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The Case for a Nuclear Barcode: Using the CAD CPS Region for Species and Genus Level Discrimination in Beetles

https://doi.org/10.3390/d15070847
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Target Enrichment via DNA Hybridization Capture
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DNA barcoding allows identification of European Fanniidae (Diptera) of forensic interest
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Analysis of family-level relationships in bees (Hymenoptera: Apiformes) using 28S and two previously unexplored nuclear genes: CAD and RNA polymerase II
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Evaluating nuclear protein-coding genes for phylogenetic utility in beetles
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The age and phylogeny of wood boring weevils and the origin of subsociality
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Phylogeny of Bembidion and related ground beetles (Coleoptera: Carabidae: Trechinae: Bembidiini: Bembidiina)
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Gene discordance in phylogenomics of recent plant radiations, an example from Hawaiian Cyrtandra (Gesneriaceae)
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Patterns of host tree use within a lineage of saproxlic snout-less weevils (Coleoptera: Curculionidae: Scolytinae: Scolytini)
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Evaluating species boundaries using coalescent delimitation in pine-killing Monochamus (Coleoptera: Cerambycidae) sawyer beetles
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Mitochondrial pseudogenes: evolution's misplaced witnesses
inferredcites →https://doi.org/10.1016/s1055-7903(03)00284-7openalex-snapshot
Evolution and phylogenetic utility of CAD (rudimentary) among Mesozoic-aged Eremoneuran Diptera (Insecta)
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Evolution of genes and taxa: a primer
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Identification of wood-boring beetles (Cerambycidae and Buprestidae) intercepted in trade-associated solid wood packaging material using DNA barcoding and morphology
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Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator
inferredcites →https://doi.org/10.1073/pnas.0803076105openalex-snapshot
Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified
inferredcites →https://doi.org/10.1080/106351501753462803openalex-snapshot
Exploring Data Interaction and Nucleotide Alignment in a Multiple Gene Analysis of Ips (Coleoptera: Scolytinae)
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New Non-native Pseudocryptic Cyclorhipidion Species (Coleoptera: Curculionidae: Scolytinae: Xyleborini) Found in the United States as Revealed in a Multigene Phylogeny
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DNA-Based Identification of the Eastern Subterranean Termite, Reticulitermes flavipes (Isoptera: Rhinotermitidae)
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Excluding Loci With Substitution Saturation Improves Inferences From Phylogenomic Data
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A Preliminary Framework for DNA Barcoding, Incorporating the Multispecies Coalescent
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Allele Phasing Greatly Improves the Phylogenetic Utility of Ultraconserved Elements
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Biological identifications through DNA barcodes
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Advancing taxonomy and bioinventories with DNA barcodes
inferredcites →https://doi.org/10.1111/1755-0998.12150openalex-snapshot
DNA barcoding of bark and ambrosia beetles reveals excessive NUMT s and consistent east‐west divergence across P alearctic forests
inferredcites →https://doi.org/10.1111/1755-0998.12249openalex-snapshot
Sequence capture using PCR ‐generated probes: a cost‐effective method of targeted high‐throughput sequencing for nonmodel organisms
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Genome‐wide survey of nuclear protein‐coding markers for beetle phylogenetics and their application in resolving both deep and shallow‐level divergences
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ASAP: assemble species by automatic partitioning
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Evolutionary relationships within EuropeanMonochamus(Coleoptera: Cerambycidae) highlight the role of altitude in species delineation
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Multi‐gene phylogeny of North American clear‐winged moths (Lepidoptera: Sesiidae): a foundation for future evolutionary study of a speciose mimicry complex
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STOCHASTICITY OVERRULES THE "THREE-TIMES RULE": GENETIC DRIFT, GENETIC DRAFT, AND COALESCENCE TIMES FOR NUCLEAR LOCI VERSUS MITOCHONDRIAL DNA
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LEAKY PREZYGOTIC ISOLATION AND POROUS GENOMES: RAPID INTROGRESSION OF MATERNALLY INHERITED DNA
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Myth of the molecule: DNA barcodes for species cannot replace morphology for identification and classification
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On the inappropriate use of Kimura‐2‐parameter (K2P) divergences in the DNA‐barcoding literature
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Large‐scale species delimitation method for hyperdiverse groups
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inferredcites →https://doi.org/10.1111/j.1439-0469.2008.00492.xopenalex-snapshot
Incorporation of mitochondrial fragments in the nuclear genome (Numts) of the longhorned beetleMonochamus galloprovincialis(Coleoptera, Cerambycidae)
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GENE TREES AND ORGANISMAL HISTORIES: A PHYLOGENETIC APPROACH TO POPULATION BIOLOGY
