Related references
Note: Only part of the references are listed.A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny
Nasim Azani et al.
TAXON (2017)
Increasing phylogenetic support for explosively radiating taxa: The promise of high-throughput sequencing for Oxytropis (Fabaceae)
Robabeh Shahi Shavvon et al.
JOURNAL OF SYSTEMATICS AND EVOLUTION (2017)
Targeted NGS for species level phylogenomics: made to measure'' or one size fits all''?
Malvina Kadlec et al.
PEERJ (2017)
Identifying conserved genomic elements and designing universal bait sets to enrich them
Brant C. Faircloth
METHODS IN ECOLOGY AND EVOLUTION (2017)
Phylogenetic marker development for target enrichment from transcriptome and genome skim data: the pipeline and its application in southern African Oxalis (Oxalidaceae)
Roswitha Schmickl et al.
MOLECULAR ECOLOGY RESOURCES (2016)
Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies
Erfan Sayyari et al.
MOLECULAR BIOLOGY AND EVOLUTION (2016)
Parsing polyphyletic Pueraria: Delimiting distinct evolutionary lineages through phylogeny
Ashley N. Egan et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2016)
The gene tree delusion
Mark S. Springer et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2016)
Integration of complete chloroplast genome sequences with small amplicon datasets improves phylogenetic resolution in Acacia
Anna V. Williams et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2016)
Sequence Capture versus Restriction Site Associated DNA Sequencing for Shallow Systematics
Michael G. Harvey et al.
SYSTEMATIC BIOLOGY (2016)
HYBPIPER: EXTRACTING CODING SEQUENCE AND INTRONS FOR PHYLOGENETICS FROM HIGH-THROUGHP UT SEQUENCING READS USING TARGET ENRICHMENT
Matthew G. Johnson et al.
APPLICATIONS IN PLANT SCIENCES (2016)
AMAS: a fast tool for alignment manipulation and computing of summary statistics
Marek L. Borowiec
PEERJ (2016)
A Phylogenomic Approach Based on PCR Target Enrichment and High Throughput Sequencing: Resolving the Diversity within the South American Species of Bartsia L. (Orobanchaceae)
Simon Uribe-Convers et al.
PLOS ONE (2016)
Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting
Siavash Mirarab et al.
SYSTEMATIC BIOLOGY (2016)
Transcriptome sequencing and marker development in winged bean (Psophocarpus tetragonolobus; Leguminosae)
Mohammad Vatanparast et al.
SCIENTIFIC REPORTS (2016)
ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes
Siavash Mirarab et al.
BIOINFORMATICS (2015)
Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants
Stephen A. Smith et al.
BMC EVOLUTIONARY BIOLOGY (2015)
A comparative study of SVDquartets and other coalescent-based species tree estimation methods
Jed Chou et al.
BMC GENOMICS (2015)
A multilocus phylogenetic analysis reveals the monophyly of a recircumscribed papilionoid legume tribe Diocleae with well-supported generic relationships
Luciano Paganucci de Queiroz et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2015)
Coalescence vs. concatenation: Sophisticated analyses vs. first principles applied to rooting the angiosperms
Mark P. Simmons et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2015)
Post-molecular systematics and the future of phylogenetics
R. Alexander Pyron
TRENDS IN ECOLOGY & EVOLUTION (2015)
Using nuclear gene data for plant phylogenetics: Progress and prospects II. Next-gen approaches
Elizabeth A. Zimmer et al.
JOURNAL OF SYSTEMATICS AND EVOLUTION (2015)
Using phylogenomics to resolve mega-families: An example from Compositae
Jennifer R. Mandel et al.
JOURNAL OF SYSTEMATICS AND EVOLUTION (2015)
Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae)
James A. Nicholls et al.
FRONTIERS IN PLANT SCIENCE (2015)
MARKERMINER 1.0: A NEW APPLICATION FOR PHYLOGENETIC MARKER DEVELOPMENT USING ANGIOSPERM TRANSCRIPTOMES
Srikar Chamala et al.
APPLICATIONS IN PLANT SCIENCES (2015)
A PROTOCOL FOR TARGETED ENRICHMENT OF INTRON-CONTAINING SEQUENCE MARKERS FOR RECENT RADIATIONS: A PHYLOGENOMIC EXAMPLE FROM HEUCHERA (SAXIFRAGACEAE)
Ryan A. Folk et al.
APPLICATIONS IN PLANT SCIENCES (2015)
Multiple Polyploidy Events in the Early Radiation of Nodulating and Nonnodulating Legumes
Steven B. Cannon et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
Quartet Inference from SNP Data Under the Coalescent Model
Julia Chifman et al.
