Validation of Heterocerus heydeni Kuwert, 1890 based on morphology and DNA barcoding, with notes on the problems of classification of the Heteroceridae (Coleoptera)

New taxonomic data on mud-loving beetles are provided based on morphological characters and DNA barcoding. Heterocerus heydeni Kuwert, 1890 was previously considered a junior synonym of H. flexuosus Stephens, 1828, but we support the validity of the species and restore the name. H. heydeni is redescribed, based on material from Central Asia and European part of Russia. Specimens of H. hauseri Kuwert, 1893 were also studied, suggesting it as a possible junior synonym of H. heydeni. We provide new DNA barcodes for H. flexuosus and Augyles cf. flavidus and comment on Heterocerus barcode data published in Barcode Of Life Data Systems (BOLD).

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Confirming Hypoderma tarandi (Diptera: Oestridae) human ophthalmomyiasis by larval DNA barcoding

Acta Parasitologica ◽

10.2478/s11686-014-0242-2 ◽

2014 ◽

Vol 59 (2) ◽

Cited By ~ 6

Author(s):

Bjørn Rukke ◽

Symira Cholidis ◽

Arild Johnsen ◽

Preben Ottesen

Keyword(s):

Dna Barcoding ◽

Morphological Traits ◽

Data Systems ◽

Morphological Classification ◽

Northern Norway ◽

Life Data ◽

Summer Holiday ◽

Practical Tool ◽

Hypoderma Tarandi

AbstractDNA barcoding is a practical tool for species identification, when morphological classification of an organism is difficult. Herein we describe the utilisation of this technique in a case of ophthalmomyiasis interna. A 12-year-old boy was infested during a summer holiday in northern Norway, while visiting an area populated with reindeer. Following medical examination, a Diptera larva was surgically removed from the boy’s eye and tentatively identified from its morphological traits as Hypoderma tarandi (L.) (Diptera: Oestridae). Ultimately, DNA barcoding confirmed this impression. The larval cytochrome c oxidase subunit 1 (COI) DNA sequence was matched with both profiles of five adult H. tarandi from the same region where the boy was infested, and other established profiles of H. tarandi in the Barcode of Life Data Systems (BOLD) identification engine.

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Extending DNA barcoding coverage for Lake Whitefish (Coregonus clupeaformis) across the three major basins of Lake Huron

DNA Barcodes ◽

10.1515/dna-2015-0007 ◽

2015 ◽

Vol 3 (1) ◽

Cited By ~ 4

Author(s):

Lauren M. Overdyk ◽

Heather E. Braid ◽

Stephen S. Crawford ◽

Robert H. Hanner

Keyword(s):

Dna Barcoding ◽

Lake Huron ◽

Coi Gene ◽

Sampling Effort ◽

Coregonus Clupeaformis ◽

Dna Barcodes ◽

Lake Whitefish ◽

Life Data ◽

New Perspective ◽

St Lawrence River

AbstractDNA barcoding is a useful tool for both species identification and discovery, but the latter requires denser sampling than typically used in barcode studies. Lake Whitefish (Coregonus clupeaformis) is a valuable species, fished traditionally, commercially, and recreationally in Lake Huron. Based on the natural geographic and bathymetric separation of the three major basins in Lake Huron, the potential separation of Lake Whitefish within these basins, and the variation among life history (early and late spawning), we predicted that Lake Huron might harbour cryptic lineages of Lake Whitefish at the basin level. To test this prediction, DNA barcodes of the mitochondrial 5’ cytochrome c oxidase subunit I (COI) gene sequences were recovered from spawning phase Lake Whitefish (n = 5 per site), which were collected from sites (n = 28) around Lake Huron during Fall 2012. These sequences, combined with other publically available DNA barcodes from the Barcode of Life Data System (BOLD), revealed twelve unique haplotypes across North America, with seven unique to Lake Huron. The dominant haplotype was found throughout Lake Huron and east to the St. Lawrence River. No deep divergences were revealed. This comprehensive lake-wide sampling effort offers a new perspective on C. clupeaformis, and can provide insight for environmental assessments and fisheries management.

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Two new and one newly recorded species of Polypedilum Kieffer 1912 with DNA barcodes from Oriental China (Chironomidae: Diptera)

Zootaxa ◽

10.11646/zootaxa.4238.1.8 ◽

2017 ◽

Vol 4238 (1) ◽

pp. 109 ◽

Cited By ~ 1

Author(s):

CHUNCAI YAN ◽

CHAO SONG ◽

TING LIU ◽

GUANGJUN ZHAO ◽

ZIYUAN HOU ◽

...