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INFERRING PHYLOGENIES FROM mt DNA VARIATION: MITOCHONDRIAL-GENE TREES VERSUS NUCLEAR-GENE TREES
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MITONUCLEAR DISCORDANCE IS CAUSED BY RAMPANT MITOCHONDRIAL INTROGRESSION IN NEODIPRION (HYMENOPTERA: DIPRIONIDAE) SAWFLIES
inferredcites →https://doi.org/10.1111/mec.15153openalex-snapshot
A mirage of cryptic species: Genomics uncover striking mitonuclear discordance in the butterfly Thymelicus sylvestris
inferredcites →https://doi.org/10.1111/mec.15211openalex-snapshot
One, two or more species? Mitonuclear discordance and species delimitation
inferredcites →https://doi.org/10.1111/syen.12132openalex-snapshot
The beetle tree of life reveals that C oleoptera survived end‐ P ermian mass extinction to diversify during the C retaceous terrestrial revolution
inferredcites →https://doi.org/10.1111/syen.12581openalex-snapshot
Inadequate molecular identification protocols for invasive pests threaten biosecurity
inferredcites →https://doi.org/10.1126/science.1176906openalex-snapshot
Barcoding of Plants and Fungi
inferredcites →https://doi.org/10.1139/z05-025openalex-snapshot
Comment on "Identifying spiders through DNA barcodes"
inferredcites →https://doi.org/10.1146/annurev.ecolsys.34.011802.132421openalex-snapshot
Species-Level Paraphyly and Polyphyly: Frequency, Causes, and Consequences, with Insights from Animal Mitochondrial DNA
inferredcites →https://doi.org/10.1146/annurev.ento.45.1.1openalex-snapshot
The Current State Of Insect Molecular Systematics: A Thriving Tower of Babel
inferredcites →https://doi.org/10.1155/2013/783925openalex-snapshot
Sequence Characterization of Mitochondrial 12S rRNA Gene in Mouse Deer (Moschiola indica) for PCR-RFLP Based Species Identification
inferredcites →https://doi.org/10.1186/1742-9994-2-5openalex-snapshot
Comparative performance of the 16S rRNA gene in DNA barcoding of amphibians
inferredcites →https://doi.org/10.1186/1742-9994-4-6openalex-snapshot
An evaluation of LSU rDNA D1-D2 sequences for their use in species identification
inferredcites →https://doi.org/10.1186/s12870-020-02743-3openalex-snapshot
Correction to: The low-copy nuclear gene Agt1 as a novel DNA barcoding marker for Bromeliaceae
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.pone.0013102openalex-snapshot
Use of ITS2 Region as the Universal DNA Barcode for Plants and Animals
inferredcites →https://doi.org/10.1371/journal.pone.0054063openalex-snapshot
Phylogenetic Analysis and DNA-based Species Confirmation in Anopheles (Nyssorhynchus)
inferredcites →https://doi.org/10.1371/journal.pone.0217084openalex-snapshot
Assessment of BOLD and GenBank – Their accuracy and reliability for the identification of biological materials
inferredcites →https://doi.org/10.1890/1540-9295(2006)004[0268:wdbaet]2.0.co;2openalex-snapshot
Will DNA barcoding advance efforts to conserve biodiversity more efficiently than traditional taxonomic methods?
inferredcites →https://doi.org/10.3109/19401736.2013.825771openalex-snapshot
Using cytochromebgene of mtDNA as a DNA barcoding marker in chicken strains
inferredcites →https://doi.org/10.3389/fevo.2019.00302openalex-snapshot
Review and Interpretation of Trends in DNA Barcoding
inferredcites →https://doi.org/10.3389/fevo.2020.00027openalex-snapshot
The Essential Role of Taxonomic Expertise in the Creation of DNA Databases for the Identification and Delimitation of Southeast Asian Ambrosia Beetle Species (Curculionidae: Scolytinae: Xyleborini)
inferredcites →https://doi.org/10.3390/d14100847openalex-snapshot
Specific and Intraspecific Diversity of Symphypleona and Neelipleona (Hexapoda: Collembola) in Southern High Appalachia (USA)
inferredcites →https://doi.org/10.3390/d15050662openalex-snapshot
DNA vs. Morphology in Delineating Species Boundaries of Endemic Mongolian Eodorcadion Taxa (Coleoptera: Cerambycidae)
inferredcites →https://doi.org/10.3897/asp.79.e61499openalex-snapshot
A fine line between species and ecotype: a case study of Anoplistes halodendri and A. kozlovi (Coleoptera: Cerambycidae) occurring sympatrically in Mongolia
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A taxonomic monograph of Nearctic Scolytus Geoffroy (Coleoptera, Curculionidae, Scolytinae)
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Table 1 in A new Gammarus species from Xinjiang Uygur Autonomous Region (China) with a key to Xinjiang freshwater gammarids (Crustacea, Amphipoda, Gammaridae)

What points at this work

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

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Public DNA archives reveal pervasive cryptic structure and taxonomic confusion in bark and ambrosia beetles (Curculionidae: Platypodinae and Scolytinae)
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“Infinite” potential in beetle reticulate evolution: evidence for hybrid origin and secondary mitochondrial capture, with incidental intergeneric hybridization
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Molecular Identification of Immature Longhorn Beetles (Cerambycidae and Disteniidae) From South Korea
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Integrative taxonomy suggests species status for Philonthus sideropterus Kolenati, 1846 sp. propr., the former color form of Philonthus splendens (Fabricius, 1793) (Coleoptera: Staphylinidae)
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Elmis syriaca (Kuwert, 1890) and E. zoufali (Reitter, 1910) (Coleoptera: Elmidae) confirmed as distinct species based on molecular data, morphology and geographical distribution
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An Integrative Revision of the Genus Rhamphus (Curculionidae) from the Western Palearctic: Morphological and Molecular Data Reveal the Radiation of Multiple Species
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