit rDNA (28S) gene fragment (spanning variable domains D1-D6). Similar values of mutation rates per million years were found in both species pairs, ranging 0.12-0.16% for 18S and 0.49-0.52% for 28S. The values obtained were used as calibration points at minimum age, in order to estimate the divergence times within the phylogenetic tree of the whole dataset, and tested on three cases of trans-American (not-geminate) species from Pacific Panama and S-E Brazil, belonging to the genera Kata, Archimonocelis and Duplominona. They consistently showed higher divergence times (ranging 9.4-17.9 Myr) than geminate, trans-isthmian pairs. These results suggest potential usefulness of our molecular clock calibration, for future research on phylogeography and evolution of Proseriata. } }

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Matrices for Study 16597

Citation title: "An 18S and 28S-based clock calibration for marine Proseriata (Platyhelminthes)".

Study name: "An 18S and 28S-based clock calibration for marine Proseriata (Platyhelminthes)".

This study is part of submission 16597 (Status: Published).

Matrices

ID	Matrix Title	Description	Data type	NTAX	NCHAR	Taxa
M24788	Proseriata 18S	Alignment of the complete nuclear small subunit rDNA (18S) gene, performed by means of the algorithm Q-INS-I, implemented in Mafft 6.903 (Katoh and Toh, 2008).	Nucleic Acid	92	1632	View Taxa
M24789	Proseriata 28S	Alignment of the partial nuclear large subunit rDNA (28S) gene fragment (spanning variable domains D1-D6), performed by means of the algorithm Q-INS-I, implemented in Mafft 6.903 (Katoh and Toh, 2008).	Nucleic Acid	92	1650	View Taxa