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Plastid primers for angiosperm phylogenetics and phylogeography

https://doi.org/10.3732/apps.1400085
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/j.1460-2075.1986.tb04464.xopenalex-snapshot
The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression
inferredcites →https://doi.org/10.1006/jmbi.1995.0460openalex-snapshot
Complete Sequence of the Maize Chloroplast Genome: Gene Content, Hotspots of Divergence and Fine Tuning of Genetic Information by Transcript Editing
inferredcites →https://doi.org/10.1006/mpev.1997.0432openalex-snapshot
Molecular Evolution and Phylogenetic Utility of the Chloroplastrpl16Intron inChusqueaand the Bambusoideae (Poaceae)
inferredcites →https://doi.org/10.1007/bf00161167openalex-snapshot
Relative rates of nucleotide substitution at the rbcl locus of monocotyledonous plants
inferredcites →https://doi.org/10.1007/bf00384619openalex-snapshot
Chloroplast DNA from lettuce and Barnadesia (Asteraceae): structure, gene localization, and characterization of a large inversion
inferredcites →https://doi.org/10.1007/bf02464880openalex-snapshot
The complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals
inferredcites →https://doi.org/10.1007/pl00008686openalex-snapshot
Complete nucleotide sequence of the Oenothera elata plastid chromosome, representing plastome I of the five distinguishable Euoenothera plastomes
inferredcites →https://doi.org/10.1007/s00122-007-0567-4openalex-snapshot
Complete chloroplast genome sequences of Hordeum vulgare, Sorghum bicolor and Agrostis stolonifera, and comparative analyses with other grass genomes
inferredcites →https://doi.org/10.1007/s00239-009-9275-9openalex-snapshot
The Complete Chloroplast Genome of Coix lacryma-jobi and a Comparative Molecular Evolutionary Analysis of Plastomes in Cereals
inferredcites →https://doi.org/10.1007/s00294-004-0542-4openalex-snapshot
Structural features and transcript-editing analysis of sugarcane (Saccharum officinarum L.) chloroplast genome
inferredcites →https://doi.org/10.1007/s00438-001-0606-9openalex-snapshot
Structural features of a wheat plastome as revealed by complete sequencing of chloroplast DNA
inferredcites →https://doi.org/10.1007/s11103-005-8882-0openalex-snapshot
Complete Chloroplast Genome Sequence of Glycine max and Comparative Analyses with other Legume Genomes
inferredcites →https://doi.org/10.1016/j.gene.2004.06.008openalex-snapshot
The complete nucleotide sequence of wild rice (Oryza nivara) chloroplast genome: first genome wide comparative sequence analysis of wild and cultivated rice
inferredcites →https://doi.org/10.1016/j.ympev.2012.08.026openalex-snapshot
Insights into phylogeny, sex function and age of Fragaria based on whole chloroplast genome sequencing
inferredcites →https://doi.org/10.1023/a:1006478403810openalex-snapshot
The plastid chromosome of spinach (Spinacia oleracea): complete nucleotide sequence and gene organization
inferredcites →https://doi.org/10.1038/nature11532openalex-snapshot
A map of rice genome variation reveals the origin of cultivated rice
inferredcites →https://doi.org/10.1038/ng.740openalex-snapshot
The genome of woodland strawberry (Fragaria vesca)
inferredcites →https://doi.org/10.1046/j.1471-8278.2001.00107.xopenalex-snapshot
Genome walking with consensus primers: application to the large single copy region of chloroplast DNA
inferredcites →https://doi.org/10.1073/pnas.0708072104openalex-snapshot
Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms
inferredcites →https://doi.org/10.1073/pnas.84.16.5818openalex-snapshot
A chloroplast DNA inversion marks an ancient evolutionary split in the sunflower family (Asteraceae)
inferredcites →https://doi.org/10.1086/317583openalex-snapshot
Microstructural Changes in Noncoding Chloroplast DNA: Interpretation, Evolution, and Utility of Indels and Inversions in Basal Angiosperm Phylogenetic Inference
inferredcites →https://doi.org/10.1093/aob/mct264openalex-snapshot
Resolving ancient radiations: can complete plastid gene sets elucidate deep relationships among the tropical gingers (Zingiberales)?
