Reference health
Andean uplift, drainage basin formation, and the evolution of plants living in fast‐flowing aquatic ecosystems in northern South America
110/110 checkable references clean · checked 2026-07-21
Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.
12 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.
The 110 checked references that resolve
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Miocene tectonism and the separation of cis- and trans-Andean river basins: Evidence from Neotropical fishes
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Andean topographic growth and basement uplift in southern Colombia: Implications for the evolution of the Magdalena, Orinoco, and Amazon river systems
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Tracing the impact of the Andean uplift on Neotropical plant evolution
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<scp>RAD</scp>seq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling
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Differentiation within and between river basins of Podostemum irgangii (Podostemaceae), a rapid-water macrophyte of southern Brazil
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Plastid Genomes of Five Species of Riverweeds (Podostemaceae): Structural Organization and Comparative Analysis in Malpighiales
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Automated Reconstruction of Whole-Genome Phylogenies from Short-Sequence Reads
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Inferring Species Trees Directly from Biallelic Genetic Markers: Bypassing Gene Trees in a Full Coalescent Analysis
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Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP)
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Comparison of taxon‐specific versus general locus sets for targeted sequence capture in plant phylogenomics
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Lebbiea (Podostemaceae-Podostemoideae), a new, nearly extinct genus with foliose tepals, in Sierra Leone
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ploidyNGS: visually exploring ploidy with Next Generation Sequencing data
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Silica bodies in leaves of neotropical Podostemaceae: taxonomic and phylogenetic perspectives
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Development and characterization of polymorphic microsatellite loci in endangered fern Adiantum reniforme var. sinense
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Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryzaand their phylogenetic utility across various taxonomic levels
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Major Structural Elements and Evolution of Northwestern Colombia<xref ref-type="fn" rid="ch22fn1"><sup>1</sup></xref>
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Deep reticulation and incomplete lineage sorting obscure the diploid phylogeny of rain-lilies and allies (Amaryllidaceae tribe Hippeastreae)
resolves10.1111/jeb.13512
Ongoing hybridization obscures phylogenetic relationships in the <i>Drosophila subquinaria</i> species complex
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Uplift history of the Central and Northern Andes: A review
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Amazonia Through Time: Andean Uplift, Climate Change, Landscape Evolution, and Biodiversity
resolves10.1073/pnas.0601928103
Island radiation on a continental scale: Exceptional rates of plant diversification after uplift of the Andes
resolves10.1086/314292
Podostemaceae Depend on Sticky Biofilms with Respect to Attachment to Rocks in Waterfalls
resolves10.3732/apps.1600016
HybPiper: Extracting coding sequence and introns for phylogenetics from high‐throughput sequencing reads using target enrichment
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Habitat specificity enhances genetic differentiation in two species of aquatic Podostemaceae in Japan
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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
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Biological diversification in a complex region: a spatial analysis of faunistic diversity and biogeography of the Andes of Colombia
resolves10.1111/j.1365-2699.2004.01047.x
Phylogenetic relationships between disjunctly occurring groups of <i>Tristicha trifaria</i> (Podostemaceae)
