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Microstructural Changes in Noncoding Chloroplast DNA: Interpretation, Evolution, and Utility of Indels and Inversions in Basal Angiosperm Phylogenetic Inference

https://doi.org/10.1086/317583
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What this work says

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

inferredcites →https://doi.org/10.1006/mpev.1993.1006openalex-snapshot
Evolution of a Noncoding Region of the Chloroplast Genome
inferredcites →https://doi.org/10.1006/mpev.1993.1015openalex-snapshot
Alignment-Ambiguous Nucleotide Sites and the Exclusion of Systematic Data
inferredcites →https://doi.org/10.1006/mpev.1995.1028openalex-snapshot
Use of rRNA Secondary Structure in Phylogenetic Studies to Identify Homologous Positions: An Example of Alignment and Data Presentation from the Frogs
inferredcites →https://doi.org/10.1006/mpev.1996.0053openalex-snapshot
Phylogenetic Analysis of Apiaceae Subfamily Apioideae Using Nucleotide Sequences from the ChloroplastrpoC1 Intron
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/10.1006/mpev.1999.0643openalex-snapshot
On Gaps
inferredcites →https://doi.org/10.1006/mpev.1999.0679openalex-snapshot
The Position of Arthropods in the Animal Kingdom: Ecdysozoa, Islands, Trees, and the “Parsimony Ratchet”
inferredcites →https://doi.org/10.1006/mpev.1999.0709openalex-snapshot
How Slippage-Derived Sequences Are Incorporated into rRNA Variable-Region Secondary Structure: Implications for Phylogeny Reconstruction
inferredcites →https://doi.org/10.1006/mpev.1999.0729openalex-snapshot
Phylogeny of the Grass Family (Poaceae) from rpl16 Intron Sequence Data
inferredcites →https://doi.org/10.1006/mpev.1999.0769openalex-snapshot
The Phylogeny of the Asteridae sensu lato Based on Chloroplast ndhF Gene Sequences
inferredcites →https://doi.org/10.1007/978-1-4615-3276-7_2openalex-snapshot
Use of Chloroplast DNA Rearrangements in Reconstructing Plant Phylogeny
inferredcites →https://doi.org/10.1007/bf00163848openalex-snapshot
Inching toward reality: An improved likelihood model of sequence evolution
inferredcites →https://doi.org/10.1007/bf00164032openalex-snapshot
The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment
inferredcites →https://doi.org/10.1007/bf00336789openalex-snapshot
A chloroplast DNA mutational hotspot and gene conversion in a noncoding region near rbcL in the grass family (Poaceae)
inferredcites →https://doi.org/10.1007/bf00339624openalex-snapshot
Deletions/insertions, short inverted repeats, sequences resembling att-lambda, and frame shift mutated open reading frames are involved in chloroplast DNA differences in the genus Oenothera subsection Munzia
inferredcites →https://doi.org/10.1007/bf00351678openalex-snapshot
Molecular evolution of noncoding regions of the chloroplast genome in the Crassulaceae and related species
inferredcites →https://doi.org/10.1007/bf02193625openalex-snapshot
An evolutionary model for maximum likelihood alignment of DNA sequences
inferredcites →https://doi.org/10.1007/s002399910036openalex-snapshot
A Phylogenetic Perspective on Sequence Evolution in Microsatellite Loci
inferredcites →https://doi.org/10.1007/s002940050130openalex-snapshot
Hairpins create minute inversions in non-coding regions of chloroplast DNA
inferredcites →https://doi.org/10.1007/s002940050517openalex-snapshot
Evolutionary significance of an unusual chloroplast DNA inversion found in two basal angiosperm lineages
inferredcites →https://doi.org/10.1016/0076-6879(90)83041-7openalex-snapshot
[39] Unified approach to alignment and phylogenies
inferredcites →https://doi.org/10.1016/0092-8674(87)90600-3openalex-snapshot
Control of plastid gene expression: 3′ inverted repeats act as mRNA processing and stabilizing elements, but do not terminate transcription
inferredcites →https://doi.org/10.1016/0378-1119(89)90026-7openalex-snapshot
Comparative and functional anatomy of group II catalytic introns — a review
inferredcites →https://doi.org/10.1016/s0960-9822(00)80119-0openalex-snapshot
Multigene analyses identify the three earliest lineages of extant flowering plants
inferredcites →https://doi.org/10.1038/46528openalex-snapshot
Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology
inferredcites →https://doi.org/10.1038/46536openalex-snapshot
The earliest angiosperms: evidence from mitochondrial, plastid and nuclear genomes
inferredcites →https://doi.org/10.1071/sb98027openalex-snapshot
Phylogeny of the Proteaceae based on atpB and atpB - rbcL intergenic spacer region sequences
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/10.1073/pnas.84.24.9054openalex-snapshot
Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.
