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Phylogenomics of Phrynosomatid Lizards: Conflicting Signals from Sequence Capture versus Restriction Site Associated DNA Sequencing

https://doi.org/10.1093/gbe/evv026
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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/ece3.512openalex-snapshot
Is RAD ‐seq suitable for phylogenetic inference? An in silico assessment and optimization
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Phylogenetic Relationships among Phrynosomatid Lizards as Inferred from Mitochondrial Ribosomal DNA Sequences: Substitutional Bias and Information Content of Transitions Relative to Transversions
inferredcites →https://doi.org/10.1007/978-3-642-12683-3_28openalex-snapshot
IDBA – A Practical Iterative de Bruijn Graph De Novo Assembler
inferredcites →https://doi.org/10.1016/j.tree.2009.01.009openalex-snapshot
Gene tree discordance, phylogenetic inference and the multispecies coalescent
inferredcites →https://doi.org/10.1016/j.ympev.2005.12.016openalex-snapshot
Phylogenetic relationships of horned lizards (Phrynosoma) based on nuclear and mitochondrial data: Evidence for a misleading mitochondrial gene tree
inferredcites →https://doi.org/10.1016/j.ympev.2009.09.008openalex-snapshot
Phylogenetic relationships of phrynosomatid lizards based on nuclear and mitochondrial data, and a revised phylogeny for Sceloporus
inferredcites →https://doi.org/10.1016/j.ympev.2011.06.021openalex-snapshot
Quartet MaxCut: A fast algorithm for amalgamating quartet trees
inferredcites →https://doi.org/10.1016/j.ympev.2014.06.013openalex-snapshot
A hybrid phylogenetic–phylogenomic approach for species tree estimation in African Agama lizards with applications to biogeography, character evolution, and diversification
inferredcites →https://doi.org/10.1016/j.ympev.2014.08.023openalex-snapshot
Effectiveness of phylogenomic data and coalescent species-tree methods for resolving difficult nodes in the phylogeny of advanced snakes (Serpentes: Caenophidia)
inferredcites →https://doi.org/10.1038/380240a0openalex-snapshot
The rock–paper–scissors game and the evolution of alternative male strategies
inferredcites →https://doi.org/10.1038/nature08250openalex-snapshot
Targeted capture and massively parallel sequencing of 12 human exomes
inferredcites →https://doi.org/10.1038/nature10390openalex-snapshot
The genome of the green anole lizard and a comparative analysis with birds and mammals
inferredcites →https://doi.org/10.1038/nbt.1523openalex-snapshot
Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing
inferredcites →https://doi.org/10.1038/nmeth.1419openalex-snapshot
Target-enrichment strategies for next-generation sequencing
inferredcites →https://doi.org/10.1038/nrg3012openalex-snapshot
Genome-wide genetic marker discovery and genotyping using next-generation sequencing
inferredcites →https://doi.org/10.1073/pnas.1006538107openalex-snapshot
Resolving postglacial phylogeography using high-throughput sequencing
inferredcites →https://doi.org/10.1080/10635150601146041openalex-snapshot
Inconsistency of Phylogenetic Estimates from Concatenated Data under Coalescence
inferredcites →https://doi.org/10.1080/10635159950127411openalex-snapshot
Phylogenetic Relationships Among the Phrynosomatid Sand Lizards Inferred from Mitochondrial DNA Sequences Generated by Heterogeneous Evolutionary Processes
inferredcites →https://doi.org/10.1089/cmb.2009.0179openalex-snapshot
How Many Bootstrap Replicates Are Necessary?