resolves10.1111/j.1095-8339.2012.01258.x
Molecular phylogenetic analysis of Podostemaceae: implications for taxonomy of major groups
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RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
resolves10.1111/nph.13920
The abiotic and biotic drivers of rapid diversification in <scp>A</scp>ndean bellflowers (Campanulaceae)
resolves10.1016/j.earscirev.2010.02.005
The Late Miocene paleogeography of the Amazon Basin and the evolution of the Amazon River system
resolves10.1093/sysbio/syv053
Short Tree, Long Tree, Right Tree, Wrong Tree: New Acquisition Bias Corrections for Inferring SNP Phylogenies
resolves10.1093/gbe/evv026
Phylogenomics of Phrynosomatid Lizards: Conflicting Signals from Sequence Capture versus Restriction Site Associated DNA Sequencing
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The Influence of Gene Flow on Species Tree Estimation: A Simulation Study
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A Likelihood Approach to Estimating Phylogeny from Discrete Morphological Character Data
resolves10.1093/zoolinnean/zlz153
Erratum to: Phylogeny and biogeography of the Brazilian–Guiana Shield endemic Corymbophanes clade of armoured catfishes (Loricariidae)
resolves10.2307/2388468
A Miocene Fossil of the Amazonian Fish Arapaima (Teleostei, Arapaimidae) from the Magdalena River Region of Colombia--Biogeographic and Evolutionary Implications
resolves10.3389/fgene.2013.00192
Páramo is the world's fastest evolving and coolest biodiversity hotspot
resolves10.1111/nph.13264
A metacalibrated time‐tree documents the early rise of flowering plant phylogenetic diversity
resolves10.1098/rspb.2017.0300
A genetic legacy of introgression confounds phylogeny and biogeography in oaks
resolves10.3389/feart.2020.587022
A Middle to Late Miocene Trans-Andean Portal: Geologic Record in the Tatacoa Desert
resolves10.1111/nph.15099
Phylogenomic analyses reveal a deep history of hybridization and polyploidy in the Neotropical genus <i>Lachemilla</i> (Rosaceae)
resolves10.1371/journal.pone.0065047
Cichlid Fishes in the Angolan Headwaters Region: Molecular Evidence of the Ichthyofaunal Contact between the Cuanza and Okavango-Zambezi Systems
resolves10.3389/fgene.2013.00175
Explosive radiation in high Andean Hypericum—rates of diversification among New World lineages
resolves10.1038/s41586-019-1693-2
One thousand plant transcriptomes and the phylogenomics of green plants
resolves10.1093/bioinformatics/bty633
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resolves10.1002/ajb2.1016
Quartet Sampling distinguishes lack of support from conflicting support in the green plant tree of life
resolves10.1111/nph.14629
Recent origin and rapid speciation of Neotropical orchids in the world's richest plant biodiversity hotspot
resolves10.1371/journal.pone.0037135
Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species
resolves10.1016/S0304-3770(96)01121-7
Ovule number, seed number and seed size in Mexican and North American species of Podostemaceae
resolves10.1016/S0304-3770(98)00090-4
Flowering phenology, pollen flow, and seed production in Marathrum rubrum (Podostemaceae)
resolves10.1656/045.022.0317
Root Fragments as Dispersal Propagules in the Aquatic Angiosperm<i>Podostemum ceratophyllum</i>Michx. (Hornleaf Riverweed, Podostemaceae)
resolves10.1111/jbi.12309
Miocene and Pliocene colonization of the Central American Isthmus by the weakly electric fish <i><scp>B</scp>rachyhypopomus occidentalis</i> (Hypopomidae, Gymnotiformes)
resolves10.1086/519795
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses
resolves10.7717/peerj.431
<i>dDocent</i>
: a RADseq, variant-calling pipeline designed for population genomics of non-model organisms
resolves10.1016/j.aquabot.2008.04.011
Seed germination in Marathrum schiedeanum and M. rubrum (Podostemaceae)
resolves10.1002/gj.3133
Using dated molecular phylogenies to help reconstruct geological, climatic, and biological history: Examples from Colombia
resolves10.1111/j.0908-8857.2004.03297.x
Glacial history and colonization of Europe by the blue tit
<i>Parus caeruleus</i>
resolves10.1371/journal.pone.0105564
Molecular Phylogeny and Biogeographic History of the Armored Neotropical Catfish Subfamilies Hypoptopomatinae, Neoplecostominae and Otothyrinae (Siluriformes: Loricariidae)
resolves10.3732/ajb.1500537
