RRC ID 73212
著者 Boyle BL, Maitner BS, Barbosa GGC, Sajja RK, Feng X, Merow C, Newman EA, Park DS, Roehrdanz PR, Enquist BJ.
タイトル Geographic name resolution service: A tool for the standardization and indexing of world political division names, with applications to species distribution modeling.
ジャーナル PLoS One
Abstract Massive biological databases of species occurrences, or georeferenced locations where a species has been observed, are essential inputs for modeling present and future species distributions. Location accuracy is often assessed by determining whether the observation geocoordinates fall within the boundaries of the declared political divisions. This otherwise simple validation is complicated by the difficulty of matching political division names to the correct geospatial object. Spelling errors, abbreviations, alternative codes, and synonyms in multiple languages present daunting name disambiguation challenges. The inability to resolve political division names reduces usable data, and analysis of erroneous observations can lead to flawed results. Here, we present the Geographic Name Resolution Service (GNRS), an application for correcting, standardizing, and indexing world political division names. The GNRS resolves political division names against a reference database that combines names and codes from GeoNames with geospatial object identifiers from the Global Administrative Areas Database (GADM). In a trial resolution of political division names extracted from >270 million species occurrences, only 1.9%, representing just 6% of occurrences, matched exactly to GADM political divisions in their original form. The GNRS was able to resolve, completely or in part, 92% of the remaining 378,568 political division names, or 86% of the full biodiversity occurrence dataset. In assessing geocoordinate accuracy for >239 million species occurrences, resolution of political divisions by the GNRS enabled the detection of an order of magnitude more errors and an order of magnitude more error-free occurrences. By providing a novel solution to a significant data quality impediment, the GNRS liberates a tremendous amount of biodiversity data for quantitative biodiversity research. The GNRS runs as a web service and is accessible via an API, an R package, and a web-based graphical user interface. Its modular architecture is easily integrated into existing data validation workflows.
巻・号 17(11)
ページ e0268162
公開日 2022-11-14
DOI 10.1371/journal.pone.0268162
PII PONE-D-22-11796
PMID 36374834
PMC PMC9662723
MeSH Biodiversity* Databases, Factual Names* Reference Standards
IF 2.74
リソース情報
GBIF Fern (Pteridophyta) specimens of Toyama Science Museum Plant specimens of Ishikawa Museum of Natural History Pteridophyte specimens of Okinawa Prefectural Museum & Art Museum Bryophyte specimens of Kanagawa Prefectural Museum of Natural History Bryophyte Specimens of Ishikawa Museum of Natural History (ISKW) Plant Specimens of The Cattle Museum Long-term fauna and flora records of the experimental forests of the Forest Research Station of Hokkaido University, Japan Spermatophyte collection of Himeji City Science Museum Plant specimens of Toyota City Nature Sanctuary Plant specimens of Tochigi Prefectural Museum Plant specimens of Nasunogahara Museum Ferns and Lycophytes Specimens of Kawasaki Municipal Science Museum Asia-Pacific Dataset Spermatophyta Specimens of Kawasaki Municipal Science Museum Gunma Museum of Natural History, Bryophyta Specimen Plant Specimen Database of Tama Forest Science Garden, Forestry and Forest Products Research Institute, Japan Marine Biological Sample Database, JAMSTEC Plant specimens of Otaru Museum Plant specimens of Komatsu City Museum Biological Resource Center, Department of Biotechnology, National Institute of Technology and Evaluation Seaweed (Plantae) Collection of the Seto Marine Biological Laboratory, Kyoto University Bacteria Collection of the Seto Marine Biological Laboratory, Kyoto University Algae collection of Museum of Natural and Environmental History, Shizuoka Flora of Japan Specimen Database Bryophyte specimens of Nagano Environmental Conservation Research Institute, Nagano Prefecture Plant specimens of Horaiji-san Museum of Natural History Toji K. collection The 6-7th National Survey on the Natural Environment: Vegetation Survey Vascular Plant Specimens of Yamagata Prefectural Museum Nagoya-Plants Vascular plant specimens of Omachi Alpine Museum Plant specimens of Natural History Museum, Kishiwada City Vascular Plants Specimens of Ehime Prefectural Science Museum Plant Specimens collections of the Kyushu University Museum Vascular Plants Collection of National Museum of Nature and Science Bryophyte specimens of Iwate Prefectural Museum Vascular plant specimens of Akita Prefectural