inferredcites →https://doi.org/10.1080/106351598260923openalex-snapshot
Data Decisiveness, Data Quality, and Incongruence in Phylogenetic Analysis: An Example From the Monocotyledons Using Mitochondrial atp A Sequences
inferredcites →https://doi.org/10.1089/cmb.1997.4.351openalex-snapshot
Sequence Alignment with Tandem Duplication
inferredcites →https://doi.org/10.1093/nar/22.22.4673openalex-snapshot
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
inferredcites →https://doi.org/10.1093/nar/27.2.573openalex-snapshot
Tandem repeats finder: a program to analyze DNA sequences
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025552openalex-snapshot
Conserved sequence motifs, alignment, and secondary structure for the third domain of animal 12S rRNA
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040157openalex-snapshot
The use of chloroplast DNA to resolve plant phylogenies: noncoding versus rbcL sequences.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040442openalex-snapshot
Slipped-strand mispairing: a major mechanism for DNA sequence evolution.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040577openalex-snapshot
A new method that simultaneously aligns and reconstructs ancestral sequences for any number of homologous sequences, when the phylogeny is given.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040765openalex-snapshot
Constraints on the evolution of plastid introns: the group II intron in the gene encoding tRNA-Val(UAC).
inferredcites →https://doi.org/10.1093/sysbio/49.2.369openalex-snapshot
Gaps as Characters in Sequence-Based Phylogenetic Analyses
inferredcites →https://doi.org/10.1111/j.1096-0031.1991.tb00045.xopenalex-snapshot
CONCEPTS AND TESTS OF HOMOLOGY IN THE CLADISTIC PARADIGM
inferredcites →https://doi.org/10.1126/science.255.5052.1697openalex-snapshot
Chloroplast DNA Evidence on the Ancient Evolutionary Split in Vascular Land Plants
inferredcites →https://doi.org/10.1126/science.286.5441.947openalex-snapshot
The Root of Angiosperm Phylogeny Inferred from Duplicate Phytochrome Genes
inferredcites →https://doi.org/10.2307/2399875openalex-snapshot
Phylogenetic Inference in Saxifragaceae Sensu Stricto and Gilia (Polemoniaceae) Using matK Sequences
inferredcites →https://doi.org/10.2307/2399876openalex-snapshot
Evidence for the Polyphyly of the Scrophulariaceae Based on Chloroplast rbcL and ndhF Sequences
inferredcites →https://doi.org/10.2307/2419426openalex-snapshot
Molecular Systematics of Plants.