inferredcites →https://doi.org/10.1093/dnares/11.2.93openalex-snapshot
Complete Nucleotide Sequence of the Sugarcane (Saccharum Officinarum) Chloroplast Genome: A Comparative Analysis of Four Monocot Chloroplast Genomes
inferredcites →https://doi.org/10.1093/dnares/6.5.283openalex-snapshot
Complete Structure of the Chloroplast Genome of Arabidopsis thaliana
inferredcites →https://doi.org/10.1093/dnares/7.6.323openalex-snapshot
Complete Structure of the Chloroplast Genome of a Legume, Lotus japonicus
inferredcites →https://doi.org/10.1093/dnares/dsr002openalex-snapshot
The Complete Chloroplast Genome of 17 Individuals of Pest Species Jacobaea vulgaris: SNPs, Microsatellites and Barcoding Markers for Population and Phylogenetic Studies
inferredcites →https://doi.org/10.1093/gbe/evt063openalex-snapshot
Sequencing Angiosperm Plastid Genomes Made Easy: A Complete Set of Universal Primers and a Case Study on the Phylogeny of Saxifragales
inferredcites →https://doi.org/10.1093/molbev/msg159openalex-snapshot
Analysis of the Amborella trichopoda Chloroplast Genome Sequence Suggests That Amborella Is Not a Basal Angiosperm
inferredcites →https://doi.org/10.1093/molbev/msh147openalex-snapshot
The Chloroplast Genome of Nymphaea alba: Whole-Genome Analyses and the Problem of Identifying the Most Basal Angiosperm
inferredcites →https://doi.org/10.1093/molbev/msi173openalex-snapshot
Analysis of Acorus calamus Chloroplast Genome and Its Phylogenetic Implications
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004222openalex-snapshot
The Plastid Chromosome of Atropa belladonna and its Comparison with that of Nicotiana tabacum: The Role of RNA Editing in Generating Divergence in the Process of Plant Speciation
inferredcites →https://doi.org/10.1104/pp.103.031245openalex-snapshot
A Comparison of Rice Chloroplast Genomes
inferredcites →https://doi.org/10.1111/j.1469-8137.2005.01647.xopenalex-snapshot
Genetic analysis of rice domestication syndrome with the wild annual species, Oryza nivara
inferredcites →https://doi.org/10.1111/j.1755-0998.2008.02320.xopenalex-snapshot
A new set of universal de novo sequencing primers for extensive coverage of noncoding chloroplast DNA: new opportunities for phylogenetic studies and cpSSR discovery
inferredcites →https://doi.org/10.1111/nph.12560openalex-snapshot
Genome skimming reveals the origin of the Jerusalem Artichoke tuber crop species: neither from Jerusalem nor an artichoke
inferredcites →https://doi.org/10.1186/1471-2148-13-84openalex-snapshot
Complete chloroplast genome of the genus Cymbidium: lights into the species identification, phylogenetic implications and population genetic analyses
inferredcites →https://doi.org/10.1186/1471-2229-11-80openalex-snapshot
Genomic profiling of plastid DNA variation in the Mediterranean olive tree
inferredcites →https://doi.org/10.1186/1746-4811-3-4openalex-snapshot
A database of PCR primers for the chloroplast genomes of higher plants
inferredcites →https://doi.org/10.1186/1756-0500-1-61openalex-snapshot
The complete chloroplast genome sequence of Brachypodium distachyon: sequence comparison and phylogenetic analysis of eight grass plastomes
inferredcites →https://doi.org/10.1371/journal.pone.0019954openalex-snapshot
A Set of 100 Chloroplast DNA Primer Pairs to Study Population Genetics and Phylogeny in Monocotyledons
inferredcites →https://doi.org/10.1371/journal.pone.0035071openalex-snapshot
Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding
inferredcites →https://doi.org/10.1371/journal.pone.0037128openalex-snapshot
Analysis of Complete Nucleotide Sequences of 12 Gossypium Chloroplast Genomes: Origin and Evolution of Allotetraploids
inferredcites →https://doi.org/10.1371/journal.pone.0082266openalex-snapshot
Predicting Plastid Marker Variation: Can Complete Plastid Genomes from Closely Related Species Help?
inferredcites →https://doi.org/10.2307/2419351openalex-snapshot
A Chloroplast DNA Inversion as a Subtribal Character in the Phaseoleae (Leguminosae)
inferredcites →https://doi.org/10.2307/2657094openalex-snapshot
Coding and noncoding plastid DNA in palm systematics
inferredcites →https://doi.org/10.3732/ajb.1400398openalex-snapshot
Chloroplast DNA sequence utility for the lowest phylogenetic and phylogeographic inferences in angiosperms: The tortoise and the hare IV
inferredcites →https://doi.org/10.3732/ajb.92.1.142openalex-snapshot
The tortoise and the hare II: relative utility of 21 noncoding chloroplast DNA sequences for phylogenetic analysis
inferredcites →https://doi.org/10.3732/ajb.94.3.275openalex-snapshot
Comparison of whole chloroplast genome sequences to choose noncoding regions for phylogenetic studies in angiosperms: the tortoise and the hare III
inferredcites →https://doi.org/10.3732/ajb.94.3.302openalex-snapshot
A comparative analysis of the Lactuca and Helianthus (Asteraceae) plastid genomes: identification of divergent regions and categorization of shared repeats

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Confirmed polyphyly, generic recircumscription and typification of Dysoxylum (Meliaceae), with revised disposition of currently accepted species
inferred← citeshttps://doi.org/10.1002/ece3.6277openalex-snapshot
