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Broken Ring Speciation in California Mygalomorph Spiders (Nemesiidae,Calisoga)

https://doi.org/10.1086/730262
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Using SPAdes De Novo Assembler
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Multiple Alignment of DNA Sequences with MAFFT
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Ring Species
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Reassessment of extinction patterns of Pliocene molluscs from California and environmental forcing of extinction in the San Joaquin Basin
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Multilocus sequence data reveal dozens of putative cryptic species in a radiation of endemic Californian mygalomorph spiders (Araneae, Mygalomorphae, Nemesiidae)
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Multi-allele species reconstruction using ASTRAL
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Ring species as bridges between microevolution and speciation
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Genomic divergence in a ring species complex
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ModelFinder: fast model selection for accurate phylogenetic estimates
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Refugia within refugia: in situ speciation and conservation of threatened Bertmainius (Araneae : Migidae), a new genus of relictual trapdoor spiders endemic to the mesic zone of south-western Australia
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The longest-lived spider: mygalomorphs dig deep, and persevere
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Bayesian species delimitation using multilocus sequence data
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Evolution and stability of ring species
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Multispecies coalescent delimits structure, not species
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Incipient species formation in salamanders of the Ensatina complex
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Maximum Likelihood Inference of Geographic Range Evolution by Dispersal, Local Extinction, and Cladogenesis
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Coalescent-based species delimitation is sensitive to geographic sampling and isolation by distance
inferredcites →https://doi.org/10.1086/730262openalex-snapshot
Broken Ring Speciation in California Mygalomorph Spiders (Nemesiidae,Calisoga)
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Systematics and the Origin of Species
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adegenet : a R package for the multivariate analysis of genetic markers
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The Newick utilities: high-throughput phylogenetic tree processing in the U nix shell
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The variant call format and VCFtools
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adegenet 1.3-1 : new tools for the analysis of genome-wide SNP data
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Trimmomatic: a flexible trimmer for Illumina sequence data
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ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes
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PHYLUCE is a software package for the analysis of conserved genomic loci
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IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
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New Methods to Calculate Concordance Factors for Phylogenomic Datasets
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The Meaning and Measure of Concordance Factors in Phylogenomics
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Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies
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UFBoot2: Improving the Ultrafast Bootstrap Approximation
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Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis
inferredcites →https://doi.org/10.1093/sysbio/41.3.273openalex-snapshot
Evolutionary Relationships Within the Ensatina Eschscholtzii Complex Confirm the Ring Species Interpretation
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Bayesian Inference of Species Trees using Diffusion Models
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Multilocus Species Delimitation in a Complex of Morphologically Conserved Trapdoor Spiders (Mygalomorphae, Antrodiaetidae, Aliatypus)
inferredcites →https://doi.org/10.1093/sysbio/syu056openalex-snapshot
Model Selection in Historical Biogeography Reveals that Founder-Event Speciation Is a Crucial Process in Island Clades
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Bayesian Divergence-Time Estimation with Genome-Wide Single-Nucleotide Polymorphism Data of Sea Catfishes (Ariidae) Supports Miocene Closure of the Panamanian Isthmus
inferredcites →https://doi.org/10.1093/sysbio/syy032openalex-snapshot
Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7
inferredcites →https://doi.org/10.1093/sysbio/syz064openalex-snapshot
Phylogenetic Systematics and Evolution of the Spider Infraorder Mygalomorphae Using Genomic Scale Data
inferredcites →https://doi.org/10.1098/rspb.2008.0765openalex-snapshot
Where and when does a ring start and end? Testing the ring-species hypothesis in a species complex of Australian parrots
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The Caribbean slipper spurgeEuphorbia tithymaloides: the first example of a ring species in plants
inferredcites →https://doi.org/10.1098/rspb.2013.2246openalex-snapshot
Reproductive isolation between phylogeographic lineages scales with divergence
inferredcites →https://doi.org/10.1111/1755-0998.12471openalex-snapshot
TESS3: fast inference of spatial population structure and genome scans for selection