inferredcites →https://doi.org/10.2307/2446155openalex-snapshot
Chloroplast DNA phylogeny, reticulate evolution, and biogeography of Paeonia (Paeoniaceae)
inferredcites →https://doi.org/10.2307/2446441openalex-snapshot
Molecular systematics of Apiaceae subfamily Apioideae: phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacer and Plastid rpoC1 intron sequences
inferredcites →https://doi.org/10.2307/2446640openalex-snapshot
The tortoise and the hare: choosing between noncoding plastome and nuclear Adh sequences for phylogeny reconstruction in a recently diverged plant group
inferredcites →https://doi.org/10.2307/2656601openalex-snapshot
Intra‐ and interspecific phylogeny of wild Fagopyrum (Polygonaceae) species based on nucleotide sequences of noncoding regions in chloroplast DNA
inferredcites →https://doi.org/10.2307/2656671openalex-snapshot
Evolutionary implications of matK indels in Poaceae
inferredcites →https://doi.org/10.2307/2656749openalex-snapshot
Utility of 17 chloroplast genes for inferring the phylogeny of the basal angiosperms
inferredcites →https://doi.org/10.2307/2666142openalex-snapshot
The Evolution of Non-Coding Chloroplast DNA and Its Application in Plant Systematics

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inferred← citeshttps://doi.org/10.1055/a-1379-3249openalex-snapshot
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inferred← citeshttps://doi.org/10.1055/s-2003-42715openalex-snapshot
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inferred← citeshttps://doi.org/10.1055/s-2004-821144openalex-snapshot
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inferred← citeshttps://doi.org/10.1055/s-2004-830444openalex-snapshot
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inferred← citeshttps://doi.org/10.1071/sb04004openalex-snapshot
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inferred← citeshttps://doi.org/10.1071/sb18028openalex-snapshot
Evolution of Geosiris (Iridaceae): historical biogeography and plastid-genome evolution in a genus of non-photosynthetic tropical rainforest herbs disjunct across the Indian Ocean
inferred← citeshttps://doi.org/10.1073/pnas.0505447102openalex-snapshot
Domestication of a Mesoamerican cultivated fruit tree, Spondias purpurea
inferred← citeshttps://doi.org/10.1080/10635150701618527openalex-snapshot
Molecular Phylogenetics of the Lizard Genus Microlophus (Squamata:Tropiduridae): Aligning and Retrieving Indel Signal from Nuclear Introns
inferred← citeshttps://doi.org/10.1086/317579openalex-snapshot
Evolution of Endosperm Developmental Patterns among Basal Flowering Plants
inferred← citeshttps://doi.org/10.1086/317581openalex-snapshot
Basal Lineages of Angiosperms: Relationships and Implications for Floral Evolution
inferred← citeshttps://doi.org/10.1086/317582openalex-snapshot
Basal Angiosperm Phylogeny Inferred from Duplicate Phytochromes A and C
inferred← citeshttps://doi.org/10.1086/321919openalex-snapshot
The Flowers in Extant Basal Angiosperms and Inferences on Ancestral Flowers
inferred← citeshttps://doi.org/10.1086/321927openalex-snapshot
TrochodendronandNordenskioldia(Trochodendraceae) from the Middle Eocene of Washington State, U.S.A.
inferred← citeshttps://doi.org/10.1086/376877openalex-snapshot
Female Gametophyte Development inKadsura: Implications for Schisandraceae, Austrobaileyales, and the Early Evolution of Flowering Plants
inferred← citeshttps://doi.org/10.1086/376882openalex-snapshot
The Deepest Splits in Chloranthaceae as Resolved by Chloroplast Sequences
inferred← citeshttps://doi.org/10.1086/497647openalex-snapshot
Phylogeny of Bruniaceae Based on matK and ITS Sequence Data
inferred← citeshttps://doi.org/10.1086/509788openalex-snapshot
