RRC ID 54222
Author Troudet J, Vignes-Lebbe R, Grandcolas P, Legendre F.
Title The Increasing Disconnection of Primary Biodiversity Data from Specimens: How Does It Happen and How to Handle It?
Journal Syst Biol
Abstract Primary biodiversity data represent the fundamental elements of any study in systematics and evolution. They are, however, no longer gathered as they used to be and the mass-production of observation-based (OB) occurrences is overthrowing the collection of specimen-based (SB) occurrences. Although this change in practice is a major upheaval with significant consequences in the study of biodiversity, it remains understudied and has not attracted yet the attention it deserves. Analyzing 536 million occurrences from the Global Biodiversity Information Facility (GBIF) mediated data, we show that this spectacular change affects the 24 eukaryote taxonomic classes we targeted: from 1970 to 2016 the proportion of occurrences marked as traceable to tangible material (i.e., SB occurrences) fell from 68% to 18%; moreover, most of those specimen based-occurrences cannot be readily traced back to a specimen because the necessary information is missing. Ethical, practical or legal reasons responsible for this shift are known, and this situation appears unlikely to be reversed. Still, we urge scholars to acknowledge this dramatic change, embrace it and actively deal with it. Specifically, we emphasize why SB occurrences must be gathered, as a warrant to allow both repeating evolutionary studies and conducting rich and diverse investigations. When impossible to secure, voucher specimens must be replaced with OB occurrences combined with ancillary data (e.g., pictures, recordings, samples, DNA sequences). Ancillary data are instrumental for the usefulness of biodiversity occurrences and we show that, despite improving technologies to collate them, they remain rarely shared. The consequences of such a change are not yet clear but we advocate collecting material evidence or ancillary data to ensure that primary biodiversity data collected lately do not partly become obsolete when doubtful.
Volume 67(6)
Pages 1110-1119
Published 2018-11-1
DOI 10.1093/sysbio/syy044
PII 5034972
Description NIES data were referenced. BiodiC-J data were referenced.
PMID 29893962
MeSH Biodiversity* Classification / methods* Data Analysis / standards
IF 8.523
Times Cited 6
Resource
GBIF Hemichordata collection of National Museum of Nature and Science Chironomid Specimen records in the Chironomid DNA Barcode Database. Mollusca collection of National Museum of Nature and Science Hymenoptera specimen database of Kyushu University Echinoderm collection of National Museum of Nature and Science Xiphosuran collection of the National Museum of Nature and Science Aschelminth collection of National Museum of Nature and Science Insect species recorded in sugarcane fields of Khon Kaen Province, Thailand, over three seasons in 2012 Sipuncula collection of National Museum of Nature and Science Plant Specimen Database of Tama Forest Science Garden, Forestry and Forest Products Research Institute, Japan Migratory shorebirds (sandpipers and plovers) in Hokkaido Crustacean collection of the National Museum of Nature and Science Hemiptera (Heteroptera) collection of National Museum of Nature and Science Annelida collection of National Museum of Nature and Science Tardigrad collection of the National Museum of Nature and Science Kyushu University Museum Coleoptera Collection Type Collection of the Seto Marine Biological Laboratory, Kyoto University Invertebrate collection of the Seto Marine Biological Laboratory, Kyoto University Mollusca Collection of the Seto Marine Biological Laboratory, Kyoto University Biological Resource Center, Department of Biotechnology, National Institute of Technology and Evaluation Specimens of Class Pycnogonida of Akita Prefectural Museum Arthropoda Collection of the Seto Marine Biological Laboratory, Kyoto University Insect specimens of Oiso Municipal Museum Cnidaria Collection of the Seto Marine Biological Laboratory, Kyoto University Specimens of Class Maxillopoda of Akita Prefectural