cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.20783/dias.jle.11
title: 5- and 10-km mesh datasets of agricultural land use based on governmental statistics for 1970–2005

description: Land use data serve as an essential part of large-scale ecological research, such as landscape ecology and macroecological studies. For agricultural fields in Japan, existing time series statistical records can be used to convert map data according to a map of municipality units. In this data paper, we determined the areas of agricultural land use in Japan from 1970 to 2005, excluding small islands, at spatial resolutions of 5- and 10-km mesh grid units, which are often referred to as the Five-fold Mesh and Japanese Second-order Mesh, respectively. The elements considered included total farmland, paddy fields, dry farmland, and orchards. In 2005, we included abandoned agricultural areas because the related data were available in the agricultural statistical records. The source data came from the Census for Agriculture, Forestry and Fisheries conducted by the Ministry of Agriculture, Forestry and Fisheries, Japan. The Datum was the Japanese Geodetic Datum 2000 (JGD2000). All of the datasets have open data licenses under the rules of the Creative Commons CC-BY 4.0 International (https://creativecommons.org/licenses/by/4.0/legalcode).
DOI: 10.3535/dnd-zrk-lc6
title: Rubus idaeus L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.12
title: Compilation of Japanese fisheries statistics for the Japanese eel, Anguilla japonica, since 1894: a historical dataset for stock assessment

description: Fishery sustainability and the extinction risk of the Japanese eel, Anguilla japonica, are of global concern. The landings of the Japanese eel in Japan comprise a large part of the landings in East Asia. This study provides a compiled dataset of the annual fisheries statistics of the Japanese eel in Japan for stock assessment. The Japanese government has been recording Japanese eel statistics annually since 1984 in five series of annual reports by conducting systematic questionnaire surveys of fisheries managers and associations; however, most of these data are stored in analog format. The key variables in the dataset include the harvest weight of eels, the harvest weight and number of seeds for aquaculture, the number of eels stocked, and the number of management entities engaged in the eel fishery. The levels of spatial aggregation of the variables include the site (river and lake), prefecture, inland and coastal waters, and total in Japan. We also incorporated location data (latitude and longitude) of the site and prefecture into the dataset. Eel harvest includes primarily yellow eels (late juvenile stage) and silver eels (mature stage). Seed harvest in inland waters includes glass eels (intermediate stage between leptocephalus and elver) and elvers (early juvenile stage). Seed harvest from coastal waters comprises glass eels. This dataset provides information to assess long-term trends in the Japanese eel population.
DOI: 10.20783/dias.jle.16
title: Monitoring of the ground-dwelling beetle community and forest floor environment in 22 temperate forests across Japan

description: This data paper reports census data of ground-dwelling beetle and other fauna of the forest floor environment; collections were made from a network of 22 forest sites in Japan. To our knowledge, this represents the largest dataset for long-term monitoring of a ground-dwelling beetle community and other taxa in a ground environment in forests, which covers a broad climatic range in the temperate zone and is freely available. The network forms part of the Monitoring Sites 1000 Project launched by the Ministry of the Environment, Japan. It covers subalpine, cool- and warm-temperate and subtropical climatic zones and the four major forest types of Japan. Thirty three permanent plots usually 1 ha in size were established in old-growth, secondary natural and a few plantation forests. Censuses of the ground-dwelling beetle community were conducted using pitfall trapping and forest floor environment monitoring every year from 2004 to the present. During the initial 9 years of the census (2004-2012), 59,762 beetle individuals (including 3,182 larvae) of more than 314 species were recorded. This dataset includes taxonomy and biomass of each beetle individual and each taxonomic group of other invertebrates coincidently captured in pitfall trapping. The dataset also includes data related to ground coverage by forest floor vegetation, dry mass of the accumulated organic litter layer, and carbon and nitrogen contents and cellulose decomposition rate in organic layer and surface mineral soil. The data could be used to investigate geographical patterns and intra- and inter-annual dynamics of individual body mass, populations and community structures of ground-dwelling beetles, and their relationships with the forest floor environment. Furthermore, the data could be analyzed with other open datasets related to tree community dynamics and litter fall continuously measured in the same study plots. This dataset also provides information related to the distribution and average body mass of each beetle species.
DOI: 10.3535/dne-wpx-6g0
title: Persicaria foliosa (H. Lindb.) Kitag.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.13
title: Photosynthesis and primary production in Lake Kasumigaura (Japan) monitored monthly since 1981

