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Taxonomic Uncertainty and the Anomaly Zone: Phylogenomics Disentangle a Rapid Radiation to Resolve Contentious Species ( Gila robusta complex) in the Colorado River
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Outgoing claims: the papers this work cites, builds on, or argues with.
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Incomplete lineage sorting impacts the inference of macroevolutionary regimes from molecular phylogenies when concatenation is employed: An analysis based on Cetacea
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Gene flow and species delimitation in fishes of Western North America: Flannelmouth ( Catostomus latipinnis ) and Bluehead sucker ( C. Pantosteus discobolus )
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Inferring species phylogenies from multiple genes: Concatenated sequence tree versus consensus gene tree
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Why sampling scheme matters: the effect of sampling scheme on landscape genetic results
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FRAGMATIC: in silico locus prediction and its utility in optimizing ddRADseq projects
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Comp-D: a program for comprehensive computation of D-statistics and population summaries of reticulated evolution
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A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals
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Constraints to implementing the food-energy-water nexus concept: Governance in the Lower Colorado River Basin
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Integration of the Gila River drainage system through the Basin and Range province of southern Arizona and southwestern New Mexico (USA)
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Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites
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Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: A model
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Gene tree discordance, phylogenetic inference and the multispecies coalescent
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Darwinian shortfalls in biodiversity conservation
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Quartet MaxCut: A fast algorithm for amalgamating quartet trees
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Phylogenetic relationships of North American western chubs of the genus Gila (Cyprinidae, Teleostei), with emphasis on southern species
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Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics
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Phylogenetic relationships and classification of the Holarctic family Leuciscidae (Cypriniformes: Cyprinoidei)
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Long‐term effective population size of three endangered Colorado River fishes
inferredcites →https://doi.org/10.1038/362444a0openalex-snapshot
Evolutionary significance of introgressive hybridization in cyprinid fishes
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Hybridization drives genetic erosion in sympatric desert fishes of western North America
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Contentious relationships in phylogenomic studies can be driven by a handful of genes
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Error, signal, and the placement of Ctenophora sister to all other animals
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Genomic data do not support comb jellies as the sister group to all other animals
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Origin of Gila seminuda (Teleostei: Cyprinidae) through introgressive hybridization: implications for evolution and conservation.
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Bootstrap confidence levels for phylogenetic trees
inferredcites →https://doi.org/10.1080/00028487.2016.1227373openalex-snapshot
Molecular Genetics Informs Spatial Segregation of Two Desert Stream Gila Species
inferredcites →https://doi.org/10.1080/03632415.2017.1356108openalex-snapshot
Taxonomy of Gila in the Lower Colorado River Basin of Arizona and New Mexico
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Taxonomic Sampling, Phylogenetic Accuracy, and Investigator Bias
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SplitsTree: analyzing and visualizing evolutionary data.
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BUCKy: Gene tree/species tree reconciliation with Bayesian concordance analysis
inferredcites →https://doi.org/10.1093/bioinformatics/btu121openalex-snapshot
PyRAD: assembly of de novo RADseq loci for phylogenetic analyses
inferredcites →https://doi.org/10.1093/bioinformatics/btu530openalex-snapshot
Quartet Inference from SNP Data Under the Coalescent Model
inferredcites →https://doi.org/10.1093/molbev/msaa106openalex-snapshot
New Methods to Calculate Concordance Factors for Phylogenomic Datasets
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Neighbor-Net: An Agglomerative Method for the Construction of Phylogenetic Networks
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Statistics and Truth in Phylogenomics
inferredcites →https://doi.org/10.1093/molbev/mss086openalex-snapshot
Inferring Species Trees Directly from Biallelic Genetic Markers: Bypassing Gene Trees in a Full Coalescent Analysis
inferredcites →https://doi.org/10.1093/molbev/msw197openalex-snapshot
Gene Tree Discordance Can Generate Patterns of Diminishing Convergence over Time
inferredcites →https://doi.org/10.1093/molbev/msx235openalex-snapshot
PhyloNetworks: A Package for Phylogenetic Networks
inferredcites →https://doi.org/10.1093/sysbio/syp034openalex-snapshot
Phylogenetic Analysis in the Anomaly Zone
inferredcites →https://doi.org/10.1093/sysbio/syp045openalex-snapshot
Maximum Likelihood Estimates of Species Trees: How Accuracy of Phylogenetic Inference Depends upon the Divergence History and Sampling Design
inferredcites →https://doi.org/10.1093/sysbio/sys029openalex-snapshot
MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space
inferredcites →https://doi.org/10.1093/sysbio/syt032openalex-snapshot
Inferring Phylogeny and Introgression using RADseq Data: An Example from Flowering Plants (Pedicularis: Orobanchaceae)
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The Influence of Gene Flow on Species Tree Estimation: A Simulation Study
inferredcites →https://doi.org/10.1093/sysbio/syu018openalex-snapshot
Species Delimitation using Genome-Wide SNP Data
inferredcites →https://doi.org/10.1093/sysbio/syu046openalex-snapshot
Unforeseen Consequences of Excluding Missing Data from Next-Generation Sequences: Simulation Study of RAD Sequences
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Detection and Polarization of Introgression in a Five-Taxon Phylogeny
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The Challenges of Resolving a Rapid, Recent Radiation: Empirical and Simulated Phylogenomics of Philippine Shrews
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Exploring Tree-Like and Non-Tree-Like Patterns Using Genome Sequences: An Example Using the Inbreeding Plant SpeciesArabidopsis thaliana(L.) Heynh
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PoMo: An Allele Frequency-Based Approach for Species Tree Estimation
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Detecting the Anomaly Zone in Species Trees and Evidence for a Misleading Signal in Higher-Level Skink Phylogeny (Squamata: Scincidae).