A 567‐Taxon Data Set for Angiosperms: The Challenges Posed by Bayesian Analyses of Large Data Sets
inferred← citeshttps://doi.org/10.1086/513476openalex-snapshot
Phylogeny ofNymphaea(Nymphaeaceae): Evidence from Substitutions and Microstructural Changes in the ChloroplasttrnT‐trnFRegion
inferred← citeshttps://doi.org/10.1086/523368openalex-snapshot
A Phylogenetic Study of Evolutionary Transitions in Sexual Systems in AustralasianWurmbea(Colchicaceae)
inferred← citeshttps://doi.org/10.1086/658923openalex-snapshot
Phylogenetic Analysis of the Plastid Inverted Repeat for 244 Species: Insights into Deeper-Level Angiosperm Relationships from a Long, Slowly Evolving Sequence Region
inferred← citeshttps://doi.org/10.1086/684180openalex-snapshot
Present-Day Genetic Structure of the HoloparasiteConopholis americana(Orobanchaceae) in Eastern North America and the Location of Its Refugia during the Last Glacial Cycle
inferred← citeshttps://doi.org/10.1086/706454openalex-snapshot
Phylogenetic Relationships and Character Evolution in NeotropicalPhyllanthus(Phyllanthaceae), with a Focus on the Cuban and Caribbean Taxa
inferred← citeshttps://doi.org/10.1093/aob/mcn084openalex-snapshot
Embryological Features of Tofieldia glutinosa and Their Bearing on the Early Diversification of Monocotyledonous Plants
inferred← citeshttps://doi.org/10.1093/aob/mcr141openalex-snapshot
Molecular phylogeny of the subgenus Ceratotropis (genus Vigna, Leguminosae) reveals three eco-geographical groups and Late Pliocene–Pleistocene diversification: evidence from four plastid DNA region sequences
inferred← citeshttps://doi.org/10.1093/botlinnean/box034openalex-snapshot
Generic recircumscription of Parasenecio (Asteraceae: Senecioneae) based on nuclear ribosomal and plastid DNA sequences, with descriptions of two new genera
inferred← citeshttps://doi.org/10.1093/gbe/evv134openalex-snapshot
The Highly Reduced Plastome of MycoheterotrophicSciaphila(Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection
inferred← citeshttps://doi.org/10.1093/gbe/evw033openalex-snapshot
Coevolution between Nuclear-Encoded DNA Replication, Recombination, and Repair Genes and Plastid Genome Complexity
inferred← citeshttps://doi.org/10.1093/molbev/msg007openalex-snapshot
Evolution and Phylogenetic Utility of Alignment Gaps Within Intron Sequences of Three Nuclear Genes in Bumble Bees (Bombus)
inferred← citeshttps://doi.org/10.1093/molbev/msg123openalex-snapshot
Adaptive Evolution in the Photosensory Domain of Phytochrome A in Early Angiosperms
inferred← citeshttps://doi.org/10.1093/molbev/msg163openalex-snapshot
Molecular Evolution of Insertions and Deletion in the Chloroplast Genome of Silene
inferred← citeshttps://doi.org/10.1093/molbev/msg190openalex-snapshot
Patterns and Relative Rates of Nucleotide and Insertion/Deletion Evolution at Six Chloroplast Intergenic Regions in New World Species of the Lecythidaceae
inferred← citeshttps://doi.org/10.1093/molbev/msi019openalex-snapshot
Molecular Evolution and Phylogenetic Utility of the petD Group II Intron: A Case Study in Basal Angiosperms
inferred← citeshttps://doi.org/10.1093/molbev/msi092openalex-snapshot
Evolution of the trnF(GAA) Gene in Arabidopsis Relatives and the Brassicaceae Family: Monophyletic Origin and Subsequent Diversification of a Plastidic Pseudogene
inferred← citeshttps://doi.org/10.1093/molbev/msi191openalex-snapshot
Identifying the Basal Angiosperm Node in Chloroplast Genome Phylogenies: Sampling One's Way Out of the Felsenstein Zone
inferred← citeshttps://doi.org/10.1093/molbev/msn074openalex-snapshot
Parallel Rate Heterogeneity in Chloroplast and Mitochondrial Genomes of Brazil Nut Trees (Lecythidaceae) Is Consistent with Lineage Effects
inferred← citeshttps://doi.org/10.1093/molbev/msr119openalex-snapshot