Museum Vascular plants database of Atsugi City Museum Herbarium, University Archives and Collections, Fukushima University, Japan (FKSE) Bryophytes specimens of Okinawa Prefectural Museum & Art Museum Angiospermatatophytina Collection of Saitama Museum of Natural History Gymnospermatatophytina Collection of Saitama Museum of Natural History Bryophyta Collection of Saitama Museum of Natural History Vascular plant specimens of Iida City Museum AIS Wildtype Populations of Arabidopsis Plant specimens of Oiso Municipal Museum Herbarium of Hokkaido University Museum (SAPS) Bryophyte Collection of Natural History Museum and Institute, Chiba Vascular Plant Collection of Natural History Museum and Institute, Chiba 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 Pteridophyta specimens of Iwate Prefectural Museum Pteridophyta collection of Museum of Natural and Environmental History, Shizuoka Spermatophyta collection of Museum of Natural and Environmental History, Shizuoka Ibaraki Nature Museum, Bryophyta collection Ibaraki Nature Museum, Fungi collection Ibaraki Nature Museum, Algae collection Ibaraki Nature Museum, Vascular Plants collection Japan Collection of Microorganisms, RIKEN BioResource Center Lichen specimens of National Museum of Nature and Science (TNS) Bryophyte specimens of National Museum of Nature and Science (TNS) Macroalgal collection of National Museum of Nature and Science (TNS) Vascular plant specimens of National Museum of Nature and Science (TNS) Plant Specimens of Kurashiki Museum of Natural History Herbarium Specimens of Tokushima Prefectural Museum, Japan Herbarium of Kitakyushu Museum of Natural History and Human History Bryophyte specimens database of Mr. Tsutomu Kodama collection Plant Specimens of Lake Biwa Museum Spermatophyta specimens of Iwate Prefectural Museum Vascular Plants Collection of Sagamihara City Museum Plant specimens in the Museum of Nature and Human Activities, Hyogo Prefecture, Japan Plant specimens of Taga Town Museum, Shiga Pref., Japan Plant specimens deposited in Osaka Museum of Natural History, Japan Vascular Plant Specimens of Kochi Prefectural Makino Botanical Garden Plant Specimens of Wakayama Prefectural Museum of Natural History Plant Specimens of The Shimane Nature Museum of Mt. Sanbe Bryophyte specimens of The Nagoya University Museum Plant specimens of Kiritappu Wetland Center Coastal Ecosystem Monitoring in the Tsugaru strait side of Shimokita Vascular Plant Specimen database of Kanagawa Prefectural Museum of Natural History Gunma Museum of Natural History, Vascular Plant Specimen Fungi specimen database of Kanagawa Prefectural Museum of Natural History Vascular plants collection of Hiratsuka City Museum Plant specimens of Kushiro City Museum Algae specimens of Kanagawa Prefectural Museum of Natural History Monitoring records of plant species in the Hakone region of Fuji-Hakone-Izu National Park, Japan, 2001-2010 Fossil specimens of Iwate Prefectural Museum Plant specimens of Horaiji-san Museum of Natural History Kichi T. collection Spermatophytes collection of Okinawa Prefectural Museum & Art Museum Fossil Specimens of Ibaraki Nature Museum Genebank, National Institute of Agrobiological Sciences Fossil Specimens of Komatsu City Museum Plant specimens of Bihoro Museum Microbial Culture Collection, National Institute for Environmental Studies Plant specimens of Mie Prefectural Museum Herbarium Specimens of Bonin and Ryukyu Islands A crowdsourcing approach to collecting photo-based insect and plant observation records Vascular plant specimens of Sugadaira Research Station, Mountain Science Center, University of Tsukuba Bryophyte specimens of Toyama Science Museum Occurrence data of woody plants in the Ginkakuzi-san National Forest Herbarium of Shinshu University Plant specimens of Parthenon Tama Museum (PTHM) Plant specimens of Obihiro Centennial City Museum Vascular plant specimens of Nagano Environmental Conservation Research Institute, Nagano Prefecture Plant Observation Records of Japan Botanical Specimens of Kaizuka City Museum of Natural History (KCMN) Tracheophyta collection of Biodiversity Center of Japan, Ministry of the Environment Vascular plant specimens of The Shirakami Research Center for Environmental Sciences, Hirosaki University Vascular plant specimens of Aomori City Forestry Museum Asahikawa Educational College herbarium JODC Dataset Plant specimens of the Museum of Yamagata University Plant specimens of Toyota City Nature Sanctuary (from non-museum circle) Brown algae specimens of Komatsu City Museum Vascular plant specimens of Toyama Science Museum A Specimen List of Hymenophyllaceae of Seram and Ambon collected on Indonesian-Japanese botanical expeditions 1983–1986 Plant specimens of Takatsuki Nature Museum (Aquapia Akutagawa)