The phylogenetic reconstruction of the Neotropical cycad genus Ceratozamia (Zamiaceae) reveals disparate patterns of niche evolution

Phylotranscriptomics Shed Light on Intrageneric Relationships and Historical Biogeography of Ceratozamia (Cycadales)

(2023) Sadaf Habib et al.   Plants-Basel

Ceratozamia rosea (Zamiaceae): A new species from the Northern Mountains of Chiapas, Mexico

(2023) JOSÉ GARCÍA GONZÁLEZ et al.   Phytotaxa

Leaflet Anatomical Diversity in Zamia (Cycadales: Zamiaceae) Shows Little Correlation with Phylogeny and Climate

(2022) Rosemary A. E. Glos et al.   BOTANICAL REVIEW

Monograph of Ceratozamia (Zamiaceae, Cycadales): an endangered genus

(2022) Lilí Martínez-Domínguez et al.   PhytoKeys

Seed predation and potential seed dispersers of the narrow endemic Ceratozamia norstogii (Zamiaceae)

(2022) Héctor Gómez-Domínguez et al.   Biodiversity Data Journal

Demographic history and species delimitation of three Zamia species (Zamiaceae) in south-eastern Mexico: Z. katzeriana is not a product of hybridization

(2022) José Said Gutiérrez-Ortega et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Morphological and anatomical analyses clarify the species definition of Ceratozamia latifolia Miq. (Zamiaceae) and lead to the description of a new species: Ceratozamia reesii

(2022) ANDREW P. VOVIDES et al.   Phytotaxa

Adaptive dating and fast proposals: Revisiting the phylogenetic relaxed clock model

(2021) Jordan Douglas et al.   PLoS Computational Biology

Ceratozamia sanchezae (Zamiaceae): a new cycad species from Chiapas Highlands (Mexico)

(2021) JOSÉ SAID GUTIÉRREZ-ORTEGA et al.   Phytotaxa

Speciation along a latitudinal gradient: The origin of the Neotropical cycad sister pair Dioon sonorense – D. vovidesii (Zamiaceae)

(2021) José Said Gutiérrez‐Ortega et al.   Ecology and Evolution

Not that young: combining plastid phylogenomic, plate tectonic and fossil evidence indicates a Paleogene diversification of Cycadaceae

(2021) Jian Liu et al.   ANNALS OF BOTANY

Evolutionary history of Hemerocallis in Japan inferred from chloroplast and nuclear phylogenies and levels of interspecific gene flow

(2021) Shun K. Hirota et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Complementary combination of multiplex high‐throughput DNA sequencing for molecular phylogeny

(2021) Yoshihisa Suyama et al.   ECOLOGICAL RESEARCH

A new Mexican Ceratozamia (Zamiaceae) species with notes on reproductive phenology

(2021) Lilí Martínez‐Domínguez et al.   NORDIC JOURNAL OF BOTANY

Phylogenetics of Japanese Geranium (Geraniaceae) using chloroplast genome sequences and genome-wide single nucleotide polymorphisms

(2021) Seikan Kurata et al.   PLANT SYSTEMATICS AND EVOLUTION

Niche conservatism promotes speciation in cycads: the case of Dioon merolae (Zamiaceae) in Mexico

(2020) José Said Gutiérrez‐Ortega et al.   NEW PHYTOLOGIST

A revision of the Ceratozamia miqueliana (Zamiaceae) species complex based on analyses of leaflet anatomical characters

(2020) Andrew P. Vovides et al.   FLORA

A novelty in Ceratozamia (Zamiaceae, Cycadales) from the Sierra Madre del Sur, Mexico: biogeographic and morphological patterns, DNA barcoding and phenology

(2020) Lilí Martínez-Domínguez et al.   PhytoKeys

Model selection may not be a mandatory step for phylogeny reconstruction

(2019) Shiran Abadi et al.   Nature Communications

A Time-Calibrated Species Tree Phylogeny of the New World Cycad Genus Zamia L. (Zamiaceae, Cycadales)

(2019) Michael Calonje et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis

(2019) Remco Bouckaert et al.   PLoS Computational Biology

Evolution of Ceratozamia cycads: A proximate-ultimate approach

(2019) Anwar Medina-Villarreal et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees

(2018) Chao Zhang et al.   BMC BIOINFORMATICS

A review of the Cenozoic fossil record of the genus Zamia L. (Zamiaceae, Cycadales) with recognition of a new species from the late Eocene of Panama - evolution and biogeographic inferences

(2018) B. Erdei et al.   BULLETIN OF GEOSCIENCES

Epidermal morphology and leaflet anatomy of Dioon (Zamiaceae) with comments on climate and environment

(2018) Andrew P. Vovides et al.   FLORA

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

Taxonomic review of Ceratozamia (Zamiaceae) in the Sierra Madre Oriental, Mexico

(2018) Lilí Martínez-Domínguez et al.   PhytoKeys

Pleistocene diversification in an ancient lineage: a role for glacial cycles in the evolutionary history of Dioon Lindl. (Zamiaceae)

(2018) Brian L. Dorsey et al.   AMERICAN JOURNAL OF BOTANY

Cycad coralloid roots contain bacterial communities including cyanobacteria and Caulobacter spp that encode niche-specific biosynthetic gene clusters