Reconciling Gene and Genome Duplication Events: Using Multiple Nuclear Gene Families to Infer the Phylogeny of the Aquatic Plant Family Pontederiaceae
inferred← citeshttps://doi.org/10.1093/oxfordjournals.molbev.a003999openalex-snapshot
Rooting Phylogenetic Trees with Distant Outgroups: A Case Study from the Commelinoid Monocots
inferred← citeshttps://doi.org/10.1101/023622openalex-snapshot
Perturbative formulation of general continuous-time Markov model of sequence evolution via insertions/deletions, Part IV: Incorporation of substitutions and other mutations
inferred← citeshttps://doi.org/10.1101/2025.06.09.658674openalex-snapshot
Organellar data sets confirm overall angiosperm relationships if problematic RNA-edit sites are accounted for in mitochondrial genomes
inferred← citeshttps://doi.org/10.1105/tpc.017277openalex-snapshot
Developmental Evolution of the Sexual Process in Ancient Flowering Plant Lineages
inferred← citeshttps://doi.org/10.1111/bij.12297openalex-snapshot
Calibrated chronograms, fossils, outgroup relationships, and root priors: re-examining the historical biogeography of Geraniales
inferred← citeshttps://doi.org/10.1111/cla.12066openalex-snapshot
Patterns of clade support across the major lineages of moss phylogeny
inferred← citeshttps://doi.org/10.1111/cla.12133openalex-snapshot
Plastid phylogenomics and molecular evolution of Alismatales
inferred← citeshttps://doi.org/10.1111/cla.12417openalex-snapshot
A bi‐organellar phylogenomic study of Pandanales: inference of higher‐order relationships and unusual rate‐variation patterns
inferred← citeshttps://doi.org/10.1111/cla.12584openalex-snapshot
On the importance of sequence alignment inspections in plastid phylogenomics – an example from revisiting the relationships of the water‐lilies
inferred← citeshttps://doi.org/10.1111/evo.2001.55.issue-2openalex-snapshot
inferred← citeshttps://doi.org/10.1111/j.0014-3820.2001.tb01288.xopenalex-snapshot
PERSPECTIVE: THE ORIGIN OF FLOWERING PLANTS AND THEIR REPRODUCTIVE BIOLOGY?A TALE OF TWO PHYLOGENIES
inferred← citeshttps://doi.org/10.1111/j.0014-3820.2003.tb00257.xopenalex-snapshot
MODULARITY OF THE ANGIOSPERM FEMALE GAMETOPHYTE AND ITS BEARING ON THE EARLY EVOLUTION OF ENDOSPERM IN FLOWERING PLANTS
inferred← citeshttps://doi.org/10.1111/j.1095-8312.2012.01938.xopenalex-snapshot
Continuous characters in phylogenetic analyses: patterns of corolla tube length evolution in LithospermumL. (Boraginaceae)
inferred← citeshttps://doi.org/10.1111/j.1095-8339.2004.00322.xopenalex-snapshot
Nomenclature in the dock. Overclassification leads to instability: a case study in the horticulturally important genus Cyclamen (Myrsinaceae)
inferred← citeshttps://doi.org/10.1111/j.1095-8339.2005.00422.xopenalex-snapshot
Fruit structure of Amborella trichopoda (Amborellaceae)
inferred← citeshttps://doi.org/10.1111/j.1095-8339.2008.00905.xopenalex-snapshot
Floral development inNymphaea tetragona(Nymphaeaceae)
inferred← citeshttps://doi.org/10.1111/j.1095-8339.2009.00970.xopenalex-snapshot
Molecular appraisal ofBuniumand some related arid and subarid geophilic Apiaceae-Apioideae taxa of the Ancient Mediterranean
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2004.00022.xopenalex-snapshot
Phylogeny of the Brachytheciaceae (Bryophyta) based on morphology and sequence level data
inferred← citeshttps://doi.org/10.1111/j.1365-2699.2007.01764.xopenalex-snapshot
Geographic structure, genetic diversity and source tracking of Spartina alterniflora
inferred← citeshttps://doi.org/10.1111/j.1365-294x.2009.04339.xopenalex-snapshot
Biogeography of the livebearing fishPoecilia gilliiin Costa Rica: are phylogeographical breaks congruent with fish community boundaries?