Dispersal largely explains the Gondwanan distribution of the ancient tropical clusioid plant clade
resolves10.1086/670668
Combined Morphological and Molecular Phylogeny of the Clusioid Clade (Malpighiales) and the Placement of the Ancient Rosid Macrofossil<i>Paleoclusia</i>
resolves10.21425/F5FBG45046
Geologically recent rearrangements in central Amazonian river network and their importance for the riverine barrier hypothesis
resolves10.1139/b95-142
Developmental patterns of leaves in Podostemaceae compared with more typical flowering plants: saltational evolution and fuzzy morphology
resolves10.1016/S0304-3770(96)01120-5
Structural and developmental diversity in Podostemaceae (river-weeds)
resolves10.1086/314097
Developmental Morphology of New World Podostemaceae:<i>Marathrum</i>and<i>Vanroyenella</i>
resolves10.1371/journal.pone.0148228
Consequences of Secondary Calibrations on Divergence Time Estimates
resolves10.1111/1755-0998.12487
Phylogenetic marker development for target enrichment from transcriptome and genome skim data: the pipeline and its application in southern African <i>Oxalis</i> (Oxalidaceae)
resolves10.1093/bioinformatics/btu033
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
resolves10.1093/sysbio/syy006
Bayesian Divergence-Time Estimation with Genome-Wide Single-Nucleotide Polymorphism Data of Sea Catfishes (Ariidae) Supports Miocene Closure of the Panamanian Isthmus
resolves10.1093/sysbio/syv039
Exploring Tree-Like and Non-Tree-Like Patterns Using Genome Sequences: An Example Using the Inbreeding Plant Species<i>Arabidopsis thaliana</i>(L.) Heynh
resolves10.1111/nph.15544
The rise of the Andes promoted rapid diversification in Neotropical <i>Phlegmariurus</i> (Lycopodiaceae)
resolves10.1186/1471-2105-9-322
PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships
resolves10.1600/036364411X553180
Systematics and Phylogeny of Neotropical Riverweeds (Podostemaceae: Podostemoideae)
resolves10.1029/2010TC002835
Vertical tectonics at a continental crust‐oceanic plateau plate boundary zone: Fission track thermochronology of the Sierra Nevada de Santa Marta, Colombia
resolves10.3389/fpls.2019.00937
A Target Capture-Based Method to Estimate Ploidy From Herbarium Specimens
resolves10.1111/mec.12023
Genome‐wide <scp>RAD</scp> sequence data provide unprecedented resolution of species boundaries and relationships in the <scp>L</scp>ake <scp>V</scp>ictoria cichlid adaptive radiation
resolves10.1186/s12859-018-2128-z
nQuire: a statistical framework for ploidy estimation using next generation sequencing
resolves10.1371/journal.pgen.1002660
The Probability of a Gene Tree Topology within a Phylogenetic Network with Applications to Hybridization Detection
resolves10.1111/j.1469-8137.2008.02739.x
The pentatricopeptide repeat (PPR) gene family, a tremendous resource for plant phylogenetic studies
resolves10.1016/j.ympev.2009.08.029
An empirical demonstration of using pentatricopeptide repeat (PPR) genes as plant phylogenetic tools: Phylogeny of Verbenaceae and the Verbena complex
resolves10.1186/s12859-018-2129-y
ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
resolves10.1016/j.ympev.2019.05.011
Using nuclear loci and allelic variation to disentangle the phylogeny of Phyllostachys (Poaceae, Bambusoideae)
The 12 references without a DOI — listed, not checked
no DOI — not checkedThe geography and ecology of diversification in Neotropical freshwaters
no DOI — not checkedAquatic plant book
no DOI — not checkedMisconceptions on missing data in RAD‐seq phylogenetics with a deep‐scale example from flowering plants
no DOI — not checkedMountains, climate and biodiversity
no DOI — not checkedFeatures of seeds of Podostemaceae and their survival strategy in freshwater ecosystems
no DOI — not checkedAmazonia, landscape and species evolution
no DOI — not checkedPodostemaceae. Flora Mesoamericana 3: 1–7. First published on the Flora Mesoamericana website 7 July 2009
no DOI — not checkedThe geology of Colombia, vol. 3 Paleogene‐Neogene
no DOI — not checkedThe Podostemaceae of the New World. Part 1
no DOI — not checkedPAUP*. Phylogenetic analysis using parsimony (* and other methods). V.4
no DOI — not checkedStudies in the morphology and ecology of the Podostemaceae of Ceylon and India
no DOI — not checkedOn the lack of adaptation in the Tristichaceae and Podostemaceae
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