BIOINFORMATICS (2014)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
Alexandros Stamatakis
BIOINFORMATICS (2014)
Selecting optimal partitioning schemes for phylogenomic datasets
Robert Lanfear et al.
BMC EVOLUTIONARY BIOLOGY (2014)
Orthology Inference in Nonmodel Organisms Using Transcriptomes and Low-Coverage Genomes: Improving Accuracy and Matrix Occupancy for Phylogenomics
Ya Yang et al.
MOLECULAR BIOLOGY AND EVOLUTION (2014)
Phylogenetic analysis at deep timescales: Unreliable gene trees, bypassed hidden support, and the coalescence/concatalescence conundrum
John Gatesy et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2014)
Phylotranscriptomic analysis of the origin and early diversification of land plants
Norman J. Wickett et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
Statistical binning enables an accurate coalescent-based estimation of the avian tree
Siavash Mirarab et al.
SCIENCE (2014)
HYB-SEQ: COMBINING TARGET ENRICHMENT AND GENOME SKIMMING FOR PLANT PHYLOGENOMICS
Kevin Weitemier et al.
APPLICATIONS IN PLANT SCIENCES (2014)
High-Throughput Genomic Data in Systematics and Phylogenetics
Emily Moriarty Lemmon et al.
ANNUAL REVIEW OF ECOLOGY, EVOLUTION, AND SYSTEMATICS, VOL 44 (2013)
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
Inferring ancient divergences requires genes with strong phylogenetic signals
Leonidas Salichos et al.
NATURE (2013)
Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants
Riet De Smet et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Legume phylogeny and classification in the 21st century: Progress, prospects and lessons for other species-rich clades
TAXON (2013)
Diversification of the phaseoloid legumes: effects of climate change, range expansion and habit shift
Honglei Li et al.
FRONTIERS IN PLANT SCIENCE (2013)
APPLICATIONS OF NEXT-GENERATION SEQUENCING IN PLANT BIOLOGY
Ashley N. Egan et al.
AMERICAN JOURNAL OF BOTANY (2012)
CD-HIT: accelerated for clustering the next-generation sequencing data
Limin Fu et al.
BIOINFORMATICS (2012)
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Anton Bankevich et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2012)
Anchored Hybrid Enrichment for Massively High-Throughput Phylogenomics
Alan R. Lemmon et al.
SYSTEMATIC BIOLOGY (2012)
Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales
Brant C. Faircloth et al.
SYSTEMATIC BIOLOGY (2012)
Performance comparison of exome DNA sequencing technologies
Michael J. Clark et al.
NATURE BIOTECHNOLOGY (2011)
Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels
Jill M. Duarte et al.
BMC EVOLUTIONARY BIOLOGY (2010)
Target-enrichment strategies for next-generation sequencing
Lira Mamanova et al.
NATURE METHODS (2010)
Dating the origins of polyploidy events
Jeff J. Doyle et al.
NEW PHYTOLOGIST (2010)
PHYLOGENY OF THE TRIBE INDIGOFEREAE (LEGUMINOSAE-PAPILIONOIDEAE): GEOGRAPHICALLY STRUCTURED MORE IN SUCCULENT-RICH AND TEMPERATE SETTINGS THAN IN GRASS-RICH ENVIRONMENTS
Brian D. Schrire et al.
AMERICAN JOURNAL OF BOTANY (2009)
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
Salvador Capella-Gutierrez et al.
BIOINFORMATICS (2009)
Relationships Among Phaseoloid Legumes Based on Sequences from Eight Chloroplast Regions
Sasa Stefanovic et al.
SYSTEMATIC BOTANY (2009)
Phyutility: a phyloinformatics tool for trees, alignments and molecular data
Stephen A. Smith et al.
BIOINFORMATICS (2008)
Divergence and diversification in North American Psoraleeae (Fabaceae) due to climate change
Ashley N. Egan et al.
BMC BIOLOGY (2008)
Dealing with incongruence in phylogenomic analyses
Nicolas Galtier et al.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2008)
Complete chloroplast genome sequence of Glycine max and comparative analyses with other legume genomes
C Saski et al.
PLANT MOLECULAR BIOLOGY (2005)
Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the tertiary
M Lavin et al.
SYSTEMATIC BIOLOGY (2005)
Automated generation of heuristics for biological sequence comparison
GS Slater et al.
BMC BIOINFORMATICS (2005)
BLAT - The BLAST-like alignment tool
WJ Kent
GENOME RESEARCH (2002)