Towards a better future for DNA barcoding: Evaluating monophyly‐ and distance‐based species identification using COI gene fragments of Dacini fruit flies

We generated a COI reference library for 265 species of Dacini containing 5601 sequences that span most of the COI gene using circular consensus sequencing. We compared distance metrics versus monophyly assessments for species identification and although we found a ‘soft’ barcode gap around 2% pairwise distance, the exceptions to this rule dictate that a monophyly assessment is the only reliable method for species identification.

Genomic data reveal new species and the limits of mtDNA barcode diagnostics to contain a global pest species complex (Diptera: Tephritidae: Dacinae)

We present restriction site-associated DNA sequencing (RAD-seq) genomic data for 2,292 specimens, which unequivocally supports the delimitation of two new species, here described as Bactrocera borneoensis sp. n. Doorenweerd & San Jose and B. incognita sp. n. Doorenweerd & San Jose.

Interspecific gene flow obscures phylogenetic relationships in an important insect pest species complex

Under concatenation, both datasets suggest identical species relationships with mostly high statistical support. However, multispecies coalescent and multispecies network approaches suggest markedly different hypotheses and detected significant gene flow.

Genomics reveals widespread hybridization across insects with ramifications for species boundaries and invasive species

As the amount of genomic data for nonmodel taxa grows, it is increasingly clear that gene flow across species barriers in insects is much more common than previously thought.

Five new species of Hawaiian endemic fancy case caterpillars from a recently established forest reserve on Maui (Cosmopterigidae: Hyposmocoma)

We here describe five new species of Hawaiian fancy case caterpillars, Hyposmocoma Butler (Lepidoptera: Cosmopterigidae), from East Maui

Inadequate molecular identification protocols for invasive pests threaten biosecurity

Molecular markers are crucial to identify new pest invasions before they can become established but current methods are often inadequate.

Phylogenomic inference of two widespread European leaf miner species complexes suggests mechanisms for sympatric speciation (Lepidoptera: Nepticulidae: Ectoedemia)

In the E. rubivora complex, ddRAD data resolved all four species, contrary to morphological and COI data, which supports a potential scenario of host plant-driven speciation where the host plant specialization provides an ecological barrier to hybridization.

A phylogenomic approach to species delimitation in the mango fruit fly (Bactrocera frauenfeldi) complex: A new synonym of an important pest species with variable morphotypes (Diptera: Tephritidae)

Our results show that the morphological differences between B. frauenfeldi and B. albistrigata (de Meijere) are part of a continuum that cannot be phylogenetically separated into monophyletic groups.

Mitochondrial DNA-based phylogeography of the large ringlet Erebia euryale (Esper, 1805) suggests recurrent Alpine-Carpathian disjunctions during Pleistocene (Nymphalidae, Satyrinae)

To further our understanding of the relationships between populations, both the Alpine and the extra Alpine ones, we sequenced 1,496 bp of the COI gene in 16 Alpine and Jurassian populations and analysed them in combination with published Pyrenean and Carpathian sequences.

Phylogeny of gracillariid leaf-mining moths: evolution of larval behaviour inferred from phylogenomic and Sanger data

Dating analyses indicate a mid-Cretaceous (105.3 Ma) origin of the family, followed by a rapid diversification into the nine subfamilies predating the Cretaceous–Palaeogene extinction. We hypothesize that advanced larval behaviours, such as making keeled or tentiform blotch mines, rolling leaves and galling, allowed gracillariids to better avoid larval parasitoids allowing them to further diversify.