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芬兰节肢动物的分子鉴定资源。

A molecular-based identification resource for the arthropods of Finland.

作者信息

Roslin Tomas, Somervuo Panu, Pentinsaari Mikko, Hebert Paul D N, Agda Jireh, Ahlroth Petri, Anttonen Perttu, Aspi Jouni, Blagoev Gergin, Blanco Santiago, Chan Dean, Clayhills Tom, deWaard Jeremy, 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 Reijo, Kahanpää Jere, Kaila Lauri, Kakko Ari, Kakko Iiro, Karhu Ali, Karjalainen Sami, Kjaerandsen Jostein, Koskinen Janne, Laasonen Erkki M, Laasonen Leena, Laine Erkka, Lampila Petri, Levesque-Beaudin Valerie, 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, Naik Suresh, Nikolova Nadia, Nupponen Kari, Ovaskainen Otso, Österblad Ika, Paasivirta Lauri, Pajunen Timo, Parkko Petri, Paukkunen Juho, Penttinen Ritva, Perez Kate, Pohjoismäki Jaakko, Prosser Sean, Raekunnas Martti, Rahulan Miduna, Rannisto Meeri, Ratnasingham Sujeevan, Raukko Pekka, Rinne Aki, Rintala Teemu, Miranda Romo Susana, Salmela Jukka, Salokannel Juha, Savolainen Riitta, Schulman Leif, Sihvonen Pasi, Soliman Dina, Sones Jayme, Steinke Claudia, Ståhls Gunilla, Tabell Jukka, Tiusanen Mikko, Várkonyi Gergely, Vesterinen Eero J, Viitanen Esko, Vikberg Veli, Viitasaari Matti, Vilen Jussi, Warne Connor, Wei Catherine, Winqvist Kaj, Zakharov Evgeny, Mutanen Marko

机构信息

Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden.

Department of Agricultural Sciences, University of Helsinki, Helsinki, Finland.

出版信息

Mol Ecol Resour. 2022 Feb;22(2):803-822. doi: 10.1111/1755-0998.13510. Epub 2021 Nov 3.

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.

摘要

为了将通过分子特征鉴定的标本与其他生物学知识联系起来,我们需要由林奈分类法注释的参考序列。在本研究中,我们(1)报告了为一个国家(芬兰)的节肢动物创建了一个全面的DNA条形码参考文库,(2)公布了该文库,以及(3)基于此资源提供了一种针对昆虫和蜘蛛的新鉴定工具。该参考文库包含来自芬兰已知的26437种节肢动物中的11275种(43%)的线粒体DNA细胞色素氧化酶亚基I(mtDNA COI)条形码,其中包括23956种昆虫中的10811种(45%)。为了量化当前参考文库在鉴定准确性方面的提升,我们让1000种芬兰昆虫和蜘蛛物种通过生命条形码数据系统(BOLD)鉴定引擎进行鉴定。其中,仅与新参考文库相比时,91%被正确鉴定到唯一物种;与包含新材料的BOLD相比时,85%被正确鉴定;不包含新材料时,75%被正确鉴定。为了利用这一资源,我们使用新的参考材料训练了一种概率分类学分配工具FinPROTAX,取得了很高的成功率。对于全长条形码区域,在纲、目、科、亚科、族、属和种水平上的分类学分配准确率分别达到99.9%、99.9%、99.8%、99.7%、99.4%、96.8%和88.5%。芬兰节肢动物条形码(FinBOL)参考文库和FinPROTAX可通过芬兰生物多样性信息设施(www.laji.fi)在https://laji.fi/en/theme/protax获取。总体而言,芬兰节肢动物条形码(FinBOL)项目代表了从芬兰分类学界向社会各部门的大规模能力转移。

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