inferredcites →https://doi.org/10.1093/bfgp/elq031openalex-snapshot
RADSeq: next-generation population genetics
inferredcites →https://doi.org/10.1093/bioinformatics/btq228openalex-snapshot
DendroPy: a Python library for phylogenetic computing
inferredcites →https://doi.org/10.1093/bioinformatics/btq461openalex-snapshot
Search and clustering orders of magnitude faster than BLAST
inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
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/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/bioinformatics/btu530openalex-snapshot
Quartet Inference from SNP Data Under the Coalescent Model
inferredcites →https://doi.org/10.1093/genetics/164.4.1645openalex-snapshot
Bayes Estimation of Species Divergence Times and Ancestral Population Sizes Using DNA Sequences From Multiple Loci
inferredcites →https://doi.org/10.1093/molbev/mss075openalex-snapshot
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
inferredcites →https://doi.org/10.1093/molbev/mss084openalex-snapshot
Improving the Accuracy of Demographic and Molecular Clock Model Comparison While Accommodating Phylogenetic Uncertainty
inferredcites →https://doi.org/10.1093/molbev/mss243openalex-snapshot
Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics
inferredcites →https://doi.org/10.1093/molbev/mst010openalex-snapshot
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
inferredcites →https://doi.org/10.1093/molbev/msu063openalex-snapshot
Empirical Assessment of RAD Sequencing for Interspecific Phylogeny
inferredcites →https://doi.org/10.1093/molbev/msu279openalex-snapshot
Unguided Species Delimitation Using DNA Sequence Data from Multiple Loci
inferredcites →https://doi.org/10.1093/nar/gkh340openalex-snapshot
MUSCLE: multiple sequence alignment with high accuracy and high throughput
inferredcites →https://doi.org/10.1093/sysbio/syp034openalex-snapshot
Phylogenetic Analysis in the Anomaly Zone
inferredcites →https://doi.org/10.1093/sysbio/syq073openalex-snapshot
The Accuracy of Species Tree Estimation under Simulation: A Comparison of Methods
inferredcites →https://doi.org/10.1093/sysbio/sys004openalex-snapshot
Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales
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/sys049openalex-snapshot
Anchored Hybrid Enrichment for Massively High-Throughput Phylogenomics
inferredcites →https://doi.org/10.1093/sysbio/syt032openalex-snapshot
Inferring Phylogeny and Introgression using RADseq Data: An Example from Flowering Plants (Pedicularis: Orobanchaceae)
inferredcites →https://doi.org/10.1093/sysbio/syt061openalex-snapshot
Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales
inferredcites →https://doi.org/10.1093/sysbio/syt070openalex-snapshot
Introgression and Phenotypic Assimilation in Zimmerius Flycatchers (Tyrannidae): Population Genetic and Phylogenetic Inferences from Genome-Wide SNPs
inferredcites →https://doi.org/10.1093/sysbio/syu046openalex-snapshot
Unforeseen Consequences of Excluding Missing Data from Next-Generation Sequences: Simulation Study of RAD Sequences
inferredcites →https://doi.org/10.1093/sysbio/syw036openalex-snapshot
Sequence Capture versus Restriction Site Associated DNA Sequencing for Shallow Systematics
inferredcites →https://doi.org/10.1098/rsbl.2012.0331openalex-snapshot
More than 1000 ultraconserved elements provide evidence that turtles are the sister group of archosaurs
inferredcites →https://doi.org/10.1098/rsbl.2012.0703openalex-snapshot
Resolving the phylogeny of lizards and snakes (Squamata) with extensive sampling of genes and species
inferredcites →https://doi.org/10.1101/gr.125864.111openalex-snapshot
Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysis
inferredcites →https://doi.org/10.1101/gr.5681207openalex-snapshot
Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers
inferredcites →https://doi.org/10.1111/1755-0998.12340openalex-snapshot
Genomic Resources Notes Accepted 1 August 2014–30 September 2014
inferredcites →https://doi.org/10.1111/evo.12053openalex-snapshot
DIVERSITY AND NICHE EVOLUTION ALONG ARIDITY GRADIENTS IN NORTH AMERICAN LIZARDS (PHRYNOSOMATIDAE)
inferredcites →https://doi.org/10.1111/evo.12130openalex-snapshot
EVOLUTION OF VIVIPARITY: A PHYLOGENETIC TEST OF THE COLD-CLIMATE HYPOTHESIS IN PHRYNOSOMATID LIZARDS
inferredcites →https://doi.org/10.1111/j.1095-8312.1992.tb00648.xopenalex-snapshot
Phylogenetic relationships and rates of allozyme evolution among the lineages of sceloporine sand lizards
inferredcites →https://doi.org/10.1111/mec.12023openalex-snapshot
Genome‐wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the L ake V ictoria cichlid adaptive radiation
inferredcites →https://doi.org/10.1111/mec.12276openalex-snapshot
RAD seq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling
inferredcites →https://doi.org/10.1111/mec.12354openalex-snapshot
Stacks: an analysis tool set for population genomics
inferredcites →https://doi.org/10.1111/mec.12964openalex-snapshot
Trade‐offs and utility of alternative RADseq methods: Reply to Puritz et al .