Keyword(s):

Data Systems ◽

Dna Barcodes ◽

Life Data ◽

First Time

Polypedilum (Tripodura) enshiense Song & Wang sp. n. and P. (Tripodura) jianfengense Song & Wang sp. n. are described and illustrated as male imagines from China. P. (Uresipedilum) paraconvictum Yamamoto, Yamamoto & Hirowatari, 2016 is recorded from China for the first time. Cytochrome coxidase subunit I (COI) sequence of above species are uploaded to Barcode of Life Data Systems (BOLD).

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Unravelling the hidden biodiversity – the establishment of DNA barcodes of fish-parasitizing Acanthocephala Koehlreuther, 1771 in view of taxonomic misidentifications, intraspecific variability and possible cryptic species

Parasitology ◽

10.1017/s0031182020001316 ◽

2020 ◽

Vol 147 (13) ◽

pp. 1499-1508

Author(s):

Susanne Reier ◽

Helmut Sattmann ◽

Thomas Schwaha ◽

Hans-Peter Fuehrer ◽

Elisabeth Haring

Keyword(s):

Cryptic Species ◽

Dna Barcoding ◽

Intraspecific Variability ◽

Morphological Characters ◽

Species Level ◽

Morphological Identification ◽

Dna Barcodes ◽

Taxonomic Assignment ◽

Obligate Parasites ◽

Intraspecific Variations

AbstractAcanthocephalans are obligate parasites of vertebrates, mostly of fish. There is limited knowledge about the diversity of fish-parasitizing Acanthocephala in Austria. Seven determined species and an undetermined species are recorded for Austrian waters. Morphological identification of acanthocephalans remains challenging due to their sparse morphological characters and their high intraspecific variations. DNA barcoding is an effective tool for taxonomic assignment at the species level. In this study, we provide new DNA barcoding data for three genera of Acanthocephala (Pomphorhynchus Monticelli, 1905, Echinorhynchus Zoega in Müller, 1776 and Acanthocephalus Koelreuter, 1771) obtained from different fish species in Austria and provide an important contribution to acanthocephalan taxonomy and distribution in Austrian fish. Nevertheless, the taxonomic assignment of one species must remain open. We found indications for cryptic species within Echinorhynchus cinctulus Porta, 1905. Our study underlines the difficulties in processing reliable DNA barcodes and highlights the importance of the establishment of such DNA barcodes to overcome these. To achieve this goal, it is necessary to collect and compare material across Europe allowing a comprehensive revision of the phylum in Europe.

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DNA barcodes reveal that the widespread European tortricid moth Phalonidia manniana (Lepidoptera: Tortricidae) is a mixture of two species

Zootaxa ◽

10.11646/zootaxa.3262.1.1 ◽

2012 ◽

Vol 3262 (1) ◽

pp. 1 ◽

Cited By ~ 9

Author(s):

MARKO MUTANEN ◽

LEIF AARVIK ◽

PETER HUEMER ◽

LAURI KAILA ◽

OLE KARSHOLT ◽

...

Keyword(s):

Cryptic Species ◽

Dna Barcoding ◽

Central Europe ◽

Junior Synonym ◽

Dna Barcodes ◽

Morphological Investigation ◽

The North

During efforts to generate DNA barcodes for all North European Lepidoptera, Phalonidia manniana (Fischer vonRöslerstamm, 1839) was found to comprise two genetically distinct clusters. Morphological investigation further supportsthe existence of two distinct taxa, P. manniana and P. udana Guenée, 1845, sp. rev. Their biologies also differ, P. mannianafeeding in stems of Mentha and Lycopus (Lamiaceae) and P. udana feeding in stems of Lysimachia thyrsiflora and L.vulgaris (Primulaceae). We provide re-descriptions of both taxa and DNA barcodes for North European Phalonidia andGynnidomorpha. Phalonidia tolli Razowski, 1960, syn. nov., is considered a junior synonym of Pudana. Phalonidia udanais widely distributed in the North Palaearctic, whereas it seems to be rare or missing in large parts of Central Europe. The study demonstrates the usefulness of DNA barcoding in revealing cryptic species.

