Dynamism in plastome structure observed across the phylogenetic tree of ferns

Plastid phylogenomic analysis of green plants: A billion years of evolutionary history

(2018) Matthew A. Gitzendanner et al.   AMERICAN JOURNAL OF BOTANY

A well-resolved fern nuclear phylogeny reveals the evolution history of numerous transcription factor families

(2018) Xinping Qi et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The first complete chloroplast genome of a traditional Chinese medicinal herb Odontosoria chinensis (Lindsaeaceae)

(2018) Ruixiang Xu et al.   Mitochondrial DNA Part B-Resources

Order-level fern plastome phylogenomics: new insights from Hymenophyllales

(2018) Li-Yaung Kuo et al.   AMERICAN JOURNAL OF BOTANY

Mobile elements shape plastome evolution in ferns

(2018) Tanner A Robison et al.   Genome Biology and Evolution

A simple method for data partitioning based on relative evolutionary rates

(2018) Jadranka Rota et al.   PeerJ

The complete plastid genome sequence of Trichomanes trollii (Hymenophyllaceae)

(2018) Samuli Lehtonen   NORDIC JOURNAL OF BOTANY

Evolution of six novel ORFs in the plastome of Mankyua chejuense and phylogeny of eusporangiate ferns

(2018) Hyoung Tae Kim et al.   Scientific Reports

Plastid Phylogenomics Resolve Deep Relationships among Eupolypod II Ferns with Rapid Radiation and Rate Heterogeneity

(2017) Ran Wei et al.   Genome Biology and Evolution

Large-scale phylogenomic analysis resolves a backbone phylogeny in ferns

(2017) Hui Shen et al.   GigaScience

Complete chloroplast genome of the tree fern Alsophila podophylla (Cyatheaceae)

(2017) Shanshan Liu et al.   Mitochondrial DNA Part B-Resources

Complete chloroplast genome sequence of the medical fern Drynaria roosii and its phylogenetic analysis

(2017) Meiyu Sun et al.   Mitochondrial DNA Part B-Resources

Environmentally driven extinction and opportunistic origination explain fern diversification patterns

(2017) Samuli Lehtonen et al.   Scientific Reports

TNT version 1.5, including a full implementation of phylogenetic morphometrics

(2016) Pablo A. Goloboff et al.   CLADISTICS

Circumscription and phylogeny of the fern family Tectariaceae based on plastid and nuclear markers, with the description of two new genera: Draconopteris and Malaifilix (Tectariaceae)

(2016) Liang Zhang et al.   TAXON

A community-derived classification for extant lycophytes and ferns

(2016)   Journal of Systematics and Evolution

Phylogenetic Relationships of the Fern Cyrtomium falcatum (Dryopteridaceae) from Dokdo Island Based on Chloroplast Genome Sequencing

(2016) Gurusamy Raman et al.   Genes

The evolutionary history of ferns inferred from 25 low-copy nuclear genes

(2015) C. J. Rothfels et al.   AMERICAN JOURNAL OF BOTANY

Automatic selection of partitioning schemes for phylogenetic analyses using iterative k-means clustering of site rates

(2015) Paul B Frandsen et al.   BMC EVOLUTIONARY BIOLOGY

An Exploration into Fern Genome Space

(2015) Paul G. Wolf et al.   Genome Biology and Evolution

The Effects of Partitioning on Phylogenetic Inference

(2015) David Kainer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Horsetails are the sister group to all other monilophytes and Marattiales are sister to leptosporangiate ferns

(2015) Nils Knie et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Chloroplast phylogenomics resolves key relationships in ferns

(2015) Jin-Mei Lu et al.   Journal of Systematics and Evolution

Trends and concepts in fern classification

(2014) Maarten J. M. Christenhusz et al.   ANNALS OF BOTANY

From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes

(2014) Brad R Ruhfel et al.   BMC EVOLUTIONARY BIOLOGY

Two New Fern Chloroplasts and Decelerated Evolution Linked to the Long Generation Time in Tree Ferns

(2014) B. Zhong et al.   Genome Biology and Evolution

Chloroplast Genome Evolution in Early Diverged Leptosporangiate Ferns

(2014) Hyoung Tae Kim et al.   MOLECULES AND CELLS

Phylogenetic Placement of the Enigmatic Fern GenusDracoglossum

(2013) Maarten J. M. Christenhusz et al.   AMERICAN FERN JOURNAL

Complete plastid genomes from Ophioglossum californicum, Psilotum nudum, and Equisetum hyemale reveal an ancestral land plant genome structure and resolve the position of Equisetales among monilophytes

(2013) Felix Grewe et al.   BMC EVOLUTIONARY BIOLOGY

Plastome Sequences of Lygodium japonicum and Marsilea crenata Reveal the Genome Organization Transformation from Basal Ferns to Core Leptosporangiates

(2013) Lei Gao et al.   Genome Biology and Evolution

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

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

Towards a phylogenetic classification of the climbing fern genus Arthropteris

(2013) Hong-Mei Liu et al.   TAXON

Diversification of lindsaeoid ferns and phylogenetic uncertainty of early polypod relationships

(2012) Samuli Lehtonen et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Exploration of data partitioning in an eight-gene data set: phylogeny of metalmark moths (Lepidoptera, Choreutidae)

(2012) Jadranka Rota et al.   ZOOLOGICA SCRIPTA

Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

(2011) Lei Gao et al.   BMC PLANT BIOLOGY

Towards Resolving the Complete Fern Tree of Life

(2011) Samuli Lehtonen   PLoS One

A Method for Inferring the Rate of Evolution of Homologous Characters that Can Potentially Improve Phylogenetic Inference, Resolve Deep Divergence and Correct Systematic Biases

(2011) Carla A. Cummins et al.   SYSTEMATIC BIOLOGY

Complete plastome sequences of Equisetum arvense and Isoetes flaccida: implications for phylogeny and plastid genome evolution of early land plant lineages

(2010) Kenneth G Karol et al.   BMC EVOLUTIONARY BIOLOGY

Phylogenetics and biogeography of Nephrolepis - a tale of old settlers and young tramps

(2010) SABINE HENNEQUIN et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

SequenceMatrix: concatenation software for the fast assembly of multi-gene datasets with character set and codon information

(2010) Gaurav Vaidya et al.   CLADISTICS

The evolution of chloroplast genes and genomes in ferns

(2010) Paul G. Wolf et al.   PLANT MOLECULAR BIOLOGY

Complete chloroplast genome sequence of a tree fern Alsophila spinulosa: insights into evolutionary changes in fern chloroplast genomes

(2009) Lei Gao et al.   BMC EVOLUTIONARY BIOLOGY

Introducing the plant RNA editing prediction and analysis computer tool PREPACT and an update on RNA editing site nomenclature

(2009) Henning Lenz et al.   CURRENT GENETICS

Identifying a mysterious aquatic fern gametophyte

(2009) Fay-Wei Li et al.   PLANT SYSTEMATICS AND EVOLUTION

GenomeVx: simple web-based creation of editable circular chromosome maps

(2008) G. C. Conant et al.   BIOINFORMATICS