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Rarity and Incomplete Sampling in DNA-Based Species Delimitation
inferredcites →https://doi.org/10.1093/sysbio/syw019openalex-snapshot
Does Gene Tree Discordance Explain the Mismatch between Macroevolutionary Models and Empirical Patterns of Tree Shape and Branching Times?
inferredcites →https://doi.org/10.1093/sysbio/syw092openalex-snapshot
Misconceptions on Missing Data in RAD-seq Phylogenetics with a Deep-scale Example from Flowering Plants
inferredcites →https://doi.org/10.1093/sysbio/syx041openalex-snapshot
Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling
inferredcites →https://doi.org/10.1093/sysbio/syy010openalex-snapshot
Evidence that Myotis lucifugus “Subspecies” are Five Nonsister Species, Despite Gene Flow
inferredcites →https://doi.org/10.1093/sysbio/syy011openalex-snapshot
Comparison of Methods for Molecular Species Delimitation Across a Range of Speciation Scenarios
inferredcites →https://doi.org/10.1093/sysbio/syy013openalex-snapshot
Variation Across Mitochondrial Gene Trees Provides Evidence for Systematic Error: How Much Gene Tree Variation Is Biological?
inferredcites →https://doi.org/10.1093/sysbio/syy019openalex-snapshot
The Biogeography of Deep Time Phylogenetic Reticulation
inferredcites →https://doi.org/10.1093/sysbio/syy020openalex-snapshot
The Effect of Gene Flow on Coalescent-based Species-Tree Inference
inferredcites →https://doi.org/10.1093/sysbio/syy023openalex-snapshot
HyDe: A Python Package for Genome-Scale Hybridization Detection
inferredcites →https://doi.org/10.1093/sysbio/syy033openalex-snapshot
Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations
inferredcites →https://doi.org/10.1093/sysbio/syy043openalex-snapshot
Analyzing Contentious Relationships and Outlier Genes in Phylogenomics
inferredcites →https://doi.org/10.1093/sysbio/syy063openalex-snapshot
Full Bayesian Comparative Phylogeography from Genomic Data
inferredcites →https://doi.org/10.1093/sysbio/syz027openalex-snapshot
Dense Geographic and Genomic Sampling Reveals Paraphyly and a Cryptic Lineage in a Classic Sibling Species Complex
inferredcites →https://doi.org/10.1098/rspb.2017.0300openalex-snapshot
A genetic legacy of introgression confounds phylogeny and biogeography in oaks
inferredcites →https://doi.org/10.1098/rstb.2015.0181openalex-snapshot
An option space for early neural evolution
inferredcites →https://doi.org/10.1101/034348openalex-snapshot
An Invariants-based Method for Efficient Identification of Hybrid Species From Large-scale Genomic Data
inferredcites →https://doi.org/10.1111/evo.12644openalex-snapshot
Phylogenetic uncertainty revisited: Implications for ecological analyses
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Irrational exuberance for resolved species trees
inferredcites →https://doi.org/10.1111/j.0014-3820.2001.tb01319.xopenalex-snapshot
THE ROLE OF INTROGRESSIVE HYBRIDIZATION IN THE EVOLUTION OF THE GILA ROBUSTA COMPLEX (TELEOSTEI: CYPRINIDAE)
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Fallacies and false premises—a critical assessment of the arguments for the recognition of paraphyletic taxa in botany
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Detecting the number of clusters of individuals using the software structure : a simulation study
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Conservation Genetics in the Management of Desert Fishes
inferredcites →https://doi.org/10.1111/j.1558-5646.1985.tb00420.xopenalex-snapshot
CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
inferredcites →https://doi.org/10.1111/j.1558-5646.1999.tb05349.xopenalex-snapshot
DID VICARIANCE MOLD PHENOTYPES OF WESTERN NORTH AMERICAN FISHES? EVIDENCE FROM GILA RIVER CYPRINIDS
inferredcites →https://doi.org/10.1111/j.1558-5646.2008.00549.xopenalex-snapshot
IS A NEW AND GENERAL THEORY OF MOLECULAR SYSTEMATICS EMERGING?