inferredcites →https://doi.org/10.1111/mec.12965openalex-snapshot
Demystifying the RAD fad
inferredcites →https://doi.org/10.1155/2014/675158openalex-snapshot
Defining Loci in Restriction-Based Reduced Representation Genomic Data from Nonmodel Species: Sources of Bias and Diagnostics for Optimal Clustering
inferredcites →https://doi.org/10.1186/1471-2148-10-302openalex-snapshot
A maximum pseudo-likelihood approach for estimating species trees under the coalescent model
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.pone.0003376openalex-snapshot
Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers
inferredcites →https://doi.org/10.1371/journal.pone.0033394openalex-snapshot
Inferring Phylogenies from RAD Sequence Data
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.0054848openalex-snapshot
A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing
inferredcites →https://doi.org/10.2144/000114039openalex-snapshot
Capturing Protein-Coding Genes Across Highly Divergent Species
inferredcites →https://doi.org/10.2307/1466980openalex-snapshot
Evolution of the Lizard Family Phrynosomatidae as Inferred from Diverse Types of Data
inferredcites →https://doi.org/10.48550/arxiv.1312.6439openalex-snapshot
Sequence Capture Versus Restriction Site Associated DNA Sequencing for Phylogeography
inferredcites →https://doi.org/10.5860/choice.49-6294openalex-snapshot
The Reptile Database
inferredcites →https://doi.org/10.6084/m9.figshare.658946openalex-snapshot
MacManes Salt Extraction Protocol

What points at this work

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

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Phylogenomics and species delimitation in the knob-scaled lizards of the genus Xenosaurus (Squamata: Xenosauridae) using ddRADseq data reveal a substantial underestimation of diversity
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Lineage diversification of fringe-toed lizards (Phrynosomatidae: Uma notata complex) in the Colorado Desert: Delimiting species in the presence of gene flow
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Phylogeny and species delimitation of near Eastern Neurergus newts (Salamandridae) based on genome-wide RADseq data analysis
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3RAD-based systematics of the transitional Nearctic-Neotropical lubber grasshopper genus Taeniopoda (Orthoptera: Romaleidae)
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Utility of targeted sequence capture for phylogenomics in rapid, recent angiosperm radiations: Neotropical Burmeistera bellflowers as a case study
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Genome-wide SNPs clarify lineage diversity confused by coloration in coralsnakes of the Micrurus diastema species complex (Serpentes: Elapidae)
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Phylogenomics and molecular species delimitation reveals great cryptic diversity of leaf-toed geckos (Phyllodactylidae: Phyllodactylus), ancient origins, and diversification in Mexico
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The complete mitochondrial genome of the Critically Endangered Saba Green Iguana, Iguana iguana (Squamata: Iguanidae)
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Evolutionary Rate Variation among Lineages in Gene Trees has a Negative Impact on Species-Tree Inference
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Excluding Loci With Substitution Saturation Improves Inferences From Phylogenomic Data
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Gene Flow and Isolation in the Arid Nearctic Revealed by Genomic Analyses of Desert Spiny Lizards
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Short Tree, Long Tree, Right Tree, Wrong Tree: New Acquisition Bias Corrections for Inferring SNP Phylogenies
