Phylogeny and classification of Pinus
The cpDNA tree plus evidence from nuclear ribosomal DNA and morphology to propose a new classification for the genus Pinus, allowing for the delineation of two subgenera, each with two sections that form sister groups.
Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for pinus.
- A. Willyard, J. Syring, D. Gernandt, A. Liston, R. Cronn
- Environmental Science, GeographyMolecular biology and evolution
- 22 September 2006
By extending the sampling to encompass the phylogenetic diversity of Pinus, it is predicted that most extant subsections diverged during the Miocene and that further refinements in age and mutation rate estimates will require a synthetic examination of pine fossil history.
Use of Simultaneous Analyses to Guide Fossil‐Based Calibrations of Pinaceae Phylogeny
- D. Gernandt, S. Magallón, Gretel Geada López, Omar Zerón Flores, A. Willyard, A. Liston
- Environmental Science, GeographyINTERNATIONAL JOURNAL PLANT SCIENCES
- 1 October 2008
It is demonstrated that simultaneous phylogenetic analyses of chloroplast DNA (matK and rbcL) and nonmolecular characters that include both extant genera and a limited number of fossil taxa provide useful hypotheses for calibrating molecular trees.
Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology
- R. Cronn, A. Liston, M. Parks, D. Gernandt, Rongkun Shen, T. Mockler
- BiologyNucleic Acids Research
- 27 August 2008
To gain maximal access to the historical record contained within chloroplast genomes, multiplex sequencing-by-synthesis (MSBS) is adapted to simultaneously sequence multiple genomes using the Illumina Genome Analyzer.
Variation in the nrDNA ITS of Pinus subsection Cembroides: implications for molecular systematic studies of pine species complexes.
Within the pinyon clade, phylogenetic structure is present, but different clones from the same (or different) individuals of a species are polyphyletic, indicating that coalescence of ITS copies within individual genomes predates evolutionary divergence in the group.
Internal transcribed spacer region evolution in Larix and Pseudotsuga (Pinaceae).
The phylogenetic hypothesis did not conflict with a stepping stone model of evolution for Pseudotsuga, but a basal lineage could not be inferred for either genus and a slow rate of concerted evolution among nrDNA loci was suggested.
Phylogenetics of Helotiales and Rhytismatales based on partial small subunit nuclear ribosomal DNA sequences
The small subunit phylogeny is used as a framework for discussing the evolution of the ascoma and ascus, the delimitation between Helotiales and Rhytismatales, and certain family concepts within the inoperculate discomycetes.
Phylogenetic Relationships and Species Delimitation in Pinus Section Trifoliae Inferrred from Plastid DNA
- Sergio G. Hernandez-Leon, D. Gernandt, J. A. Pérez de la Rosa, L. Jardón-Barbolla
- BiologyPLoS ONE
- 30 July 2013
Bayesian relaxed molecular clock analyses indicated that all three subsections diversified relatively recently during the Miocene, and the general mixed Yule-coalescent method gave a mixed model estimate of only 22 or 23 evolutionary entities for the plastid sequences, which corresponds to less than half the 49 species recognized based on morphological species assignments.
Phylogenomic and ecological analyses reveal the spatiotemporal evolution of global pines
- Wei-Tao Jin, D. Gernandt, C. Wehenkel, Xiao-Mei Xia, Xiao-Xin Wei, Xiao-Quan Wang
- Environmental ScienceProceedings of the National Academy of Sciences
- 3 May 2021
The macroevolution of Pinus, the largest conifer genus and characteristic of northern temperate coniferous forests, is investigated, finding that topography played a primary role in pine diversification, and the aridity index was decisive for the niche rate shift.
Remote sensing data can improve predictions of species richness by stacked species distribution models: a case study for Mexican pines
- Anna F. Cord, D. Klein, D. Gernandt, Jorge A. Pérez la Rosa, S. Dech
- Environmental Science
- 1 April 2014
Remote sensing data have been used in a growing number of studies to directly predict species richness or to improve the performance of species distribution models (SDMs), but their suitability for…