Backbone phylogeny and evolution of Apioideae (Apiaceae): New insights from phylogenomic analyses of plastome data

Phylogenomic and evolutionary dynamics of inverted repeats across Angelica plastomes

(2021) Mengli Wang et al.   BMC PLANT BIOLOGY

A transcriptome-based study on the phylogeny and evolution for taxonomic controversial subfamily Apioideae (Apiaceae)

(2020) Jun Wen et al.   ANNALS OF BOTANY

Phylogenetic relationships and chloroplast capture in the Amelanchier-Malacomeles-Peraphyllum clade (Maleae, Rosaceae): evidence from chloroplast genome and nuclear ribosomal DNA data using genome skimming

(2020) Bin-Bin Liu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Insights into phylogeny, age and evolution of Allium (Amaryllidaceae) based on the whole plastome sequences

(2020) Deng-Feng Xie et al.   ANNALS OF BOTANY

Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship

(2020) Jun Li et al.   Plants-Basel

Comparative plastid genomics of Pinus species: Insights into sequence variations and phylogenetic relationships

(2019) Umar Zeb et al.   Journal of Systematics and Evolution

Unprecedented parallel photosynthetic losses in a heterotrophic orchid genus

(2019) Craig F Barrett et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary shifts in fruit dispersal syndromes in Apiaceae tribe Scandiceae

(2019) Aneta Wojewódzka et al.   PLANT SYSTEMATICS AND EVOLUTION

Chloroplast phylogenomics of liverworts: a reappraisal of the backbone phylogeny of liverworts with emphasis on Ptilidiales

(2019) Ying Yu et al.   CLADISTICS

Chloroplast phylogenomic data support Paleocene - Eocene amphi-Pacific early radiation for the Asian Palmate core Araliaceae

(2019) Virginia Valcárcel et al.   Journal of Systematics and Evolution

Sequencing and analyses on chloroplast genomes of Tetrataenium candicans and two allies give new insights on structural variants, DNA barcoding and phylogeny in Apiaceae subfamily Apioideae

(2019) Lu Kang et al.   PeerJ

Multilocus data reveal deep phylogenetic relationships and intercontinental biogeography of the Eurasian-North American genus Corylus (Betulaceae)

(2019) Tiantian Zhao et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

The complete chloroplast genome of Pimpinella rhomboidea var. tenuiloba

(2018) Jinbo Tan et al.   Mitochondrial DNA Part B-Resources

Corrigendum: A transcriptome-based resolution for a key taxonomic controversy in Cupressaceae

(2018) Kangshan Mao et al.   ANNALS OF BOTANY

Chloroplast and ITS phylogenies to understand the evolutionary history of southern South American Azorella, Laretia and Mulinum (Azorelloideae, Apiaceae)

(2017) Martina Fernández et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Insights into the historical assembly of East Asian subtropical evergreen broadleaved forests revealed by the temporal history of the tea family

(2017) Xiang-Qin Yu et al.   NEW PHYTOLOGIST

Diversification of Rosaceae since the Late Cretaceous based on plastid phylogenomics

(2017) Shu-Dong Zhang et al.   NEW PHYTOLOGIST

Phylogenetic and Taxonomic Status Analyses of the Abaso Section from Multiple Nuclear Genes and Plastid Fragments Reveal New Insights into the North America Origin of Populus (Salicaceae)

(2017) Xia Liu et al.   Frontiers in Plant Science

Comparative Analysis of the Complete Chloroplast Genome of Four Endangered Herbals of Notopterygium

(2017) Jiao Yang et al.   Genes

Available data point to a 4-km-high Tibetan Plateau by 40 Ma, but 100 molecular-clock papers have linked supposed recent uplift to young node ages

(2016) Susanne S. Renner   JOURNAL OF BIOGEOGRAPHY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Expansion of inverted repeat does not decrease substitution rates in Pelargonium plastid genomes

(2016) Mao-Lun Weng et al.   NEW PHYTOLOGIST

The complete chloroplast genome sequence of Ostericum koreanum (Apiaceae)

(2016) Sun A. Choi et al.   Mitochondrial DNA Part B-Resources

The role of the Southern Hemisphere in the evolutionary history of Apiaceae, a mostly north temperate plant family

(2015) Carolina I. Calviño et al.   JOURNAL OF BIOGEOGRAPHY

Integrating phylogeography and paleoecology to investigate the origin and dynamics of hybrid zones: insights from two widespread North American firs

(2015) Benjamin Cinget et al.   MOLECULAR ECOLOGY

Chloroplast capture and intra- and inter-continental biogeographic diversification in the Asian – New World disjunct plant genus Osmorhiza (Apiaceae)

(2015) Ting-Shuang Yi et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Evolutionary dynamics of the plastid inverted repeat: the effects of expansion, contraction, and loss on substitution rates