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Review of the genus Shilovia Makarchenko (Diptera: Chironomidae: Diamesinae: Boreoheptagyiini) from the mountains of Central Asia, with morphological description and DNA barcoding of known species

Zootaxa ◽

10.11646/zootaxa.4895.2.2 ◽

2020 ◽

Vol 4895 (2) ◽

pp. 196-210

Author(s):

EUGENYI A. MAKARCHENKO ◽

ALEXANDER A. SEMENCHENKO ◽

DMITRY M. PALATOV

Keyword(s):

Central Asia ◽

Dna Barcoding ◽

Morphological Study ◽

Morphological Characters ◽

Molecular Data ◽

Morphological Description ◽

Autonomous Region ◽

Bayesian Inferences ◽

East Kazakhstan ◽

Coi Sequences

Chironomids of the genus Shilovia Makarchenko (Diamesinae, Boreoheptagyiini) from the mountains of Central Asia are revised using both morphological characters and molecular data. Illustrated descriptions of the adult male Shilovia xinhuawangi sp. nov. from Xinjiang Uygur Autonomous Region of China, S. yakovlevi sp. nov. from East Kazakhstan and redescription of S. rara Makarchenko from Tajikistan and Kyrgyzstan are provided. The result of morphological study is congruent with DNA barcoding analyses using COI sequences. The average K2P interspecific nucleotide distances within S. xinhuawangi sp. nov. and S. yakovlevi sp. nov. are 0.03% and 0.3% respectively. The nucleotide distances between the two new species and S. rara can be considered interspecific. Phylogenetic analysis using Maximum likelihood (ML) and Bayesian inferences (BI) support the placement of S. xinhuawangi sp. nov. and S. yakovlevi sp. nov. within the monophyletic genus Shilovia.

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Description and phylogenetic classification of Stackelberginia cerberus sp. nov. (Diptera: Asilidae), comprising the first record of this genus from the Nearctic

Zootaxa ◽

10.11646/zootaxa.4306.4.7 ◽

2017 ◽

Vol 4306 (4) ◽

pp. 567 ◽

Cited By ~ 1

Author(s):

TRISTAN A. MCKNIGHT ◽

ROBERT A. CANNINGS

Keyword(s):

Central Asia ◽

Nuclear Protein ◽

First Record ◽

Morphological Characters ◽

Western Hemisphere ◽

Protein Coding ◽

Mitochondrial Coi ◽

Late Autumn ◽

Phylogenetic Classification

Stackelberginia cerberus sp. nov. (Diptera: Asilidae) is described from the Amargosa desert (USA: Nevada) and compared to related taxa. This is the first record of the genus in the Western Hemisphere; other species live in the deserts of central Asia. Stackelberginia Lehr is proposed as the sister taxon to Lasiopogon Loew in the subfamily Stichopogoninae based on morphological characters and a Bayesian species tree estimated from one mitochondrial (COI) and three nuclear protein-coding loci (AATS, PEPCK, wingless). Stackelberginia has the medially divided epandrium and rotated hypopygium of Lasiopogon, but the facial gibbosity is flat, macrosetae of thorax, head, and legs are unusually long, and phenology peaks in late autumn.

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Newly Emerging Pest in China, Rhynchaenus maculosus (Coleoptera: Curculionidae): Morphology and Molecular Identification with DNA Barcoding

Insects ◽

10.3390/insects12060568 ◽

2021 ◽

Vol 12 (6) ◽

pp. 568

Author(s):

Rui-Sheng Yang ◽

Ming-Yang Ni ◽

Yu-Jian Gu ◽

Jia-Sheng Xu ◽

Ying Jin ◽

...

Keyword(s):