inferredcites →https://doi.org/10.1111/jfb.13348openalex-snapshot
Can members of the south‐western Gila robusta species complex be distinguished by morphological features?
inferredcites →https://doi.org/10.1111/mec.13048openalex-snapshot
Species are hypotheses: avoid connectivity assessments based on pillars of sand
inferredcites →https://doi.org/10.1111/mec.14780openalex-snapshot
Dissecting the basis of novel trait evolution in a radiation with widespread phylogenetic discordance
inferredcites →https://doi.org/10.1126/science.1188021openalex-snapshot
A Draft Sequence of the Neandertal Genome
inferredcites →https://doi.org/10.1130/0016-7606(1972)83[1933:ehotcr]2.0.co;2openalex-snapshot
Early History of the Colorado River in the Basin and Range Province
inferredcites →https://doi.org/10.1130/0016-7606(1978)89<921:csagho>2.0.co;2openalex-snapshot
Cenozoic stratigraphy and geologic history of southwestern Arizona
inferredcites →https://doi.org/10.1130/0016-7606(1997)109<0767:siefal>2.3.co;2openalex-snapshot
Sr isotope evidence for a lacustrine origin for the upper Miocene to Pliocene Bouse Formation, lower Colorado River trough, and implications for timing of Colorado Plateau uplift
inferredcites →https://doi.org/10.1130/0091-7613(1993)021<0691:coapci>2.3.co;2openalex-snapshot
Comparison of a paleosol-carbonate isotope record to other records of Pliocene-early Pleistocene climate in the western United States
inferredcites →https://doi.org/10.1130/2005.fld006(17)openalex-snapshot
Birth of the lower Colorado River—Stratigraphic and geomorphic evidence for its inception near the conjunction of Nevada, Arizona, and California
inferredcites →https://doi.org/10.1130/2008.2439(12)openalex-snapshot
Middle to late Cenozoic geology, hydrography, and fish evolution in the American Southwest
inferredcites →https://doi.org/10.1130/2008.2439(15)openalex-snapshot
Stratigraphic evidence for the role of lake spillover in the inception of the lower Colorado River in southern Nevada and western Arizona
inferredcites →https://doi.org/10.1130/g23139a.1openalex-snapshot
Chronology of Miocene–Pliocene deposits at Split Mountain Gorge, Southern California: A record of regional tectonics and Colorado River evolution
inferredcites →https://doi.org/10.1130/ges00839.1openalex-snapshot
Rejection of the lake spillover model for initial incision of the Grand Canyon, and discussion of alternatives
inferredcites →https://doi.org/10.1146/annurev-ecolsys-110316-022645openalex-snapshot
The Utility of Single Nucleotide Polymorphism (SNP) Data in Phylogenetics
inferredcites →https://doi.org/10.1146/annurev-ecolsys-110512-135822openalex-snapshot
High-Throughput Genomic Data in Systematics and Phylogenetics
inferredcites →https://doi.org/10.1146/annurev.ecolsys.28.1.593openalex-snapshot
The Role of Hybridization and Introgression in the Diversification of Animals
inferredcites →https://doi.org/10.1146/annurev.ecolsys.35.112202.130205openalex-snapshot
Phylogenomics
inferredcites →https://doi.org/10.1146/annurev.ecolsys.36.102003.152633openalex-snapshot
Model Selection in Phylogenetics
inferredcites →https://doi.org/10.1146/annurev.genom.9.081307.164407openalex-snapshot
Phylogenetic Inference Using Whole Genomes
inferredcites →https://doi.org/10.11646/zootaxa.3586.1.27openalex-snapshot
Molecular systematics of western North American cyprinids (Cypriniformes: Cyprinidae)
inferredcites →https://doi.org/10.1186/s12862-015-0575-yopenalex-snapshot
New data from the Middle Jurassic of China shed light on the phylogeny and origin of the proboscis in the Mesopsychidae (Insecta: Mecoptera)
inferredcites →https://doi.org/10.1186/s12862-018-1197-yopenalex-snapshot
Unraveling historical introgression and resolving phylogenetic discord within Catostomus (Osteichthys: Catostomidae)
inferredcites →https://doi.org/10.1371/journal.pbio.1000602openalex-snapshot
