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TNT version 1.5, including a full implementation of phylogenetic morphometrics
Version 1.5 of the computer program TNT completely integrates landmark data into phylogenetic analysis. Landmark data consist of coordinates (in two or three dimensions) for the terminal taxa; TNT… Expand
Molecular phylogeny and diversification history of Prosopis (Fabaceae: Mimosoideae)
The genus Prosopis is an important member of arid and semiarid environments around the world. To study Prosopis diversification and evolution, a combined approach including molecular phylogeny,… Expand
Phylogenetic Analysis of Araucariaceae: Integrating Molecules, Morphology, and Fossils
Premise of research. Phylogenetic relationships of Araucariaceae (Coniferophyta, Araucariales) are revised on the basis of the first combined data matrix for the family. Methodology. Taxon sampling… Expand
Phylogenetic morphometrics (I): the use of landmark data in a phylogenetic framework
A method for the direct use of aligned landmark data (2D or 3D coordinates of comparable points) in phylogenetic analysis is described. The approach is based on finding, for each of the landmark… Expand
Simultaneously mapping and superimposing landmark configurations with parsimony as optimality criterion.
All methods proposed to date for mapping landmark configurations on a phylogenetic tree start from an alignment generated by methods that make no use of phylogenetic information, usually by… Expand
First phylogenetic analysis of the tribe Phyllotini (Rodentia: Sigmodontinae) combining morphological and molecular data
Previous phylogenetic analyses of the tribe Phyllotini, one of the largest components of the subfamily Sigmodontinae, have been based on a single source of evidence. In particular, morphological… Expand
GB‐to‐TNT: facilitating creation of matrices from GenBank and diagnosis of results in TNT
This paper presents a pipeline, implemented in an open‐source program called GB→TNT (GenBank‐to‐TNT), for creating large molecular matrices, starting from GenBank files and finishing with TNT matrices which incorporate taxonomic information in the terminal names. Expand
The more, the better: the use of multiple landmark configurations to solve the phylogenetic relationships in musteloids.
Although the use of landmark data to study shape changes along a phylogenetic tree has become a common practice in evolutionary studies, the role of this sort of data for the inference of… Expand
Phylogenetic morphometrics (II): algorithms for landmark optimization
This paper describes algorithms for optimizing two‐ or three‐dimensional landmark data onto trees directly. The method is based on a first approximation using grids, and subsequent iterative… Expand
Evolution of small inversions in chloroplast genome: a case study from a recurrent inversion in angiosperms
Small inversions (SIs) in the chloroplast genome of angiosperms are ubiquitous. These inversions are always flanked by inverted repeats (palindromes or quasipalindromes) between approximately 8 and… Expand