A molecular‐based identification resource for the arthropods of Finland

Roslin, Tomas; Somervuo, Panu; Pentinsaari, Mikko; Hebert, Paul D. N.; Agda, Jireh; Ahlroth, Petri; Anttonen, Perttu; Aspi, Jouni; Blagoev, Gergin; Blanco, Santiago Movilla; Chan, D. Susan Willis; Clayhills, Tom; deWaard, Jeremy R; deWaard, Stephanie; Elliot, Tyler; Elo, Riikka; Haapala, Sami; Helve, Eero; Ilmonen, Jari; Hirvonen, Petri; Ho, Chris; Itämies, Juhani; Ivanov, Vladislav; Jakovlev, Jevgeni; Juslén, Aino; Jussila, R.; Kahanpää, Jere; Kaila, Lauri; Kaitila, Jari‐Pekka; Kakko, Ari; Kakko, Iiro; Karhu, Ali; Karjalainen, Sami; Kjærandsen, Jostein; Koskinen, Janne; Laasonen, E. M.; Laasonen, Leena; Laine, Erkka; Lampila, Petri; Lévesque-Beaudin, Valérie; Lu, Liuqiong; Lähteenaro, Meri; Majuri, Pekka; Malmberg, Sampsa; Manjunath, Ramya; Martikainen, Petri; Mattila, Jaakko; McKeown, Jaclyn; Metsälä, Petri; Miklasevskaja, Margarita; Miller, Meredith; Miskie, Renee; Muinonen, Arto; Mukkala, Veli‐Matti; Naik, Suresh; Nikolova, Nadia; Nupponen, Kari; Ovaskainen, Otso; Österblad, Ika; Paasivirta, Lauri; Pajunen, Timo; Parkko, Petri; Paukkunen, Juho; Penttinen, Ritva; Perez, Kate; Pohjoismäki, Jaakko L. O.; Prosser, Sean W. J.; Raekunnas, Martti; Rahulan, Miduna; Rannisto, Meeri; Ratnasingham, Sujeevan; Raukko, Pekka; Rinne, Aki; Rintala, Teemu; Romo, Susana Miranda; Salmela, Jukka; Salokannel, Juha; Savolainen, Riitta; Schulman, Leif; Sihvonen, Pasi; Soliman, Dina; Sones, Jayme E; Steinke, Claudia; Ståhls, Gunilla; Tabell, Jukka; Tiusanen, Mikko; Várkonyi, Gergely; Vesterinen, Eero J.; Viitanen, Esko; Vikberg, Veli; Viitasaari, M.; Vilen, Jussi; Warne, Connor P; Wei, Catherine; Winqvist, Kaj; Zakharov, Evgeny; Mutanen, Marko

doi:10.1111/1755-0998.13510

Cited by 49 publications

(43 citation statements)

References 133 publications

(164 reference statements)

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“…Compared to traditional monitoring, metabarcoding can be time-and cost-efficient [60] and is highly scalable, enabling simultaneous processing of many samples and species. DNA metabarcoding methods can be applied directly to organismal samples, using the storage medium [70] or homogenised bulk samples of collected insects [71]. It is also possible to detect the presence of species from DNA fragments in environmental samples (eDNA), such as water [61], soil [72], or air [73].…”

Section: Molecular Methodsmentioning

confidence: 99%

Emerging technologies revolutionise insect ecology and monitoring

Klink

August

Bas

et al. 2022

Trends in Ecology & Evolution

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144

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Section: Molecular Methodsmentioning

confidence: 99%

Emerging technologies revolutionise insect ecology and monitoring

Klink

August

Bas

et al. 2022

Trends in Ecology & Evolution

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144

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“…Statistics of DNA barcoded Diptera belonging to superfamily Sciaroidea extracted familywise from BOLD as of 14 October 2021. DS-FINPRO is a published dataset on BOLD serving as a Finnish reference library presented by Roslin et al [26]. Norwegian published species are extracted from Elven and Søli [27] with additions on the Mycetophilidae by Kjaerandsen and Søli [24] and some new data extracted from GBIF.…”

Section: The Hype Around Blind Barcode Scanningmentioning

confidence: 99%

“…In the Nordic region, major efforts are being undertaken by local taxonomists to submit morphologically identified specimens, specifically with the aim to build the reference library on BOLD for their local native fauna. These efforts came about through a tight cooperation between the international Barcode of Life (iBOL, Ontario, Canada) via the local node, the Norwegian Barcode of Life (NorBOL, Trondheim, Norway), and the Norwegian Biodiversity Information Centre (NBIC, Trondheim, Norway) in Norway [24,49], and through similar efforts involving the Finnish Barcode of Life (FinBOL, Oulu, Finland) in Finland [26]. These initiatives specifically invited and economically supported local taxonomic experts to build a reference library and, as a result of this, the reference library is approaching full Nordic coverage for several of the Sciaroidea families (Table 1).…”

Section: The Nordic Initiative To Build a Reference Library Of Sciaroideamentioning

confidence: 99%

“…Roslin et al [26] published a comprehensive reference library of DNA barcodes for the arthropods of Finland and released a new identification tool based on this resource. Disappointingly, the DS-FINPRO library released in this study only covers some 20% of the Nordic Sciaroidea BINs, thus making the identification tool quite incomplete as a source for the identification of Finnish Sciaroidea at this point.…”

Section: The Nordic Initiative To Build a Reference Library Of Sciaroideamentioning

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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“…During the last decade, considerable efforts have been made in several European countries to establish mostly national DNA barcode libraries of regional faunas, with only Finland so far having published a comprehensive reference library for the arthropod fauna [1]. Lepidoptera are furthermore almost completely covered in Norway, The Netherlands, Germany and Austria, although published results only deal with parts of the fauna [2][3][4][5], leaving numerous sequences for private use only.…”

Section: Introductionmentioning

confidence: 99%

An Incomplete European Barcode Library Has a Strong Impact on the Identification Success of Lepidoptera from Greece

Huemer¹,

Mutanen

2022

Diversity

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Species identification by means of DNA barcodes depends essentially on the scope and quality of a relevant reference library. The first analysis of a large number (about 600 morphospecies) of southern European Lepidoptera (Greece: Peloponnese) shows both the advantages and disadvantages with regard to a reliable identification of Mediterranean species. We determined 946 DNA barcode sequences from 47 families, of which 929 sequences from 46 families were successfully assigned to a Barcode Index Number (BIN) in the global Barcode of Life Data Systems (BOLD) database. A species level identification for 485 BINs representing 477 Linnaean names was successful. These taxa include 34 new records for Greece. However, 128 BINs (c. 20% of the inventory) could not be attached to a Linnaean name from referenced sequences available in BOLD. Of these BINs, 99 are new and hence represent unique records for BOLD. Intra- and inter-BIN divergences are presented and discussed. An initial and preliminary in-depth analysis of randomly selected species indicates an incomplete DNA barcode library in terms of Linnean taxa, in addition to a considerable number of probably undescribed species. It is therefore strongly recommended that the already advanced European barcode library of Lepidoptera should be supplemented with not-yet-sequenced taxa from the Mediterranean.

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A molecular‐based identification resource for the arthropods of Finland

Abstract: This is an open access article under the terms of the Creat ive Commo ns Attri bution-NonCo mmercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.

Cited by 49 publications

References 133 publications

Emerging technologies revolutionise insect ecology and monitoring

Emerging technologies revolutionise insect ecology and monitoring

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

An Incomplete European Barcode Library Has a Strong Impact on the Identification Success of Lepidoptera from Greece

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