Museum Seaweed (Plantae) Collection of the Seto Marine Biological Laboratory, Kyoto University Plant specimens of Oiso Municipal Museum Mollusk Collection of Yokosuka City Museum Bacteria Collection of the Seto Marine Biological Laboratory, Kyoto University Bryozoans Specimens of Akita Prefectural Museum Fungal Collection of Natural History Museum and Institute, Chiba Brachiopods Specimens of Akita Prefectural Museum Specimens of Phylum Nemertea of Akita Prefectural Museum Reptiles Specimens of Akita Prefectural Museum Invertebrate specimens of Toyama Science Museum Millipedes Specimens of Akita Prefectural Museum Cnidarians Specimens of Akita Prefectural Museum Specimens of Phylum Porifera of Akita Prefectural Museum Crustacea specimens of Kuroshio Biological Research Foundation Birds Specimens of Akita Prefectural Museum Arthropoda specimens of Toyama Science Museum Pycnogonidea specimens of Kuroshio Biological Research Foundation Hagfishes Specimens of Akita Prefectural Museum Mollusca specimens of Kuroshio Biological Research Foundation Herbarium of Hokkaido University Museum (SAPS) Cephalaspidomorphs Specimens of Akita Prefectural Museum Crustacea specimens of Toyama Science Museum Chromista Collection of the Seto Marine Biological Laboratory, Kyoto University Ascidians Specimens of Akita Prefectural Museum Fish collection of the Kagoshima University Museum Birds collection of Abiko City Museum of Birds Echinoderms Specimens of Akita Prefectural Museum Mollusca Collection of Natural History Museum and Institute, Chiba Bryophyte Collection of Natural History Museum and Institute, Chiba Actinopterygius Specimens of Akita Prefectural Museum Bird specimens of the Yamashina Institute for Ornithology Amphibians Specimens of Akita Prefectural Museum Mollusca specimens of Oiso Municipal Museum Algae collection of Museum of Natural and Environmental History, Shizuoka Vascular Plant Collection of Natural History Museum and Institute, Chiba Centipedes Specimens of Akita Prefectural Museum Echinodermata specimens of Kuroshio Biological Research Foundation Echiurans Specimens of Akita Prefectural Museum Bryophytes specimens of Akita Prefectural Museum Bryophyte Collection of Museum of Natural and Environmental History, Shizuoka Herbarium Specimens of Museum of Nature and Human Activities, Hyogo Pref., Japan Flora of Japan Specimen Database Insect Collection of Saitama Museum of Natural History Mammalians Specimens of Akita Prefectural Museum NIAES microbial inventory, "microForce" microbe collection, Tsukuba, National Institute for Agro-Environmental Sciences, Japan Marine specimens of Misaki Marine Biological Station, Graduate School of Science, The University of Tokyo Malacostracans Specimens of Akita Prefectural Museum Entomological Specimens of Museum of Nature and Human Activities, Hyogo Pref., Japan Observation records of Amphibians Platyhelminth collection of National Museum of Nature and Science Annelids Specimens of Akita Prefectural Museum Pteridophyta specimens of Iwate Prefectural Museum Psocodea (Mallophaga) collection of National Museum of Nature and Science Pteridophyta collection of Museum of Natural and Environmental History, Shizuoka Mollusca specimens of Toyama Science Museum Chondrichthyans Specimens of Akita Prefectural Museum Molluscus specimens of Toyohashi Museum of Natural History Fish specimens of Natural History Museum, Kishiwada City Ibaraki Nature Museum, Arthropoda collection Ibaraki Nature Museum, Mollusk collection Plant specimens of Natural History Museum, Kishiwada City Spermatophyta collection of Museum of Natural and Environmental History, Shizuoka Ibaraki Nature Museum, Mammals collection Bird Specimens in the Museum of Nature and Human Activities, Hyogo, Japan Ibaraki Nature Museum, Fish collection Ibaraki Nature Museum, Birds collection Ibaraki Nature Museum, Bryophyta collection Ibaraki Nature Museum, Amphibians and Reptiles collection Ibaraki Nature Museum, Fungi collection Ibaraki Nature Museum, Algae collection Ibaraki Nature Museum, Lichen collection Shellfish specimens of the Nishinomiya Shell Museum, Japan Fish collection of