inferredcites →https://doi.org/10.1111/1755-0998.12549openalex-snapshot
vcfr : a package to manipulate and visualize variant call format data in R
inferredcites →https://doi.org/10.1111/1755-0998.12621openalex-snapshot
High phylogenetic utility of an ultraconserved element probe set designed for Arachnida
inferredcites →https://doi.org/10.1111/1755-0998.12745openalex-snapshot
dartr : An r package to facilitate analysis of SNP data generated from reduced representation genome sequencing
inferredcites →https://doi.org/10.1111/1755-0998.13099openalex-snapshot
Spider‐specific probe set for ultraconserved elements offers new perspectives on the evolutionary history of spiders (Arachnida, Araneae)
inferredcites →https://doi.org/10.1111/1755-0998.13265openalex-snapshot
Dsuite ‐ Fast D ‐statistics and related admixture evidence from VCF files
inferredcites →https://doi.org/10.1111/2041-210x.12382openalex-snapshot
LEA: An R package for landscape and ecological association studies
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ORIGIN AND DIVERSIFICATION OF THE CALIFORNIA FLORA: RE-EXAMINING CLASSIC HYPOTHESES WITH MOLECULAR PHYLOGENIES
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THE EVOLUTION OF POSTZYGOTIC ISOLATION: ACCUMULATING DOBZHANSKY-MULLER INCOMPATIBILITIES
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Lineage diversification on an evolving landscape: phylogeography of the California newt, Taricha torosa (Caudata: Salamandridae)
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Closing the ring: historical biogeography of the salamander ring species Ensatina eschscholtzii
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Combining genetic and geospatial analyses to infer population extinction in mygalomorph spiders endemic to the Los Angeles region
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hierfstat , a package for r to compute and test hierarchical F ‐statistics
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EVOLUTIONARY AND HISTORICAL ANALYSIS OF PROTEIN VARIATION IN THE BLOTCHED FORMS OF SALAMANDERS OF THE ENSATINA COMPLEX (AMPHIBIA: PLETHODONTIDAE)
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GENETIC LEAKAGE AFTER ADAPTIVE AND NONADAPTIVE DIVERGENCE IN THE ENSATINA ESCHSCHOLTZII RING SPECIES
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Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
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Phylogeography and population genetics reveal ring species patterns in a highly polymorphic California lily
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Evidence for ephemeral ring species formation during the diversification history of western fence lizards (Sceloporus occidentalis)
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Ring distribution patterns—diversification or speciation? Comparative phylogeography of two small mammals in the mountains surrounding the Sichuan Basin
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INFLUENCE OF THE MENDOCINO TRIPLE JUNCTION ON THE TECTONICS OF COASTAL CALIFORNIA
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Predictors for reproductive isolation in a ring species complex following genetic and ecological divergence
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Ring distributions leading to species formation: a global topographic analysis of geographic barriers associated with ring species
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ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
inferredcites →https://doi.org/10.1186/s12864-018-4620-2openalex-snapshot
TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees
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On the First Asian Spiders of the Family Caponiidae (Araneae, Haplogynae), with Notes on the African Genus Diploglena
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Phylogenomics Reveals Three Sources of Adaptive Variation during a Rapid Radiation
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Ancient Admixture in Human History
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Fast and Efficient Estimation of Individual Ancestry Coefficients
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Wherefore and Whither the Ring Species?
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FactoMineR : An R Package for Multivariate Analysis
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R Package gdistance : Distances and Routes on Geographical Grids
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Patterns of Growth and Movements in a Population of Ensatina eschscholtzii platensis (Caudata: Plethodontidae) in the Sierra Nevada, California
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PLANT DIVERSITY AND ENDEMISM IN THE CALIFORNIA FLORISTIC PROVINCE
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dggridR: Discrete Global Grids
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Species richness and endemism in the native flora of California
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A phylogenetic and taxonomic review of baviine jumping spiders (Araneae, Salticidae, Baviini)
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Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM
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Fast and flexible estimation of effective migration surfaces
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CIAlign: A highly customisable command line tool to clean, interpret and visualise multiple sequence alignments
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Combining ultraconserved elements and mtDNA data to uncover lineage diversity in a Mexican highland frog (Sarcohyla; Hylidae)
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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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