A DNA Barcoding Survey of an Arctic Arthropod Community: Implications for Future Monitoring

Pentinsaari, Mikko; Blagoev, Gergin; Hogg, Ian D.; Lévesque-Beaudin, Valérie; Perez, Kate; Sobel, Crystal N; Vandenbrink, Bryan; Borisenko, Alex

doi:10.3390/insects11010046

Cited by 31 publications

(31 citation statements)

References 40 publications

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“…DNA barcoding has tremendous potential for advancing species knowledge and quantifying species-specific distributional and ecological properties for many diverse groups of insects [14,15], potentially paving the way for machine identification and semiautomated monitoring of whole insect faunas [16,17]. Imbedded in the original development of DNA barcoding was, however, an essential subgoal to build a reference library where quality-checked, named specimens identified by means of classical morphological methods and deposited in voucher collections are linked to their barcodes and so-called barcode index numbers (BINs) [18].…”

Section: Figure 3 Google Ngrammentioning

confidence: 99%

“…The superfamily currently makes up approximately 10% of all 160,000 described dipteran flies [2]. A large proportion, probably the vast majority, of the Sciaroidea fauna is still unknown to science, not at least within the superrich and little-studied family Cecidomyiidae, for which estimates based on DNA barcodes from Canada alone have postulated 16,000 species extrapolated up to 1.8 million species worldwide [3]. While that conjecture likely is a gross overestimate, it is no doubt that the Sciaroidea is a very successful evolutionary group, especially in amphitropic latitudes [4], that likely makes up considerably more species diversity than are presently described.…”

Section: Introductionmentioning

confidence: 99%

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Current State of DNA Barcoding of Sciaroidea (Diptera)—Highlighting the Need to Build the Reference Library

Kjærandsen¹

2022

Insects

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DNA barcoding has tremendous potential for advancing species knowledge for many diverse groups of insects, potentially paving way for machine identification and semi-automated monitoring of whole insect faunas. Here, I review the current state of DNA barcoding of the superfamily Sciaroidea (Diptera), a diverse group consisting of eight understudied fly families where the described species in the world makes up some 10% (≈16,000 species) of all Diptera. World data of Sciaroidea were extracted from the Barcode of Life online database BoldSystems (BOLD) and contrasted with results and experiences from a Nordic project to build the reference library. Well over 1.2 million (1,224,877) Sciaroidea specimens have been submitted for barcoding, giving barcode-compliant sequences resulting in 56,648 so-called barcode index numbers (BINs, machine-generated proxies for species). Although the BINs on BOLD already represent 3.5 times the number of described species, merely some 2850 named species (described or interim names, 5% of the BINs) currently have been assigned a BIN. The other 95% remain as dark taxa figuring in many frontier publications as statistics representing proxies for species diversity within a family. In the Nordic region, however, substantial progress has been made towards building a complete reference library, currently making up 55% of all named Sciaroidea BINs on BOLD. Another major source (31%) of named Sciaroidea BINs on BOLD comes from COI sequences mined from GenBank, generated through phylogenetic and integrative studies outside of BOLD. Building a quality reference library for understudied insects such as Sciaroidea requires heavy investment, both pre sequence and post sequence, by trained taxonomists to build and curate voucher collections, to continually improve the quality of the data and describe new species. Only when the BINs are properly calibrated by a rigorously quality-checked reference library can the great potential of both classical taxonomic barcoding, metabarcoding, and eDNA ecology be realized.

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Section: Figure 3 Google Ngrammentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Current State of DNA Barcoding of Sciaroidea (Diptera)—Highlighting the Need to Build the Reference Library

Kjærandsen¹

2022

Insects

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“…Combining community datasets with high throughput DNA barcoding technologies has potential aspects to minimize various logistical, financial, and systematic impediments for large-scale observation. Arctic arthropod community has been explored focusing on Arachnida, Collembola and Insecta to develop 18, 096 (75%) barcodes using mitochondrial COI to be assigned to BINs, having GenBank accession number ranging from MN665381 to MN683476, of 24,198 specimens collected during study (Pentinsaari et al, 2020).…”

Section: Dna Barcoding In Animalsmentioning

confidence: 99%

DNA Barcoding in Plants and Animals: A Critical Review

Ahmed¹

2022

Preprint

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Systematics plays the most crucial role in biodiversity conservation which is at stake due to anthropogenic activities and environmental degradations. The ever-increasing decline of classical taxonomic expertise drives the need to develop molecular marker-based tools for quick, efficient, and reliable detection of organisms, to assess their ecological impacts for deepening our understanding of systematic and evolutionary relationships between organisms which is central to biology. The pace of alpha taxonomy has quickened by its integration with an increasingly fashionable and novel concept called DNA barcoding which utilizes a short genetic marker or barcode to categorize species for enhanced biodiversity assessment. As a supplementary but not complete alternative of systematics research, DNA barcoding, however, not error-free, brings precision in identification by solving existing problems of classical taxonomy and phylogenetics, irrespective of the growth stage of organisms, particularly for known taxa rather than unknown ones. Mitochondrial gene Cytochrome C Oxidase 1 (COI) serves as a universal animal barcode but there is no such universal barcode for plants and developing a suitable one is more challenging. With the recent advancement of Next Generation Sequencing (NGS), DNA metabarcoding technology is advancing rapidly. Still, ambiguity and error prevail with the correct identification of species due to some problems. After extensive analysis of the existing DNA barcoding papers, this review discusses commonly used DNA barcodes in plants and animals, their roles, advantages, limitations to solve existing problems of conservation biology and add the author’s views and recommendations.

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“…A vegetation inventory will be completed for each plot along with data collection for soil pH, moisture and temperature, and soil-associated arthropod species diversity (Lamb et al, 2011;Barney et al, 2013). To sample soilassociated arthropod diversity, a combination of pan traps and soil-sifting will be utilized (Pentinsaari et al, 2020). Hierarchical models will be used to assess differences in species richness and abundance between paired sites.…”

Section: Research Approachmentioning

confidence: 99%

Assessing Spread and Impacts of Non-native Plants from Highway Corridors in the Northwest Territories (NWT), Canada

Singer¹

2022

ARCTIC

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A DNA Barcoding Survey of an Arctic Arthropod Community: Implications for Future Monitoring

Cited by 31 publications

References 40 publications

Current State of DNA Barcoding of Sciaroidea (Diptera)—Highlighting the Need to Build the Reference Library

Current State of DNA Barcoding of Sciaroidea (Diptera)—Highlighting the Need to Build the Reference Library

DNA Barcoding in Plants and Animals: A Critical Review

Assessing Spread and Impacts of Non-native Plants from Highway Corridors in the Northwest Territories (NWT), Canada

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