(2015) Andan Zhu et al.   NEW PHYTOLOGIST

Pimpinella rhomboideavar.tenuilobais a synonym ofMelanosciadium bipinnatum(Apiaceae)

(2015) Jin-Bo Tan et al.   NORDIC JOURNAL OF BOTANY

A Comparative Analysis of Whole Plastid Genomes from the Apiales: Expansion and Contraction of the Inverted Repeat, Mitochondrial to Plastid Transfer of DNA, and Identification of Highly Divergent Noncoding Regions

(2015) Stephen R. Downie et al.   SYSTEMATIC BOTANY

Molecular phylogenetic and morphological analyses of the traditional tribe Coriandreae (Umbelliferae-Apioideae)

(2015) Elena I Terenteva et al.   Phytotaxa

Taxonomy of the tribe Apieae (Apiaceae) revisited as revealed by molecular phylogenies and morphological characters

(2015) Pedro Jimenez-Mejias et al.   Phytotaxa

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

The role of the uplift of the Qinghai-Tibetan Plateau for the evolution of Tibetan biotas

(2014) Adrien Favre et al.   BIOLOGICAL REVIEWS

Diversification Times and Biogeographic Patterns in Apiales

(2014) Antoine N. Nicolas et al.   BOTANICAL REVIEW

Evolutionary diversifications of plants on the Qinghai-Tibetan Plateau

(2014) Jun Wen et al.   Frontiers in Genetics

Dispersal patterns in space and time: a case study of Apiaceae subfamily Apioideae

(2013) Łukasz Banasiak et al.   JOURNAL OF BIOGEOGRAPHY

Reconstruction of the Ancestral Plastid Genome in Geraniaceae Reveals a Correlation between Genome Rearrangements, Repeats, and Nucleotide Substitution Rates

(2013) Mao-Lun Weng et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

Molecular phylogenetics ofPimpinellaand allied genera (Apiaceae), with emphasis on Chinese native species, inferred from nrDNA ITS and cpDNA intron sequence data

(2013) Zhi-Xin Wang et al.   NORDIC JOURNAL OF BOTANY

OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets

(2013) Marc Lohse et al.   NUCLEIC ACIDS RESEARCH

New Insights into the Phylogeny of Angelica and its Allies (Apiaceae) with Emphasis on East Asian Species, Inferred from nrDNA, cpDNA, and Morphological Evidence

(2013) Chenyang Liao et al.   SYSTEMATIC BOTANY

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Asynchronous responses of East Asian and Indian summer monsoons to mountain uplift shown by regional climate modelling experiments

(2012) Hui Tang et al.   CLIMATE DYNAMICS

What controlled Mid–Late Miocene long-term aridification in Central Asia? — Global cooling or Tibetan Plateau uplift: A review

(2012) Yunfa Miao et al.   EARTH-SCIENCE REVIEWS

What causes latitudinal gradients in species diversity? Evolutionary processes and ecological constraints on swallowtail biodiversity

(2012) Fabien L. Condamine et al.   ECOLOGY LETTERS

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

The Influence of Late Quaternary Climate-Change Velocity on Species Endemism

(2011) B. Sandel et al.   SCIENCE

Quantitative reconstruction of the Late Miocene monsoon climates of southwest China: A case study of the Lincang flora from Yunnan Province

(2010) Frédéric M.B. Jacques et al.   PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY

Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots

(2010) M. J. Moore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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

(2009) P. Librado et al.   BIOINFORMATICS

The demise of subfamily Hydrocotyloideae (Apiaceae) and the re-alignment of its genera across the entire order Apiales

(2009) Antoine N. Nicolas et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Towards a more robust molecular phylogeny of Chinese Apiaceae subfamily Apioideae: Additional evidence from nrDNA ITS and cpDNA intron (rpl16 and rps16) sequences

(2009) Jing Zhou et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Evidence of chloroplast capture in South American Nothofagus (subgenus Nothofagus, Nothofagaceae)

(2009) M. Cristina Acosta et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Dynamics and evolution of the inverted repeat-large single copy junctions in the chloroplast genomes of monocots

(2008) Rui-Jiang Wang et al.   BMC EVOLUTIONARY BIOLOGY

An early Cenozoic perspective on greenhouse warming and carbon-cycle dynamics

(2008) James C. Zachos et al.   NATURE

Phylogenetic position of the genus Ferula (Apiaceae) and its placement in tribe Scandiceae as inferred from nrDNA ITS sequence variation

(2008) Renata Kurzyna-Młynik et al.   PLANT SYSTEMATICS AND EVOLUTION

The evolutionary history of Eryngium (Apiaceae, Saniculoideae): Rapid radiations, long distance dispersals, and hybridizations

(2007) Carolina I. Calviño et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION