Project 2167: James P. Herrera,Liliana M. Dávalos. 2016. Phylogeny and divergence times of lemurs inferred with recent and ancient fossils in the tree. Systematic Biology. 65 (5):772-791. (In Press)
This project has 8 documents.

Please find here additional documents associated with this project. Occasionally MorphoBank receives matrices that are not formatted to parse to the database, these can also be found here, along with others and are presented 'as is' from the scientist.

8 Documents

Character descriptions and states (Downloaded 1 time )
Characters described and states defined, with references. Grey shaded characters were omitted in the reduced dataset
Concatenated molecular and full morphological dataset with MrBayes block fossilized birth death process (Downloaded 5 times )
Concatenated molecular and morphological dataset with MrBayes block of code to run fossilized birth-death process. The molecular dataset, mined from Genbank, consists of two mitochondrial loci (mtDNA: cytocrhome b and NADH dehydrogenase - 4) and four nuclear loci (nDNA: adenosine A3 receptor, cannabinoid receptor 1, and recombination activating gene 1 and 2, 5767 characters). The molecular data were partitioned based on the best model of rate variation determined with PartitionFinder. The morphological data matrix is the full 421 character matrix. The fossil calibrations correspond to age ranges as taken from the literature.
Concatenated molecular and morphological dataset with MrBayes block of code to run tip-dating analysis (Downloaded 1 time )
Concatenated molecular and morphological dataset with MrBayes block of code to run tip-dating analysis. The molecular dataset, mined from Genbank, consists of two mitochondrial loci (mtDNA: cytocrhome b and NADH dehydrogenase - 4) and four nuclear loci (nDNA: adenosine A3 receptor, cannabinoid receptor 1, and recombination activating gene 1 and 2, 5767 characters). The molecular data were partitioned based on the best model of rate variation determined with PartitionFinder. The morphological data matrix is the full 421 character matrix. The fossil calibrations correspond to age ranges as taken from the literature.
Concatenated molecular and reduced morphological dataset (369 characters) with MrBayes block of code to run tip-dating analysis. (Downloaded 1 time )
Concatenated molecular and morphological dataset with MrBayes block of code to run tip-dating analysis. The molecular dataset, mined from Genbank, consists of two mitochondrial loci (mtDNA: cytocrhome b and NADH dehydrogenase - 4) and four nuclear loci (nDNA: adenosine A3 receptor, cannabinoid receptor 1, and recombination activating gene 1 and 2, 5767 characters). The molecular data were partitioned based on the best model of rate variation determined with PartitionFinder. The morphological data matrix is the reduced 369 character matrix. The fossil calibrations correspond to age ranges as taken from the literature.
Concatenated molecular and reduced morphological dataset with MrBayes block of code to run fossilized birth-death process. (Downloaded 1 time )
Concatenated molecular and morphological dataset with MrBayes block of code to run fossilized birth-death process. The molecular dataset, mined from Genbank, consists of two mitochondrial loci (mtDNA: cytocrhome b and NADH dehydrogenase - 4) and four nuclear loci (nDNA: adenosine A3 receptor, cannabinoid receptor 1, and recombination activating gene 1 and 2, 5767 characters). The molecular data were partitioned based on the best model of rate variation determined with PartitionFinder. The morphological data matrix is the reduced 369 character matrix. The fossil calibrations correspond to age ranges as taken from the literature.
correspondence with S Nash (Downloaded 2 times )
Copyright holder S Nash grants permission to use his illustrations in material related to the Systematic Biology submission on the phylogenetics and divergene times of lemurs
Morphological data matrix 369 characters (Downloaded 2 times )
morphological character matrix after excluding 52 characters found to have statistically significant identical state transitions among species. The nexus file contains character descriptions and state definitions, and was created in Mesquite software.
Morphological data matrix 421 characters (Downloaded 2 times )
complete character set before excluding characters found to have statistically identical state transitions among species. The nexus file contains character descriptions and state definitions, and was created in Mesquite software.