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How Should Genes and Taxa be Sampled for Phylogenomic Analyses with Missing Data? An Empirical Study in Iguanian Lizards
inferred← citeshttps://doi.org/10.1093/sysbio/syw005openalex-snapshot
Comparison of Target-Capture and Restriction-Site Associated DNA Sequencing for Phylogenomics: A Test in Cardinalid Tanagers (Aves, Genus:Piranga)
inferred← citeshttps://doi.org/10.1093/sysbio/syw036openalex-snapshot
Sequence Capture versus Restriction Site Associated DNA Sequencing for Shallow Systematics
inferred← citeshttps://doi.org/10.1093/sysbio/syw092openalex-snapshot
Misconceptions on Missing Data in RAD-seq Phylogenetics with a Deep-scale Example from Flowering Plants
inferred← citeshttps://doi.org/10.1093/sysbio/syx062openalex-snapshot
Resolving Recent Plant Radiations: Power and Robustness of Genotyping-by-Sequencing
inferred← citeshttps://doi.org/10.1093/sysbio/syx063openalex-snapshot
Why Concatenation Fails Near the Anomaly Zone
inferred← citeshttps://doi.org/10.1093/sysbio/syx077openalex-snapshot
To Include or Not to Include: The Impact of Gene Filtering on Species Tree Estimation Methods
inferred← citeshttps://doi.org/10.1093/sysbio/syx089openalex-snapshot
An In Silico Comparison of Protocols for Dated Phylogenomics
inferred← citeshttps://doi.org/10.1093/sysbio/syy029openalex-snapshot
Information Dropout Patterns in Restriction Site Associated DNA Phylogenomics and a Comparison with Multilocus Sanger Data in a Species-Rich Moth Genus
inferred← citeshttps://doi.org/10.1093/sysbio/syy064openalex-snapshot
Impacts of Inference Method and Data set Filtering on Phylogenomic Resolution in a Rapid Radiation of Ground Squirrels (Xerinae: Marmotini)
inferred← citeshttps://doi.org/10.1093/sysbio/syz044openalex-snapshot
Phylogenomics Uncovers Confidence and Conflict in the Rapid Radiation of Australo-Papuan Rodents
inferred← citeshttps://doi.org/10.1093/sysbio/syz074openalex-snapshot
Hierarchical Hybrid Enrichment: Multitiered Genomic Data Collection Across Evolutionary Scales, With Application to Chorus Frogs (Pseudacris)
inferred← citeshttps://doi.org/10.1098/rsbl.2015.0983openalex-snapshot
Urbanization shapes the demographic history of a native rodent (the white-footed mouse, Peromyscus leucopus ) in New York City
inferred← citeshttps://doi.org/10.1101/032565openalex-snapshot
An in silico comparison of reduced-representation and sequence-capture protocols for phylogenomics
inferred← citeshttps://doi.org/10.1101/2020.01.28.923805openalex-snapshot
Phylogenetic signal is associated with the degree of variation in root-to-tip distances
inferred← citeshttps://doi.org/10.1101/2020.10.26.355248openalex-snapshot
A New Paralog Removal Pipeline Resolves Conflict between RAD-seq and Enrichment
inferred← citeshttps://doi.org/10.1101/2020.11.13.382200openalex-snapshot
Andean uplift, drainage basin formation, and the evolution of riverweeds (Marathrum, Podostemaceae ) in northern South America
inferred← citeshttps://doi.org/10.1101/2020.11.14.383240openalex-snapshot
Inherent population structure determines the importance of filtering parameters for reduced representation sequencing analyses
inferred← citeshttps://doi.org/10.1101/2021.09.22.461455openalex-snapshot
The Influence of Model Violation on Phylogenetic Inference: A Simulation Study
inferred← citeshttps://doi.org/10.1101/2022.02.05.479083openalex-snapshot
Delimiting Continuity: Comparison of Target Enrichment and ddRAD for Delineating Admixing Parapatric Melitaea Butterflies
inferred← citeshttps://doi.org/10.1101/2023.04.19.537466openalex-snapshot
Exploring the impact of read clustering thresholds on RADseq-based systematics: an empirical example from European amphibians
inferred← citeshttps://doi.org/10.1101/241570openalex-snapshot