Resolving Difficult Phylogenetic Questions: Why More Sequences Are Not Enough
inferredcites →https://doi.org/10.1371/journal.pgen.0020068openalex-snapshot
Discordance of Species Trees with Their Most Likely Gene Trees
inferredcites →https://doi.org/10.1371/journal.pgen.1005944openalex-snapshot
Glucocerebrosidase Deficiency in Drosophila Results in α-Synuclein-Independent Protein Aggregation and Neurodegeneration
inferredcites →https://doi.org/10.1371/journal.pone.0037135openalex-snapshot
Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species
inferredcites →https://doi.org/10.1371/journal.pone.0139832openalex-snapshot
Population Structure in the Roundtail Chub (Gila robusta Complex) of the Gila River Basin as Determined by Microsatellites: Evolutionary and Conservation Implications
inferredcites →https://doi.org/10.1554/04-385openalex-snapshot
GENE TREE DISTRIBUTIONS UNDER THE COALESCENT PROCESS
inferredcites →https://doi.org/10.1641/0006-3568(2003)053[0219:acpfnf]2.0.co;2openalex-snapshot
A Conservation Plan for Native Fishes of the Lower Colorado River
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Taxonomy of Chubs (Teleostei, Cyprinidae, GenusGila) in the American Southwest with Comments on Conservation
inferredcites →https://doi.org/10.1643/0045-8511(2001)001[0389:uogmtd]2.0.co;2openalex-snapshot
Use of Geometric Morphometrics to DifferentiateGila(Cyprinidae) within the Upper Colorado River Basin
inferredcites →https://doi.org/10.1643/cg-02-264r1openalex-snapshot
Small Fish in a Large Landscape: Diversification of Rhinichthys osculus (Cyprinidae) in Western North America
inferredcites →https://doi.org/10.1643/cg-17-614openalex-snapshot
Classification Success of Species within theGila robustaComplex Using Morphometric and Meristic Characters—A Reexamination
inferredcites →https://doi.org/10.2307/1224293openalex-snapshot
Hierarchical models, reticulate evolution and the inevitability of paraphyletic supraspecific taxa
inferredcites →https://doi.org/10.2307/1441236openalex-snapshot
Middle Pliocene Cyprinid Fishes from the Bidahochi Formation, Arizona
inferredcites →https://doi.org/10.2307/3545012openalex-snapshot
Does Morphology Predict Ecology? Hypothesis Testing within a Freshwater Stream Fish Assemblage
inferredcites →https://doi.org/10.3724/sp.j.1002.2008.08016openalex-snapshot
Taxon sampling and the accuracy of phylogenetic analyses
inferredcites →https://doi.org/10.5962/bhl.title.68064openalex-snapshot
On the origin of species by means of natural selection, or, The preservation of favoured races in the struggle for life /
inferredcites →https://doi.org/10.7302/9860openalex-snapshot
Osteology And Phylogeny Of The American Cyprinid Fishes Allied To The Genus Gila.
inferredcites →https://doi.org/10.7717/peerj.2584openalex-snapshot
VSEARCH: a versatile open source tool for metagenomics
inferredcites →https://doi.org/10.7717/peerj.5605openalex-snapshot
Geopolitical species revisited: genomic and morphological data indicate that the roundtail chub Gila robusta species complex (Teleostei, Cyprinidae) is a single species
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/s11160-020-09618-8openalex-snapshot
Linking genomics and fish conservation decision making: a review
inferred← citeshttps://doi.org/10.1038/s41437-019-0259-2openalex-snapshot
Hybridization drives genetic erosion in sympatric desert fishes of western North America
inferred← citeshttps://doi.org/10.1098/rsos.210727openalex-snapshot
Parallel introgression, not recurrent emergence, explains apparent elevational ecotypes of polyploid Himalayan snowtrout
inferred← citeshttps://doi.org/10.1111/eva.13042openalex-snapshot
Reticulate evolution as a management challenge: Patterns of admixture with phylogenetic distance in endemic fishes of western North America
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