Relationships Within Cornales and Circumscription of Cornaceae—Matk and Rbcl Sequence Data and Effects of Outgroups and Long Branches
MOLECULAR PHYLOGENETICS AND EVOLUTION Molecular Phylogenetics and Evolution 24 (2002) 35–57 www.academicpress.com Relationships within Cornales and circumscription of Cornaceae—matK and rbcL sequence data and effects of outgroups and long branches (Jenny) Qiu-Yun Xiang,a,* Michael L. Moody,b Douglas E. Soltis,c Chaun zhu Fan,a and Pamela S. Soltis d a Department of Botany, North Carolina State University, Raleigh, NC 27695-7612, USA b Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269-4236, USA c Department of Botany and the Genetics Institute, University of Florida, Gainesville, FL 32611-5826, USA d Florida Museum of Natural History and the Genetics Institute, University of Florida, Gainesville, FL 32611, USA Received 9 April 2001; received in revised form 1 March 2002 Abstract Phylogenetic relationships in Cornales were assessed using sequences rbcL and matK. Various combinations of outgroups were assessed for their suitability and the effects of long branches and outgroups on tree topology were examined using RASA 2.4 prior to conducting phylogenetic analyses. RASA identified several potentially problematic taxa having long branches in individual data sets that may have obscured phylogenetic signal, but when data sets were combined RASA no longer detected long branch problems. tRASA provides a more conservative measurement for phylogenetic signal than the PTP and skewness tests. The separate matK and rbcL sequence data sets were measured as the chloroplast DNA containing phylogenetic signal by RASA, but PTP and skewness tests suggested the reverse. Nonetheless, the matK and rbcL sequence data sets suggested relationships within Cornales largely congruent with those suggested by the combined matK–rbcL sequence data set that contains significant phylogenetic signal as measured by tRASA, PTP, and skewness tests.
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