Molecular phylogeny of Odontosyllis (Annelida, Syllidae): A recent and rapid radiation of marine bioluminescent worms
inferred← citeshttps://doi.org/10.1101/765610openalex-snapshot
Exons, Introns, and UCEs Reveal Conflicting Phylogenomic Signals in a Rapid Radiation of Frogs (Ranidae: Hylarana )
inferred← citeshttps://doi.org/10.1101/gr.203950.115openalex-snapshot
In silico phylogenomics using complete genomes: a case study on the evolution of hominoids
inferred← citeshttps://doi.org/10.1111/1755-0998.12568openalex-snapshot
High‐throughput SNP genotyping of historical and modern samples of five bird species via sequence capture of ultraconserved elements
inferred← citeshttps://doi.org/10.1111/1755-0998.12574openalex-snapshot
Capturing Darwin's dream
inferred← citeshttps://doi.org/10.1111/1755-0998.12575openalex-snapshot
Comparative performance of double‐digest RAD sequencing across divergent arachnid lineages
inferred← citeshttps://doi.org/10.1111/1755-0998.12783openalex-snapshot
HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing
inferred← citeshttps://doi.org/10.1111/1755-0998.12924openalex-snapshot
Targeted resequencing of coding DNA sequences for SNP discovery in nonmodel species
inferred← citeshttps://doi.org/10.1111/1755-0998.12954openalex-snapshot
RADProc: A computationally efficient de novo locus assembler for population studies using RADseq data
inferred← citeshttps://doi.org/10.1111/1755-0998.12970openalex-snapshot
Cryptic diversity in the Mexican highlands: Thousands of UCE loci help illuminate phylogenetic relationships, species limits and divergence times of montane rattlesnakes (Viperidae: Crotalus)
inferred← citeshttps://doi.org/10.1111/1755-0998.13029openalex-snapshot
An empirical pipeline for choosing the optimal clustering threshold in RADseq studies
inferred← citeshttps://doi.org/10.1111/1755-0998.13153openalex-snapshot
Estimating and accounting for genotyping errors in RAD‐seq experiments
inferred← citeshttps://doi.org/10.1111/boj.12399openalex-snapshot
An introduction to plant phylogenomics with a focus on palms
inferred← citeshttps://doi.org/10.1111/cla.12493openalex-snapshot
Phylogenomics and loci dropout patterns of deeply diverged Zodarion ant‐eating spiders suggest a high potential of RAD‐seq for genus‐level spider phylogenetics
inferred← citeshttps://doi.org/10.1111/evo.13377openalex-snapshot
Host conservatism, geography, and elevation in the evolution of a Neotropical moth radiation
inferred← citeshttps://doi.org/10.1111/jbi.13661openalex-snapshot
Divergence of tropical pitvipers promoted by independent colonization events of dry montane Andean habitats
inferred← citeshttps://doi.org/10.1111/jbi.70075openalex-snapshot
Comparative Phylogeography of Phrynosomatid Lizards in Baja California: Asynchronous Divergences and Expansion of Callisaurus draconoides Across the North American Deserts
inferred← citeshttps://doi.org/10.1111/jeb.13740openalex-snapshot
Host shifting and host sharing in a genus of specialist flies diversifying alongside their sunflower hosts
inferred← citeshttps://doi.org/10.1111/jse.12174openalex-snapshot
Using nuclear gene data for plant phylogenetics: Progress and prospects II. Next‐gen approaches
inferred← citeshttps://doi.org/10.1111/jse.12234openalex-snapshot
Island floras as model systems for studies of plant speciation: Prospects and challenges
inferred← citeshttps://doi.org/10.1111/mec.13304openalex-snapshot
Targeted capture in evolutionary and ecological genomics
inferred← citeshttps://doi.org/10.1111/mec.13601openalex-snapshot
Sorting duplicated loci disentangles complexities of polyploid genomes masked by genotyping by sequencing
inferred← citeshttps://doi.org/10.1111/mec.14033openalex-snapshot
Evidence for concerted movement of nuclear and mitochondrial clines in a lizard hybrid zone
