Conserved genetic regions across angiosperms as tools to develop single-copy nuclear markers in gymnosperms: an example using cycads

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

Reprint of: Using nuclear gene data for plant phylogenetics: Progress and prospects

(2013) Elizabeth A. Zimmer et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Developing nuclear DNA phylogenetic markers in the angiosperm genus Leucadendron (Proteaceae): A next-generation sequencing transcriptomic approach

(2013) Jeanne Tonnabel et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Congruence between distribution modelling and phylogeographical analyses reveals Quaternary survival of a toadflax species (Linaria elegans) in oceanic climate areas of a mountain ring range

(2013) Mario Fernández-Mazuecos et al.   NEW PHYTOLOGIST

Cycad biodiversity in the Bahamas Archipelago and conservation genetics of the threatened Zamia lucayana (Zamiaceae)

(2013) Michael Calonje et al.   ORYX

Population Genetic Structure of the Cotton Bollworm Helicoverpa armigera (Hübner) (Lepidoptera: Noctuidae) in India as Inferred from EPIC-PCR DNA Markers

(2013) Gajanan Tryambak Behere et al.   PLoS One

Effects of Taxon Sampling in Reconstructions of Intron Evolution

(2013) Mikhail A. Nikitin et al.   International Journal of Genomics

Zamia (Cycadales: Zamiaceae) on Puerto Rico: Asymmetric genetic differentiation and the hypothesis of multiple introductions

(2012) Alan W. Meerow et al.   AMERICAN JOURNAL OF BOTANY

Anonymous nuclear loci in non-model organisms: making the most of high-throughput genome surveys

(2012) T. Bertozzi et al.   BIOINFORMATICS

Origin and evolution of Chrysobalanaceae: insights into the evolution of plants in the Neotropics

(2012) Léa Bardon et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Phylogenetic Relationships within Ruellieae (Acanthaceae) and a Revised Classification

(2012) Erin A. Tripp et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

A novel primer set for multilocus phylogenetic inference in East African cichlid fishes

(2012) BRITTA S. MEYER et al.   Molecular Ecology Resources

EvolMarkers: a database for mining exon and intron markers for evolution, ecology and conservation studies

(2012) CHENHONG LI et al.   Molecular Ecology Resources

Using multiple analytical methods to improve phylogenetic hypotheses in Minaria (Apocynaceae)

(2012) Patrícia Luz Ribeiro et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Rapid radiation of Rheum (Polygonaceae) and parallel evolution of morphological traits

(2012) Yongshuai Sun et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Development of phylogenetic markers from single-copy nuclear genes for multi locus, species level analyses in the mint family (Lamiaceae)

(2012) Manuel António Curto et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Highly conserved low-copy nuclear genes as effective markers for phylogenetic analyses in angiosperms

(2012) Ning Zhang et al.   NEW PHYTOLOGIST

Development of universal genetic markers based on single-copy orthologous (COSII) genes in Poaceae

(2012) Hailan Liu et al.   PLANT CELL REPORTS

Identification of Single-Copy Orthologous Genes between Physalis and Solanum lycopersicum and Analysis of Genetic Diversity in Physalis Using Molecular Markers

(2012) Jingli Wei et al.   PLoS One

High-Throughput Identification of Informative Nuclear Loci for Shallow-Scale Phylogenetics and Phylogeography

(2012) Alan R. Lemmon et al.   SYSTEMATIC BIOLOGY

Sequence Data from New Plastid and Nuclear COSII Regions Resolves Early Diverging Lineages in Coffea (Rubiaceae)

(2012) Michael D. Nowak et al.   SYSTEMATIC BOTANY

A 10-gene phylogeny of Solanum section Herpystichum (Solanaceae) and a comparison of phylogenetic methods

(2011) Eric J. Tepe et al.   AMERICAN JOURNAL OF BOTANY

Phylogenetic Relationships within the Opisthokonta Based on Phylogenomic Analyses of Conserved Single-Copy Protein Domains

(2011) G. Torruella et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

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

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

Recent Synchronous Radiation of a Living Fossil

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

A Detailed History of Intron-rich Eukaryotic Ancestors Inferred from a Global Survey of 100 Complete Genomes

(2011) Miklos Csuros et al.   PLoS Computational Biology

Exon-primed intron-crossing (EPIC) markers for non-model teleost fishes

(2010) Chenhong Li et al.   BMC EVOLUTIONARY BIOLOGY

Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels

(2010) Jill M Duarte et al.   BMC EVOLUTIONARY BIOLOGY

QUANTIFYING THE PLEISTOCENE HISTORY OF THE OAK GALL PARASITOID CECIDOSTIBA FUNGOSA USING TWENTY INTRON LOCI

(2010) Konrad Lohse et al.   EVOLUTION

Genome-enabled development of DNA markers for ecology, evolution and conservation

(2010) ROBERT C. THOMSON et al.   MOLECULAR ECOLOGY

Developing EPIC markers for chalcidoid Hymenoptera from EST and genomic data

(2010) KONRAD LOHSE et al.   Molecular Ecology Resources

Arthropod relationships revealed by phylogenomic analysis of nuclear protein-coding sequences

(2010) Jerome C. Regier et al.   NATURE

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

Development and bin mapping of a Rosaceae Conserved Ortholog Set (COS) of markers

(2009) Antonio Cabrera et al.   BMC GENOMICS

Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects

(2009) Péter Poczai et al.   MOLECULAR BIOLOGY REPORTS

The utility of nuclear conserved ortholog set II (COSII) genomic regions for species-level phylogenetic inference in Lycium (Solanaceae)

(2009) Rachel A. Levin et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Fourteen nuclear genes provide phylogenetic resolution for difficult nodes in the turtle tree of life

(2009) Anthony J. Barley et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

High nrDNA ITS polymorphism in the ancient extant seed plant Cycas: Incomplete concerted evolution and the origin of pseudogenes

(2009) Long-Qian Xiao et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenetic Analysis of Seven WRKY Genes across the Palm Subtribe Attaleinae (Arecaceae) Identifies Syagrus as Sister Group of the Coconut

(2009) Alan W. Meerow et al.   PLoS One

Development of COS genes as universally amplifiable markers for phylogenetic reconstructions of closely related plant species

(2008) Mingai Li et al.   CLADISTICS

Phylogenetic utility of 141 low-copy nuclear regions in taxa at different taxonomic levels in two distantly related families of rosids

(2008) P. Roxanne Steele et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Rapid development of multiple nuclear loci for phylogenetic analysis using genomic resources: An example from squamate reptiles

(2008) Ted M. Townsend et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

How well do we understand the overall backbone of cycad phylogeny? New insights from a large, multigene plastid data set

(2008) Jessie M. Zgurski et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Non-coding nuclear DNA markers in phylogenetic reconstruction

(2008) Miriam Calonje et al.   PLANT SYSTEMATICS AND EVOLUTION

Phylogenetic Relationships of the Neotropical Genus Dioon (Cycadales, Zamiaceae) Based on Nuclear and Chloroplast DNA Sequence Data

(2008) Dolores González et al.   SYSTEMATIC BOTANY