the Museum of Nature and Human Activities, Hyogo Benthos collection of the Museum of Nature and Human Activities, Hyogo Akita Prefectural Museum, Observation Records of Birds in Akita Prefecture Ibaraki Nature Museum, 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Japan Collection of Microorganisms, RIKEN BioResource Center Fish Collection of Yokosuka City Museum Insect specimens of Natural Museum of Geihoku Fish Collection of Hokkaido University Lichen specimens of National Museum of Nature and Science (TNS) Vascular Plants Specimens of Ehime Prefectural Science Museum Bryophyte specimens of National Museum of Nature and Science (TNS) Crustacean specimens of Kitakyushu Museum of Natural History & Human History Macroalgal collection of National Museum of Nature and Science (TNS) Vascular plant specimens of National Museum of Nature and Science (TNS) Plant Specimens collections of the Kyushu University Museum Myxomycete specimens of National Museum of Nature and Science (TNS) Vertebrate specimens of Kumamoto City Museum Insect specimens of Kashihara City Museum of Insect Marine Invertebrata specimen database of Osaka Museum of Natutal History RIKEN BioResource Center, Experimental Animal Division Plant Specimens of Kurashiki Museum of Natural History Vascular Plants Collection of National Museum of Nature and Science Herbarium Specimens of Tokushima Prefectural Museum, Japan Fish Specimens of Tokushima Prefectural Museum, Japan Insect Specimen Database of Fukui City Museum of Natural History Insect specimens of Omogo Mountain Museum Fish Specimens of Graduate School of Bioresources Mie University Lepidoptera specimen database of Japan Osaka Prefectural Minoh Park Insects Museum Herbarium of Kitakyushu Museum of Natural History and Human History Bryophyte specimens of Iwate Prefectural Museum Bryophyte specimens database of Mr. Tsutomu Kodama collection Fish specimen database of Osaka Museum of Natural History Vascular plant specimens of Akita Prefectural Museum Hymenopteran specimen database of Osaka Museum of Natural History Fish collection of National Museum of Nature and Science Akita Prefectural Museum, Insect Collection Bird collection of National Museum of Nature and Science Crustacea Collection of Natural History Museum and Institute, Chiba Mammal collection of National Museum of Nature and Science Freshwater Fish Specimens of Lake Biwa Museum Marine Invertebrata specimens deposited in the Fukui City Museum of Natural History, Japan Fish Collection of Natural History Museum and Institute, Chiba Plant Specimens of Lake Biwa Museum Insect Specimens Deposited in Saga Prefectural Space and Science Museum, JAPAN Spermatophyta specimens of Iwate Prefectural Museum Apterygota Collection of Saitama Museum of Natural History Rust fungus specimen of Research Group of Plant Parasitic Mycology, Faculty of Life and Environmental Sciences, University of Tsukuba Herpetological collection of National Museum of Nature and Science Mollusca Collection of Saitama Museum of Natural History Fish Collection of Kanagawa Prefectural Museum of Natural History Vascular Plants Collection of Sagamihara City Museum Fungi specimens of Kawasaki Municipal Science Museum Mollusca collection, Museum of Natural and Environmental History, Shizuoka Plant specimens in the Museum of Nature and Human Activities, Hyogo Prefecture, Japan Insect specimens in the Museum of Nature and Human Activities, Hyogo Prefecture, Japan Freshwater Fish specimens of Taga Town Museum, Shiga Pref., Japan Freshwater shellfish specimens of Taga Town Museum, Shiga Pref., Japan Mammals specimens of Taga Town Museum, Shiga Pref., Japan Vascular plants database of Atsugi City Museum Insect specimens of Taga Town Museum, Shiga Pref., Japan Plant specimens of Taga Town Museum, Shiga Pref., Japan Akita Prefectural Museum, Hiroki Watanabe Collection Insect Specimens of Lake Biwa Museum Herbarium, University Archives and Collections, Fukushima University, Japan (FKSE) Coleoptera specimen database of Osaka Museum of Natural History Lepidoptera specimen database of Osaka Museum of Natural History Angiospermatatophytina Collection