inferred← citeshttps://doi.org/10.1111/mec.14077openalex-snapshot
quaddRAD: a new high‐multiplexing and PCR duplicate removal ddRAD protocol produces novel evolutionary insights in a nonradiating cichlid lineage
inferred← citeshttps://doi.org/10.1111/mec.14274openalex-snapshot
On the independent gene trees assumption in phylogenomic studies
inferred← citeshttps://doi.org/10.1111/mec.14504openalex-snapshot
Integrating genomic and phenotypic data to evaluate alternative phylogenetic and species delimitation hypotheses in a recent evolutionary radiation of grasshoppers
inferred← citeshttps://doi.org/10.1111/mec.14573openalex-snapshot
Diversification of African tree frogs (genus Leptopelis) in the highlands of Ethiopia
inferred← citeshttps://doi.org/10.1111/mec.14715openalex-snapshot
A genomic evaluation of taxonomic trends through time in coast horned lizards (genus Phrynosoma)
inferred← citeshttps://doi.org/10.1111/mec.15483openalex-snapshot
Integrative species delimitation reveals cryptic diversity in the southern Appalachian Antrodiaetus unicolor (Araneae: Antrodiaetidae) species complex
inferred← citeshttps://doi.org/10.1111/mec.15541openalex-snapshot
Impacts of the Toba eruption and montane forest expansion on diversification in Sumatran parachuting frogs ( Rhacophorus )
inferred← citeshttps://doi.org/10.1111/mec.15603openalex-snapshot
Gene flow creates a mirage of cryptic species in a Southeast Asian spotted stream frog complex
inferred← citeshttps://doi.org/10.1111/mec.17308openalex-snapshot
Population genomics of flat‐tailed horned lizards (Phrynosoma mcallii) informs conservation and management across a fragmented Colorado Desert landscape
inferred← citeshttps://doi.org/10.1111/mec.70038openalex-snapshot
Caves as Species Pumps: Key Innovations, Isolation and Periodic Introgression Drive the World's Largest Cavefish Radiation in a Dynamic Karstic Landscape
inferred← citeshttps://doi.org/10.1111/nph.15590openalex-snapshot
Trans‐lineage polymorphism and nonbifurcating diversification of the genus Picea
inferred← citeshttps://doi.org/10.1111/nph.17581openalex-snapshot
A phylogeny of Antirrhinum reveals parallel evolution of alpine morphology
inferred← citeshttps://doi.org/10.1111/nph.17649openalex-snapshot
Andean uplift, drainage basin formation, and the evolution of plants living in fast‐flowing aquatic ecosystems in northern South America
inferred← citeshttps://doi.org/10.1111/syen.12473openalex-snapshot
Towards a new classification of Muscidae (Diptera): a comparison of hypotheses based on multiple molecular phylogenetic approaches
inferred← citeshttps://doi.org/10.1111/syen.12557openalex-snapshot
Delimiting continuity: Comparison of target enrichment and double digest restriction‐site associated DNA sequencing for delineating admixing parapatric Melitaea butterflies
inferred← citeshttps://doi.org/10.1126/science.adh2449openalex-snapshot
The macroevolutionary singularity of snakes
inferred← citeshttps://doi.org/10.1146/annurev-ecolsys-110316-022645openalex-snapshot
The Utility of Single Nucleotide Polymorphism (SNP) Data in Phylogenetics
inferred← citeshttps://doi.org/10.11606/t.41.2020.tde-16122019-135409openalex-snapshot
Biogeografia e filogeografia comparada das aves do Centro de Endemismo Pernambuco utilizando Elementos Ultra Conservados (UCEs)
inferred← citeshttps://doi.org/10.1163/15685381-bja10045openalex-snapshot
More evidence of cryptic diversity in Anatololacerta species complex Arnold, Arribas and Carranza, 2007 (Squamata: Lacertidae) and re-evaluation of its current taxonomy
inferred← citeshttps://doi.org/10.1186/s12862-016-0628-xopenalex-snapshot
Phylogenomics of a rapid radiation: is chromosomal evolution linked to increased diversification in north american spiny lizards (Genus Sceloporus)?