Dna Barcoding ◽

Species Identification ◽

Molecular Identification ◽

Morphological Characters ◽

Information Storage ◽

Morphological Description ◽

Quick Response ◽

Dna Barcodes ◽

Pairwise Divergence ◽

Coding Capacity

The oak flea weevil, Rhynchaenus maculosus Yang et Zhang 1991, is a newly emerging pest that severely damages oak (genus Quercus) in China. The first R. maculosus outbreak occurred in 2020 and caused spectacular damage to all oak forests in Jilin province, northeast China. The lack of key morphological characters complicates the identification of this native pest, especially in larva and pupa stages. This is problematic because quick and accurate species identification is crucial for early monitoring and intervention during outbreaks. Here, we provided the first detailed morphological description of R. maculosus at four life stages. Additionally, we used DNA barcodes from larva and pupa specimens collected from three remote locations for molecular identification. The average pairwise divergence of all sequences in this study was 0.51%, well below the 2% to 3% (K-2-parameter) threshold set for one species. All sample sequences matched the R. maculosus morphospecies (KX657706.1 and KX657707.1), with 99.23% to 100% (sequence identity, E value: 0.00) matching success. The tree based on barcodes placed the specimens into the Rhynchaenus group, and the phylogenetic relationship between 62 sequences (30 samples and 32 from GeneBank) had high congruence with the morphospecies taxa. The traditional DNA barcodes were successfully transformed into quick response codes with larger coding capacity for information storage. The results showed that DNA barcoding is reliable for R. maculosus identification. The integration of molecular and morphology-based methods contributes to accurate species identification of this newly emerging oak pest.

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DNA barcoding the Lepidoptera inventory of a large complex tropical conserved wildland, Area de Conservacion Guanacaste, northwestern Costa Rica

Genome ◽

10.1139/gen-2016-0005 ◽

2016 ◽

Vol 59 (9) ◽

pp. 641-660 ◽

Cited By ~ 47

Author(s):

Daniel H. Janzen ◽

Winnie Hallwachs

Keyword(s):

Costa Rica ◽

Dna Barcoding ◽

Dna Barcode ◽

Species Level ◽

Data Systems ◽

Species Discovery ◽

Life Data ◽

And Behavior ◽

Specimen Identification ◽

Biodiversity Information

The 37-year ongoing inventory of the estimated 15 000 species of Lepidoptera living in the 125 000 terrestrial hectares of Area de Conservacion Guanacaste, northwestern Costa Rica, has DNA barcode documented 11 000+ species, and the simultaneous inventory of at least 6000+ species of wild-caught caterpillars, plus 2700+ species of parasitoids. The inventory began with Victorian methodologies and species-level perceptions, but it was transformed in 2004 by the full application of DNA barcoding for specimen identification and species discovery. This tropical inventory of an extraordinarily species-rich and complex multidimensional trophic web has relied upon the sequencing services provided by the Canadian Centre for DNA Barcoding, and the informatics support from BOLD, the Barcode of Life Data Systems, major tools developed by the Centre for Biodiversity Genomics at the Biodiversity Institute of Ontario, and available to all through couriers and the internet. As biodiversity information flows from these many thousands of undescribed and often look-alike species through their transformations to usable product, we see that DNA barcoding, firmly married to our centuries-old morphology-, ecology-, microgeography-, and behavior-based ways of taxonomizing the wild world, has made possible what was impossible before 2004. We can now work with all the species that we find, as recognizable species-level units of biology. In this essay, we touch on some of the details of the mechanics of actually using DNA barcoding in an inventory.

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Imagining Sisyphus happy: DNA barcoding and the unnamed majority

Philosophical Transactions of the Royal Society B Biological Sciences ◽

10.1098/rstb.2015.0329 ◽

2016 ◽

Vol 371 (1702) ◽

pp. 20150329 ◽

Cited By ~ 13

Author(s):

Mark Blaxter

Keyword(s):

Dna Barcoding ◽

Time Frame ◽

Morphological Identification ◽

Dna Barcodes ◽

Species Definition ◽

Operational Taxonomic Units ◽

The Earth ◽

Biodiversity Science ◽

Reasonable Time Frame

The vast majority of life on the Earth is physically small, and is classifiable as micro- or meiobiota. These organisms are numerically dominant and it is likely that they are also abundantly speciose. By contrast, the vast majority of taxonomic effort has been expended on ‘charismatic megabionts’: larger organisms where a wealth of morphology has facilitated Linnaean species definition. The hugely successful Linnaean project is unlikely to be extensible to the totality of approximately 10 million species in a reasonable time frame and thus alternative toolkits and methodologies need to be developed. One such toolkit is DNA barcoding, particularly in its metabarcoding or metagenetics mode, where organisms are identified purely by the presence of a diagnostic DNA sequence in samples that are not processed for morphological identification. Building on secure Linnaean foundations, classification of unknown (and unseen) organisms to molecular operational taxonomic units (MOTUs) and deployment of these MOTUs in biodiversity science promises a rewarding resolution to the Sisyphean task of naming all the world's species. This article is part of the themed issue ‘From DNA barcodes to biomes’.

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