of Saitama Museum of Natural History Insects specimen database of Osaka Museum of Natural History Gymnospermatatophytina Collection of Saitama Museum of Natural History Araneidae specimen database of Osaka Museum of Natural History Arthropoda (excepting insect) collection of Osaka Museum of Natural History Bryophyta Collection of Saitama Museum of Natural History Bird Collection of Yokosuka City Museum Insect Collection of Yokosuka City Museum Invertebrate (minor phyla) collection of Osaka Museum of Natural History Image Database of Fishes in the Kanagawa Prefectural Museum of Natural History Molluscan collection of Osaka Museum of Natural History Echigo-Matsunoyama Museum of Natural Science, Usuke Shiga butterfly collection Plant specimens deposited in Osaka Museum of Natural History, Japan Insect collection of Itami City Museum of Insects Vascular plant specimens of Iida City Museum Vascular Plant Specimens of Kochi Prefectural Makino Botanical Garden Plant Specimens of Wakayama Prefectural Museum of Natural History Zoological specimens of Gifu Prefectural Museum Plant Specimens of The Shimane Nature Museum of Mt. Sanbe Bryophyte specimens of The Nagoya University Museum Shellfish specimens of Miyazaki Prefecture Museum of Nature and History Bird specimens of Miyazaki Prefecture Museum of Nature and History Pycnogonid collection of the National Museum of Nature and Science Vascular Plant Specimen database of Kanagawa Prefectural Museum of Natural History Scleractinia specimens of Kuroshio Biological Research Foundation Molluscan specimen database of Kanagawa Prefectural Museum of Natural History Mammal specimen database of Kanagawa Prefectural Museum of Natural History Gorgonacea specimens of Kuroshio Biological Research Foundation Orthoptera collection of Hiratsuka City Museum Insect specimen database of Atsugi City Museum AIS Wildtype Populations of Arabidopsis Gunma Museum of Natural History, Vascular Plant Specimen Gunma Museum of Natural History, Fungi Specimen Ehime University Coleoptera Collection Gunma Museum of Natural History, Insect Specimen Sponge collection of National Museum of Nature and Science Gunma Museum of Natural History, Molluscan Specimen Gunma Museum of Natural History, Fish Specimen Gunma Museum of Natural History, Amphibia and Reptile Specimen Gunma Museum of Natural History, Mammal Specimen Insect Collection of Natural History Museum and Institute, Chiba Crustacean specimen database of Kanagawa Prefectural Museum of Natural History Fungi specimen database of Kanagawa Prefectural Museum of Natural History Bird specimen database of Kanagawa Prefectural Museum of Natural History Vascular plants collection of Hiratsuka City Museum Insecta collection of Museum of Natural and Environmental History, Shizuoka Monitoring records of plant species in the Hakone region of Fuji-Hakone-Izu National Park, Japan, 2001-2010 Protochordata collection of National Museum of Nature and Science NODAI Culture Collection Center, Tokyo University of Agriculture, Japan Tentaculata collection of National Museum of Nature and Science Genebank, National Institute of Agrobiological Sciences Coleoptera collection of National Museum of Nature and Science Kamptozoa collection of National Museum of Nature and Science Chaetognatha collection of National Museum of Nature and Science Microbial Culture Collection, National Institute for Environmental Studies Herbarium Specimens of Bonin and Ryukyu Islands Hemiptera (Homoptera) collection of National Museum of Nature and Science Hokkaido University Coleoptera Collection NIAES Coleoptera Specimen Database Lichen specimen database of Faurie collection Plant Observation Records of Japan Protozoa collection of National Museum of Nature and Science Insect collection of Biodiversity Center of Japan, Ministry of the Environment Tracheophyta collection of Biodiversity Center of Japan, Ministry of the Environment Ground Beetle of Japan Specimen Database Coelenterata (Cnidaria and Ctenophora) collection of National Museum of Nature and Science Mesozoa collection of National Museum of Nature and Science Kyoto University Reptile Collection