inferred← citeshttps://doi.org/10.1186/s12862-019-1501-5openalex-snapshot
The first known fossil Uma: ecological evolution and the origins of North American fringe-toed lizards
inferred← citeshttps://doi.org/10.1186/s13104-015-1261-2openalex-snapshot
Exploring the utility of cross-laboratory RAD-sequencing datasets for phylogenetic analysis
inferred← citeshttps://doi.org/10.1186/s43008-021-00068-wopenalex-snapshot
Unravelling hybridization in Phytophthora using phylogenomics and genome size estimation
inferred← citeshttps://doi.org/10.1371/journal.pone.0151651openalex-snapshot
Hybridization Capture Using RAD Probes (hyRAD), a New Tool for Performing Genomic Analyses on Collection Specimens
inferred← citeshttps://doi.org/10.1371/journal.pone.0171053openalex-snapshot
Genotyping-by-Sequencing in a Species Complex of Australian Hummock Grasses (Triodia): Methodological Insights and Phylogenetic Resolution
inferred← citeshttps://doi.org/10.1371/journal.pone.0201254openalex-snapshot
A RAD-sequencing approach to genome-wide marker discovery, genotyping, and phylogenetic inference in a diverse radiation of primates
inferred← citeshttps://doi.org/10.1643/ch-15-248openalex-snapshot
Phylogenomics of Horned Lizards (Genus:Phrynosoma) Using Targeted Sequence Capture Data
inferred← citeshttps://doi.org/10.31390/gradschool_dissertations.1699openalex-snapshot
Comparative Population Genomics of Neotropical Forest Birds
inferred← citeshttps://doi.org/10.3389/fmars.2020.599984openalex-snapshot
Phylogenetic Relationships Within Chrysogorgia (Alcyonacea: Octocorallia), a Morphologically Diverse Genus of Octocoral, Revealed Using a Target Enrichment Approach
inferred← citeshttps://doi.org/10.3389/fpls.2019.01416openalex-snapshot
Maximize Resolution or Minimize Error? Using Genotyping-By-Sequencing to Investigate the Recent Diversification of Helianthemum (Cistaceae)
inferred← citeshttps://doi.org/10.3390/ani13030471openalex-snapshot
Genome Evolution and the Future of Phylogenomics of Non-Avian Reptiles
inferred← citeshttps://doi.org/10.3390/ijms25158464openalex-snapshot
The Phylogenetic Relationships of Major Lizard Families Using Mitochondrial Genomes and Selection Pressure Analyses in Anguimorpha
inferred← citeshttps://doi.org/10.3390/pathogens11070769openalex-snapshot
Phylogenomics and Diversification of the Schistosomatidae Based on Targeted Sequence Capture of Ultra-Conserved Elements
inferred← citeshttps://doi.org/10.3390/plants14152403openalex-snapshot
Integrative Population Genomics Reveals Niche Differentiation and Gene Flow in Chinese Sclerophyllous Oaks (Quercus Sect. Ilex)
inferred← citeshttps://doi.org/10.5204/thesis.eprints.118051openalex-snapshot
Understanding the molecular basis of adaptation to freshwater environments by prawns in the genus Macrobrachium
inferred← citeshttps://doi.org/10.53846/goediss-8337openalex-snapshot
Evolution of Melicope J.R.Forst & G.Forst (Rutaceae), the largest adaptive radiation of woody plants on the Hawaiian Islands.
inferred← citeshttps://doi.org/10.70675/471d1db2z2d6cz47e1z9450z321b9d09527copenalex-snapshot
Approche phylogénomique de la dynamique spatiale et temporelle de diversification chez les Lépidoptères Saturniidae
inferred← citeshttps://doi.org/10.70675/6bac8de3z0b88z4e0dzbec7za7f96e119214openalex-snapshot
Divergence évolutive et isolement reproducteur chez les ascidies du genre Ciona, introduites et indigènes en Europe
inferred← citeshttps://doi.org/10.70675/e242eeaczdc27z404fz961cz3e14add5cb5dopenalex-snapshot
Phylogéographie et évolution moléculaire chez les Procellariiformes : apport à la diversification des oiseaux marins
inferred← citeshttps://doi.org/10.70675/eefe8a46ze06ez4614zb826z1d4b74134de3openalex-snapshot
Taxonomie intégrative, phylogénie et diversification des Turridae (Gastropoda, Conoidea)
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.895v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.895v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species (v0.1)"
inferred← citeshttps://doi.org/10.7717/peerj.10677openalex-snapshot
Structure and comparative analysis of the mitochondrial genomes of Liolaemus lizards with different modes of reproduction and ploidy levels
inferred← citeshttps://doi.org/10.7717/peerj.20438openalex-snapshot
Phylogenetics within Camassia (Asparagaceae): examining difficult taxonomy and unusual variation using genomic restriction-site-associated DNA sequencing data
inferred← citeshttps://doi.org/10.7717/peerj.3941openalex-snapshot
Phylogenomic analysis of the Chilean clade ofLiolaemuslizards (Squamata: Liolaemidae) based on sequence capture data
inferred← citeshttps://doi.org/10.7717/peerj.5735openalex-snapshot
Ultraconserved elements (UCEs) illuminate the population genomics of a recent, high-latitude avian speciation event
inferred← citeshttps://doi.org/10.7717/peerj.6399openalex-snapshot
Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics
inferred← citeshttps://doi.org/10.7717/peerj.895openalex-snapshot
Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.