University of Oulu

Roslin, T., Somervuo, P., Pentinsaari, M., Hebert, P. D. N., Agda, J., Ahlroth, P., Anttonen, P., Aspi, J., Blagoev, G., Blanco, S., Chan, D., Clayhills, T., deWaard, J., deWaard, S., Elliot, T., Elo, R., Haapala, S., Helve, E., Ilmonen, J., … Mutanen, M. (2022). A molecular-based identification resource for the arthropods of Finland. Molecular Ecology Resources, 22, 803– 822. https://doi.org/10.1111/1755-0998.13510

A molecular-based identification resource for the arthropods of Finland

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Author: Roslin, Tomas1,2; Somervuo, Panu3; Pentinsaari, Mikko4;
Hebert, Paul D. N.4; Agda, Jireh4; Ahlroth, Petri5; Anttonen, Perttu6,7; Aspi, Jouni8; Blagoev, Gergin4; Blanco, Santiago4; Chan, Dean4; Clayhills, Tom; deWaard, Jeremy4; deWaard, Stephanie4; Elliot, Tyler4; Elo, Riikka9,10; Haapala, Sami; Helve, Eero; Ilmonen, Jari11; Hirvonen, Petri; Ho, Chris4; Itämies, Juhani; Ivanov, Vladislav8; Jakovlev, Jevgeni; Juslen, Aino12; Jussila, Reijo; Kahanpää, Jere10; Kaila, Lauri10; Kaitila, Jari-Pekka; Kakko, Ari; Kakko, Iiro13; Karhu, Ali; Karjalainen, Sami; Kjaerandsen, Jostein14; Koskinen, Janne2,15; Laasonen, Erkki M.; Laasonen, Leena; Laine, Erkka; Lampila, Petri; Levesque-Beaudin, Valerie4; Lu, Liuqiong4; Lähteenaro, Meri16,17; Majuri, Pekka; Malmberg, Sampsa; Manjunath, Ramya4; Martikainen, Petri; Mattila, Jaakko; McKeown, Jaclyn4; Metsälä, Petri; Miklasevskaja, Margarita4; Miller, Meredith4; Miskie, Renee4; Muinonen, Arto; Mukkala, Veli-Matti; Naik, Suresh4; Nikolova, Nadia4; Nupponen, Kari; Ovaskainen, Otso3,18,19; Österblad, Ika; Paasivirta, Lauri; Pajunen, Timo12; Parkko, Petri; Paukkunen, Juho10; Penttinen, Ritva9,10; Perez, Kate4; Pohjoismäki, Jaakko15; Prosser, Sean4; Raekunnas, Martti; Rahulan, Miduna4; Rannisto, Meeri12; Ratnasingham, Sujeevan4; Raukko, Pekka; Rinne, Aki; Rintala, Teemu; Miranda Romo, Susana4; Salmela, Jukka20,21; Salokannel, Juha; Savolainen, Riitta3; Schulman, Leif5,12; Sihvonen, Pasi12; Soliman, Dina4; Sones, Jayme4; Steinke, Claudia4; Stahls, Gunilla12; Tabell, Jukka; Tiusanen, Mikko2; Varkonyi, Gergely22; Vesterinen, Eero J.1,23; Viitanen, Esko; Vikberg, Veli; Viitasaari, Matti; Vilen, Jussi; Warne, Connor4; Wei, Catherine4; Winqvist, Kaj; Zakharov, Evgeny4; Mutanen, Marko8
Organizations: 1Swedish Univ Agr Sci, Dept Ecol, Uppsala, Sweden.
2Univ Helsinki, Dept Agr Sci, Helsinki, Finland.
3Univ Helsinki, Organismal & Evolutionary Biol Res Programme, Helsinki, Finland.
4Univ Guelph, Ctr Biodivers Genom, Guelph, ON, Canada.
5Finnish Environm Inst SYKE, Helsinki, Finland.
6Martin Luther Univ Halle Wittenberg, Inst Biol Geobot & Bot Garden, Halle, Germany.
7German Ctr Integrat Biodivers Res iDiv, Leipzig, Germany.
8Univ Oulu, Ecol & Genet Res Unit, Oulu, Finland.
9Univ Turku, Biodivers Unit, Zool Museum, Turku, Finland.
10Univ Helsinki, Zool Unit, Finnish Museum Nat Hist, Helsinki, Finland.
11Metsahallitus Pk & Wildlife Finland, Vantaa, Finland.
12Univ Helsinki, Finnish Museum Nat Hist Luomus, Helsinki, Finland.
13Forssa Museum Nat Hist, Forssa, Finland.
14UiT Arctic Univ Norway, Arctic Univ Museum Norway, Tromso, Norway.
15Univ Eastern Finland, Dept Environm & Biol Sci, Joensuu, Finland.
16Stockholm Univ, Dept Zool, Div Systemat, Stockholm, Sweden.
17Swedish Museum Nat Hist, Dept Entomol, Stockholm, Sweden.
18Univ Jyvaskyla, Dept Biol & Environm Sci, Jyvaskyla, Finland.
19Norwegian Univ Sci & Technol, Ctr Biodivers Dynam, Dept Biol, Trondheim, Norway.
20Reg Museum Lapland, Arktikum, Rovaniemi, Finland.
21Univ Lapland, Arctic Ctr, Rovaniemi, Finland.
22Finnish Environm Inst SYKE, Biodivers Ctr, Kuhmo, Finland.
23Univ Turku, Dept Biol, Turku, Finland.
Format: article
Version: published version
Access: open
Online Access: PDF Full Text (PDF, 2.5 MB)
Persistent link: http://urn.fi/urn:nbn:fi-fe2022012710462
Language: English
Published: John Wiley & Sons, 2022
Publish Date: 2022-01-27
Description:

Abstract

To associate specimens identified by molecular characters to other biological knowledge, we need reference sequences annotated by Linnaean taxonomy. In this study, we (1) report the creation of a comprehensive reference library of DNA barcodes for the arthropods of an entire country (Finland), (2) publish this library, and (3) deliver a new identification tool for insects and spiders, as based on this resource. The reference library contains mtDNA COI barcodes for 11,275 (43%) of 26,437 arthropod species known from Finland, including 10,811 (45%) of 23,956 insect species. To quantify the improvement in identification accuracy enabled by the current reference library, we ran 1000 Finnish insect and spider species through the Barcode of Life Data system (BOLD) identification engine. Of these, 91% were correctly assigned to a unique species when compared to the new reference library alone, 85% were correctly identified when compared to BOLD with the new material included, and 75% with the new material excluded. To capitalize on this resource, we used the new reference material to train a probabilistic taxonomic assignment tool, FinPROTAX, scoring high success. For the full-length barcode region, the accuracy of taxonomic assignments at the level of classes, orders, families, subfamilies, tribes, genera, and species reached 99.9%, 99.9%, 99.8%, 99.7%, 99.4%, 96.8%, and 88.5%, respectively. The FinBOL arthropod reference library and FinPROTAX are available through the Finnish Biodiversity Information Facility (www.laji.fi) at https://laji.fi/en/theme/protax. Overall, the FinBOL investment represents a massive capacity-transfer from the taxonomic community of Finland to all sectors of society.

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Series: Molecular ecology resources
ISSN: 1755-098X
ISSN-E: 1755-0998
ISSN-L: 1755-098X
Volume: 22
Issue: 2
Pages: 803 - 822
DOI: 10.1111/1755-0998.13510
OADOI: https://oadoi.org/10.1111/1755-0998.13510
Type of Publication: A1 Journal article – refereed
Field of Science: 1181 Ecology, evolutionary biology
1184 Genetics, developmental biology, physiology
Subjects:
COI
Funding: The goals of the FinBOL community could never have realized without financial support from the University of Oulu (2011), Kone foundation (2011-2013), Finnish Cultural Foundation (2012-2014), Finnish Ministry of the Environment (2012), and from 2014, the Academy of Finland through the Finnish Biodiversity Information Facility (FinBIF) infrastructure project on national roadmap. Colleagues in the iBOL community, particularly representatives of the national barcoding initiatives, have provided irreplaceable insights and experience in helping us to steer FinBOL in the right direction. Finally, we thank the Canada Foundation for Innovation, Canada First Research Excellence Fund, Genome Canada, Ontario Genomics, Ontario Ministry of Research and Innovation, and the Ontario Research Excellence Fund for supporting the iBOL consortium, the Centre for Biodiversity Genomics and the BOLD database which played an essential role in enabling both international and national barcoding campaigns. TR and OO were funded by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No 856506; ERC-synergy project LIFEPLAN). OO was funded by Academy of Finland (grant no. 309581), Jane and Aatos Erkko Foundation, Research Council of Norway through its Centres of Excellence Funding Scheme (223257). Manuel Frias provided extensive, invaluable help in creating the figures in this manuscript.
Copyright information: © 2021 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
  https://creativecommons.org/licenses/by-nc/4.0/