(2018) Karina Gutiérrez-García et al.   Genome Biology and Evolution

Ceratophila, a new genus of erotylid beetles (Erotylidae: Pharaxonothinae) inhabiting male cones of the cycad Ceratozamia (Cycadales: Zamiaceae)

(2018) WILLIAM TANG et al.   ZOOTAXA

Contrasting Rates of Molecular Evolution and Patterns of Selection among Gymnosperms and Flowering Plants

(2017) Amanda R. De La Torre et al.   MOLECULAR BIOLOGY AND EVOLUTION

Analysis of phylogenetic relationships and genome size evolution of the Amaranthus genus using GBS indicates the ancestors of an ancient crop

(2017) Markus G. Stetter et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Cryptic diversity, sympatry, and other integrative taxonomy scenarios in the Mexican Ceratozamia miqueliana complex (Zamiaceae)

(2017) Lilí Martínez-Domínguez et al.   ORGANISMS DIVERSITY & EVOLUTION

Morphometric and geographical variation in theCeratozamia mexicanaBrongn. (Zamiaceae) complex: evolutionary and taxonomic implications

(2016) Anwar Medina-Villarreal et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

The spatial scale of local adaptation in a stochastic environment

(2016) Jarrod D. Hadfield   ECOLOGY LETTERS

Integrative taxonomy of Mexican cycads: biogeography, morphology and DNA barcoding corroborate a new sympatric species in Ceratozamia (Zamiaceae)

(2016) LILÍ MARTÍNEZ-DOMÍNGUEZ et al.   Phytotaxa

Dealing with paralogy in RADseq data: in silico detection and single nucleotide polymorphism validation inRobinia pseudoacaciaL.

(2016) Cindy F. Verdu et al.   Ecology and Evolution

Origin and diversification of living cycads: a cautionary tale on the impact of the branching process prior in Bayesian molecular dating

(2015) Fabien L Condamine et al.   BMC EVOLUTIONARY BIOLOGY

A New Hierarchy of Phylogenetic Models Consistent with Heterogeneous Substitution Rates

(2015) Michael D. Woodhams et al.   SYSTEMATIC BIOLOGY

MIG-seq: an effective PCR-based method for genome-wide single-nucleotide polymorphism genotyping using the next-generation sequencing platform

(2015) Yoshihisa Suyama et al.   Scientific Reports

HISTORIA NATURAL DE DIOON MEROLAE (ZAMIACEAE) EN CHIAPAS, MÉXICO

(2015) JULIA MANUELA LÁZARO-ZERMEÑO et al.   Botanical Sciences

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogeny of the cycads based on multiple single-copy nuclear genes: congruence of concatenated parsimony, likelihood and species tree inference methods

(2013) Dayana E. Salas-Leiva et al.   ANNALS OF BOTANY

Morphology and Leaflet Anatomy of the Ceratozamia norstogii (Zamiaceae, Cycadales) Species Complex in Mexico with Comments on Relationships and Speciation

(2013) Miguel A. Pérez-Farrera et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Comparative Phylogeographic Analyses Illustrate the Complex Evolutionary History of Threatened Cloud Forests of Northern Mesoamerica

(2013) Juan Francisco Ornelas et al.   PLoS One

Reference-Free Population Genomics from Next-Generation Transcriptome Data and the Vertebrate–Invertebrate Gap

(2013) Philippe Gayral et al.   PLoS Genetics

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs

(2011) H. E. L. Lischer et al.   BIOINFORMATICS

Chloroplast DNA phylogeography of a distylous shrub (Palicourea padifolia, Rubiaceae) reveals past fragmentation and demographic expansion in Mexican cloud forests

(2011) Carla Gutiérrez-Rodríguez et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Cenozoic extinctions account for the low diversity of extant gymnosperms compared with angiosperms

(2011) Michael D. Crisp et al.   NEW PHYTOLOGIST

raxmlGUI: a graphical front-end for RAxML

(2011) Daniele Silvestro et al.   ORGANISMS DIVERSITY & EVOLUTION

Recent Synchronous Radiation of a Living Fossil

(2011) N. S. Nagalingum et al.   SCIENCE

BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics

(2011) Daniel L. Ayres et al.   SYSTEMATIC BIOLOGY

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

TreeGraph 2: Combining and visualizing evidence from different phylogenetic analyses

(2010) Ben C Stöver et al.   BMC BIOINFORMATICS

A character-based approach in the Mexican cycads supports diverse multigene combinations for DNA barcoding

(2010) Fernando Nicolalde-Morejón et al.   CLADISTICS

ENMTools: a toolbox for comparative studies of environmental niche models

(2010) Dan L. Warren et al.   ECOGRAPHY

Phylogeography of Podocarpus matudae (Podocarpaceae): pre-Quaternary relicts in northern Mesoamerican cloud forests

(2010) Juan Francisco Ornelas et al.   JOURNAL OF BIOGEOGRAPHY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

seqphase: a web tool for interconverting phase input/output files and fasta sequence alignments

(2009) J-F. FLOT   Molecular Ecology Resources

A reassessment of theCeratozamia miquelianaspecies complex (Zamiaceae) of southeastern Mexico, with comments on species relationships

(2009) Miguel A. Perez‐Farrera et al.   SYSTEMATICS AND BIODIVERSITY