inferred← citeshttps://doi.org/10.1111/j.1365-294x.2010.04725.xopenalex-snapshot
Chloroplast evidence for geographic stasis of the Australian bird-dispersed shrub Tasmannia lanceolata (Winteraceae)
inferred← citeshttps://doi.org/10.1111/j.1365-313x.2005.02487.xopenalex-snapshot
Expression of floral MADS‐box genes in basal angiosperms: implications for the evolution of floral regulators
inferred← citeshttps://doi.org/10.1111/j.1755-0998.2012.03146.xopenalex-snapshot
The value of repetitive sequences in chloroplast DNA for phylogeographic inference: A comment on Vachon & Freeland 2011
inferred← citeshttps://doi.org/10.1111/j.1759-6831.2012.00181.xopenalex-snapshot
Phylogenetics of early branching eudicots: Comparing phylogenetic signal across plastid introns, spacers, and genes
inferred← citeshttps://doi.org/10.1111/jbi.12496openalex-snapshot
Continental‐scale diversification patterns in a megadiverse genus: the biogeography of Neotropical Begonia
inferred← citeshttps://doi.org/10.1111/jse.12225openalex-snapshot
A phylogeny of the genus Encyclia (Orchidaceae: Laeliinae), with emphasis on the species of the Northern Hemisphere
inferred← citeshttps://doi.org/10.1111/jse.12585openalex-snapshot
Correlations among oligonucleotide repeats, nucleotide substitutions, and insertion–deletion mutations in chloroplast genomes of plant family Malvaceae
inferred← citeshttps://doi.org/10.1111/nph.18335openalex-snapshot
Mitochondrial genomic data are effective at placing mycoheterotrophic lineages in plant phylogeny
inferred← citeshttps://doi.org/10.1111/pbi.12179openalex-snapshot
Evolutionary and biotechnology implications of plastid genome variation in the inverted‐repeat‐lacking clade of legumes
inferred← citeshttps://doi.org/10.1139/b06-057openalex-snapshot
A chloroplast DNA hairpin structure provides useful phylogenetic data within tribe Senecioneae (Asteraceae)
inferred← citeshttps://doi.org/10.1139/b08-062openalex-snapshot
Inference of higher-order conifer relationships from a multi-locus plastid data setThis paper is one of a selection of papers published in the Special Issue on Systematics Research.
inferred← citeshttps://doi.org/10.1139/b08-063openalex-snapshot
Phylogenetic relationships in the monocot order Commelinales, with a focus on PhilydraceaeThis paper is one of a selection of papers published in the Special Issue on Systematics Research.
inferred← citeshttps://doi.org/10.1139/b08-076openalex-snapshot
Phylogenetic relationships in subtribe Poinae (Poaceae, Poeae) based on nuclear ITS and plastidtrnT–trnL–trnF sequencesThis paper is one of a selection of papers published in the Special Issue on Systematics Research.
inferred← citeshttps://doi.org/10.1139/b09-093openalex-snapshot
Inference of phylogenetic relationships among the subfamilies of grasses (Poaceae: Poales) using meso-scale exemplar-based sampling of the plastid genome
inferred← citeshttps://doi.org/10.1139/cjb-2016-0241openalex-snapshot
Revisiting phylogenetic relationships in Phoradendreae (Viscaceae): utility of the trnL-F region of chloroplast DNA and presence of a homoplasious inversion in the intergenic spacer
inferred← citeshttps://doi.org/10.1139/g08-049openalex-snapshot
Chloroplast DNA diversity reveals the contribution of two wild species to the origin and evolution of diploid safflower (Carthamus tinctorius L.)
inferred← citeshttps://doi.org/10.1155/2019/5046958openalex-snapshot
Comparative Chloroplast Genomes ofSorghumSpecies: Sequence Divergence and Phylogenetic Relationships
inferred← citeshttps://doi.org/10.1155/2022/5364094openalex-snapshot
Chloroplast Genome Evolution and Species Identification of Styrax (Styracaceae)
inferred← citeshttps://doi.org/10.11646/phytotaxa.1.1.2openalex-snapshot
Phylogenetic analysis of non-coding plastid DNA in the presence of short inversions
inferred← citeshttps://doi.org/10.1186/1471-2148-14-102openalex-snapshot
Reconstructing the age and historical biogeography of the ancient flowering-plant family Hydatellaceae (Nymphaeales)
inferred← citeshttps://doi.org/10.1186/s12864-021-07394-8openalex-snapshot
Chloroplast genome variation and phylogenetic relationships of Atractylodes species
inferred← citeshttps://doi.org/10.1186/s12864-023-09154-2openalex-snapshot