A comparative plastomics approach reveals available molecular markers for the phylogeographic study of Dendrobium huoshanense, an endangered orchid with extremely small populations
inferred← citeshttps://doi.org/10.1007/13836_2020_82openalex-snapshot
Population Genomics of Organelle Genomes in Crop Plants
inferred← citeshttps://doi.org/10.1007/s10722-025-02378-zopenalex-snapshot
Development of universal polymorphic SNPs primers for chloroplast genome of Rhododendron plants
inferred← citeshttps://doi.org/10.1007/s11295-017-1196-yopenalex-snapshot
Comparative analysis of complete chloroplast genome sequences of two subtropical trees, Phoebe sheareri and Phoebe omeiensis (Lauraceae)
inferred← citeshttps://doi.org/10.1016/j.bse.2016.02.001openalex-snapshot
Intra and interspecific sequence variation in closely related species of Cereus (CACTACEAE)
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The Radiation of Darwin’s Giant Daisies in the Galápagos Islands
inferred← citeshttps://doi.org/10.1016/j.ympev.2018.04.015openalex-snapshot
Comparative chloroplast genomics between the invasive weed Mikania micrantha and its indigenous congener Mikania cordata: Structure variation, identification of highly divergent regions, divergence time estimation, and phylogenetic analysis
inferred← citeshttps://doi.org/10.1016/j.ympev.2022.107440openalex-snapshot
Himalayan orogeny and monsoon intensification explain species diversification in an endemic ginger (Hedychium: Zingiberaceae) from the Indo-Malayan Realm
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A global phylogenetic framework for Diospyros L. (Ebenaceae, Ericales): enhanced taxon and sample coverage through NGS, Sanger sequencing and herbariomics
inferred← citeshttps://doi.org/10.1093/botlinnean/boac068openalex-snapshot
Phylogenetics of the Andean tree genusRuagea(Meliaceae): implications for taxonomy
inferred← citeshttps://doi.org/10.1111/1755-0998.12626openalex-snapshot
Strategies for complete plastid genome sequencing
inferred← citeshttps://doi.org/10.1111/mec.14695openalex-snapshot
Markers in time and space: A review of the last decade of plant phylogeographic approaches
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Impact of barriers on Cyrno‐Sardinian endemisms: A comparative study of population genetics and phylogeography within taxa of Centranthus sect. Nervosae (Caprifoliaceae)
inferred← citeshttps://doi.org/10.1155/2022/9249561openalex-snapshot
Molecular Characterization of Wild and Cultivated Strawberry (Fragaria × ananassa) through DNA Barcode Markers
inferred← citeshttps://doi.org/10.1186/s12862-017-1067-zopenalex-snapshot
The complete chloroplast genome of Primulina and two novel strategies for development of high polymorphic loci for population genetic and phylogenetic studies
inferred← citeshttps://doi.org/10.1186/s12870-019-1896-6openalex-snapshot
Plastome phylogenomics of Saussurea (Asteraceae: Cardueae)
inferred← citeshttps://doi.org/10.1371/journal.pone.0329846openalex-snapshot
Integrative taxonomy of Cedrela (Meliaceae) leads to the recognition of a new species (C. tamaulipana) and the reinstatement of C. saxatilis
inferred← citeshttps://doi.org/10.2989/10220119.2025.2549689openalex-snapshot
DNA-based species identification as a tool to distinguish invasive Nassella species in South Africa
inferred← citeshttps://doi.org/10.3389/fpls.2020.00376openalex-snapshot
Plastome Evolution in Dolomiaea (Asteraceae, Cardueae) Using Phylogenomic and Comparative Analyses
inferred← citeshttps://doi.org/10.3389/fpls.2020.00729openalex-snapshot
Insights Into Chloroplast Genome Evolution Across Opuntioideae (Cactaceae) Reveals Robust Yet Sometimes Conflicting Phylogenetic Topologies
inferred← citeshttps://doi.org/10.3389/fpls.2021.631884openalex-snapshot
The Conservation of Chloroplast Genome Structure and Improved Resolution of Infrafamilial Relationships of Crassulaceae
inferred← citeshttps://doi.org/10.3390/biology11030356openalex-snapshot
An Integrated Taxonomic Approach Points towards a Single-Species Hypothesis for Santolina (Asteraceae) in Corsica and Sardinia
inferred← citeshttps://doi.org/10.3390/d15040563openalex-snapshot
Phylogenomic Analysis of Two Species of Parasenecio and Comparative Analysis within Tribe Senecioneae (Asteraceae)
inferred← citeshttps://doi.org/10.3390/life7040047openalex-snapshot
Integral Phylogenomic Approach over Ilex L. Species from Southern South America
inferred← citeshttps://doi.org/10.3390/plants11223163openalex-snapshot
Taxonomy Complexity of Some Tyrrhenian Endemic Limonium Species Belonging to L. multiforme Group (Plumbaginaceae): New Insights from Molecular and Morphometric Analyses
inferred← citeshttps://doi.org/10.3390/plants11223171openalex-snapshot
Variability and Nativeness in the Mediterranean Taxa: Divergence and Phylogeography of Genista etnensis (Fabaceae) Inferred from Nuclear and Plastid Data
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Genetics and Distribution of the Italian Endemic Campanula fragilis Cirillo (Campanulaceae)
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Lineage‐specific evolutionary rate in plants: Contributions of a screening for Cereus (Cactaceae)
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Two new species and a new species record of Aglaia (Meliaceae) from Indonesia
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