Chloroplast genome sequence of triploid Toxicodendron vernicifluum and comparative analyses with other lacquer chloroplast genomes
inferred← citeshttps://doi.org/10.13057/biodiv/d170213openalex-snapshot
Short Communication: Genetic diversity and conservation strategy considerations for highly valuable medicinal tree of Taxus sumatrana in Indonesia
inferred← citeshttps://doi.org/10.1371/journal.pone.0002802openalex-snapshot
Multiple Multilocus DNA Barcodes from the Plastid Genome Discriminate Plant Species Equally Well
inferred← citeshttps://doi.org/10.1371/journal.pone.0019254openalex-snapshot
Choosing and Using a Plant DNA Barcode
inferred← citeshttps://doi.org/10.1371/journal.pone.0035872openalex-snapshot
Complete Chloroplast Genome Sequences of Important Oilseed Crop Sesamum indicum L
inferred← citeshttps://doi.org/10.1371/journal.pone.0118019openalex-snapshot
Are Differences in Genomic Data Sets due to True Biological Variants or Errors in Genome Assembly: An Example from Two Chloroplast Genomes
inferred← citeshttps://doi.org/10.1371/journal.pone.0153008openalex-snapshot
The Use of DNA Barcoding on Recently Diverged Species in the Genus Gentiana (Gentianaceae) in China
inferred← citeshttps://doi.org/10.1371/journal.pone.0191343openalex-snapshot
Molecular discrimination of tall fescue morphotypes in association with Festuca relatives
inferred← citeshttps://doi.org/10.1371/journal.pone.0224622openalex-snapshot
Characterization of 20 complete plastomes from the tribe Laureae (Lauraceae) and distribution of small inversions
inferred← citeshttps://doi.org/10.1600/0363644041744365openalex-snapshot
A Phylogeny of the Monocots, as Inferred from rbcL and atpA Sequence Variation, and a Comparison of Methods for Calculating Jackknife and Bootstrap Values
inferred← citeshttps://doi.org/10.1600/036364404774195494openalex-snapshot
Parallel Loss of a Slowly Evolving Intron from Two Closely Related Families in Asparagales
inferred← citeshttps://doi.org/10.1600/0363644053661896openalex-snapshot
The Paraphyly of Hypnodendron and the Phylogeny of Related Non-Hypnanaean Pleurocarpous Mosses Inferred from Chloroplast and Mitochondrial Sequence Data
inferred← citeshttps://doi.org/10.1600/036364405775097806openalex-snapshot
Molecular Phylogenetics of the Leafy Cactus Genus Pereskia (Cactaceae)
inferred← citeshttps://doi.org/10.1600/036364406775971741openalex-snapshot
Phylogeny of Major Lineages in Melastomataceae, Subfamily Olisbeoideae: Utility of Nuclear Glyceraldehyde 3-Phosphate Dehydrogenase (GapC) Gene Sequences
inferred← citeshttps://doi.org/10.1600/036364407782250553openalex-snapshot
Evolution of a Charismatic Neotropical Clade: Molecular Phylogeny of Tabebuia s. l., Crescentieae, and Allied Genera (Bignoniaceae)
inferred← citeshttps://doi.org/10.1600/036364408784571653openalex-snapshot
Phylogeny and Biogeography of Tribe Hibisceae (Malvaceae) on Madagascar
inferred← citeshttps://doi.org/10.1600/036364408785679879openalex-snapshot
Proposal for an Expanded Distichlis (Poaceae, Chloridoideae): Support from Molecular, Morphological, and Anatomical Characters
inferred← citeshttps://doi.org/10.1600/036364409790139691openalex-snapshot
Reassignment of Species of Paraphyletic Junellia s. l. to the New Genus Mulguraea (Verbenaceae) and New Circumscription of Genus Junellia: Molecular and Morphological Congruence
inferred← citeshttps://doi.org/10.1600/036364409790139790openalex-snapshot
Paraphyly in the Bamboo Subtribe Chusqueinae (Poaceae: Bambusoideae) and a Revised Infrageneric Classification for Chusquea
inferred← citeshttps://doi.org/10.1600/036364411x553243openalex-snapshot
Color by Numbers: Nuclear Gene Phylogeny of Jaltomata (Solanaceae), Sister Genus to Solanum, Supports Three Clades Differing in Fruit Color
inferred← citeshttps://doi.org/10.1600/036364413x670386openalex-snapshot
Phylogenetic Position of the Monotypic Genus Verbenoxylum (Verbenaceae) and New Combination Under Recordia
inferred← citeshttps://doi.org/10.1600/036364414x681554openalex-snapshot
Molecular Phylogeny Estimation of the Bamboo Genus Chusquea (Poaceae: Bambusoideae: Bambuseae) and Description of Two New Subgenera
inferred← citeshttps://doi.org/10.1600/036364415x686305openalex-snapshot
Is Sequence Alignment an Art or a Science?
inferred← citeshttps://doi.org/10.1600/036364418x697003openalex-snapshot
The Tetramerium Lineage (Acanthaceae, Justicieae) Revisited: Phylogenetic Relationships Reveal Polyphyly of Many New World Genera Accompanied by Rampant Evolution of Floral Morphology
inferred← citeshttps://doi.org/10.1663/0007-196x(2005)057[0354:ponwas]2.0.co;2openalex-snapshot
Phylogenetics of New World Astragalus: Screening of novel nuclear loci for the reconstruction of phylogenies at low taxonomic levels
inferred← citeshttps://doi.org/10.18174/390196openalex-snapshot
Utilization of complete chloroplast genomes for phylogenetic studies
inferred← citeshttps://doi.org/10.2307/2656749openalex-snapshot
Utility of 17 chloroplast genes for inferring the phylogeny of the basal angiosperms
inferred← citeshttps://doi.org/10.2307/3558367openalex-snapshot
Molecular phylogeny of Coelogyne (Epidendroideae; Orchidaceae) based on plastid RFLPS, matK, and nuclear ribosomal ITS sequences: evidence for polyphyly
inferred← citeshttps://doi.org/10.25959/23210015openalex-snapshot
Range-wide chloroplast DNA phylogeographies of three widespread Australian cool temperate rainforest plants
inferred← citeshttps://doi.org/10.26757/pjsb.2018a12009openalex-snapshot
New species of Sphagnum from the Philippines with remarkable morphological characters
inferred← citeshttps://doi.org/10.3103/s0095452724060112openalex-snapshot
Intragenomic Polymorphism of the ITS1-5.8S-ITS2 Region in Invasive Species of the Genus Reynoutria
inferred← citeshttps://doi.org/10.3109/19401736.2014.945547openalex-snapshot
The complete chloroplast genome sequence of Dendrobium officinale
inferred← citeshttps://doi.org/10.3109/19401736.2015.1053131openalex-snapshot
The complete chloroplast genome of Anoectochilus roxburghii
inferred← citeshttps://doi.org/10.3390/f15030537openalex-snapshot
Interspecific Sharing of Closely Related Chloroplast Genome Haplotypes among Sclerophyllous Oaks in the Hot-Dry Valley of the Jinsha River, Southwestern China
inferred← citeshttps://doi.org/10.3390/genes11070830openalex-snapshot
Identification of High Molecular Variation Loci in Complete Chloroplast Genomes of Mammillaria (Cactaceae, Caryophyllales)
inferred← citeshttps://doi.org/10.3390/genes7120115openalex-snapshot
Phylogenetic Relationships of the Fern Cyrtomium falcatum (Dryopteridaceae) from Dokdo Island Based on Chloroplast Genome Sequencing
inferred← citeshttps://doi.org/10.3390/ijms13078740openalex-snapshot
Sampling Strategy and Potential Utility of Indels for DNA Barcoding of Closely Related Plant Species: A Case Study in Taxus
inferred← citeshttps://doi.org/10.3390/molecules23040851openalex-snapshot
Isolation of Bioactive Compounds from Calicotome villosa Stems
inferred← citeshttps://doi.org/10.3390/plants11050709openalex-snapshot
Plastid Phylogenomic Analysis of Tordylieae Tribe (Apiaceae, Apioideae)
inferred← citeshttps://doi.org/10.3390/plants11243544openalex-snapshot
Structural Diversities and Phylogenetic Signals in Plastomes of the Early-Divergent Angiosperms: A Case Study in Saxifragales
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