description: This study reports the primary production of phytoplankton determined with a 13C tracer, and their related variables, in Lake Kasumigaura, a shallow, hyper-eutrophic lake, and the second largest lake in Japan. Measurements were conducted monthly from August 1981 to March 2015 at four stations within the lake. Monitoring was a component of the Lake Kasumigaura Long-term Environmental Monitoring program, conducted by the National Institute for Environmental Studies (NIES) since 1977. The program collects data on water quality, and plankton and benthic communities. Lake Kasumigaura is registered as a core site of the Japan Long-term Ecological Research Network (JaLTER), which is a member of the International Long-term Ecological Research Network (ILTER). This dataset includes daily primary production Pzd: gC m-2 d-1) and the six parameters required to calculate Pzd: maximum photosynthesis rate (Pmax : gC gC-1 h-1); light irradiance at the junction of the initial slope (α: (gC gC-1 h-1)(μmol photon m-2 s-1)-1) and Pmax of the photosynthesis vs. irradiance (P vs. E) curve (Ek: μmol photon m-2 s-1); attenuation coefficient of photosynthetically available radiation (PAR) (KPAR: m-1); water depth at each sampling station (Zb, m); dissolved inorganic carbon (DIC: mgC L-1) and particulate organic carbon concentrations (POC: gC m-3); and chlorophyll a amounts (Chl.a: μg L-1). Daily primary production was calculated by obtaining a P vs. E curve over a short-term incubation (approximately 1 h) ina water tank using in situ water temperature in the laboratory, based on the field conditions of the sampling date. The dataset has been used for ecological studies as well as for management studies on water quality and ecosystems. This dataset is unique among the available published papers concerning lakes or primary production in various ecosystems, collected over a long period of time and freely available.
DOI: 10.3535/dne-y6y-46r
title: Plantae

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.14
title: Larval host records of butterflies in Japan

description: Using Japanese literature, we created a consolidated list of host records of butterflies in Japan. The list used the host records described in eight major illustrated reference books, two checklists, and 14 other pieces of literature. The presence of larvae on plants, the observation of larvae eating plants or insects in the field were considered as host records. We collected all species recorded in Japan. Scientific, family, and Japanese names of butterflies were consolidated using the BINRAN database (http://binran.lepimages.jp/). Scientific and Japanese names of host plants were based on the YList database (http://ylist.info/). If scientific names of host plants were not found in YList, we used scientific names based on The Plant List (http://www.theplantlist.org/). Family names of host plants were based on the Catalogue of Life database (http://www.catalogueoflife.org/). Scientific, family, and Japanese names of host insects were based on the MOKUROKU database (http://konchudb.agr.agr.kyushu-u.ac.jp/mokuroku/) for Hymenoptera and the catalogue of the Paraneoptera of Japan published by the Entomological Society of Japan for Hemiptera. We also provided the references of each host record and the original names described in the referred literature. Two datasets, HostDB and ReferenceDB, were created to include 3600 records of butterfly larval hosts in Japan, along with scientific and Japanese names of each species and a literature list. These datasets will be useful for basic and applied biological studies of butterflies. Data files are stored in the Ecological Research Data Archives (http://db.cger.nies.go.jp/JaLTER/ER_DataPapers/) and available from http://hostbj.lepumus.net/. These datasets are published under the Creative Commons License Attribution-ShareAlike 4.0 (CC BY-SA, https://creativecommons.org/licenses/by-sa/4.0/).
DOI: 10.3535/dne-zwl-9a8
title: Ribes L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-3x6-wxr
title: Rosa majalis Herrm.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-5c3-zr1
title: Rumex pseudonatronatus (Borbás) Borbás ex Murb.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.15
title: Mammal assemblages recorded by camera traps inside and outside the evacuation zone of the Fukushima Daiichi Nuclear Power Plant accident

description: In 2011, the Fukushima Daiichi Power Plant accident resulted in the evacuation of about 81,000 people from the evacuation zone, which suffered from high levels of radioactive contamination. Large-scale and long-term land abandonment can cause changes in species assemblages. Despite the extensive global attention this incident received, open and spatially-explicit datasets of mammal fauna from Fukushima remain quite limited. We established a continuous monitoring protocol using camera traps for mammals both inside and outside the evacuation zone; this paper presents the dataset. These data represent the monitoring results from 46 camera traps from May 2014 to June 2021, including the location and actuation time of each camera, and the list of video records. After the publication of this initial data paper, we intend to continue monitoring until 2023 and the dataset will be hereafter updated with new observations.
DOI: 10.3535/dnf-avq-kwy
title: Poa angustifolia L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-gsv-p7a
title: Persicaria amphibia (L.) Gray

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-j9f-pnm
title: Trifolium pratense L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.19
title: Comprehensive dataset of mangrove tree weights in Southeast Asia

description: We assembled a dataset tabulating the weights of Thai and Indonesian mangrove trees that we measured between 1982 and 2001. We selected four Thai study sites in Phang Nga, Ranong, Satun, and Trat provinces and one site in eastern Indonesia on Halmahera Island in Maluku Province. The stands in Ranong Province and on Halmahera Island were in primary forests with data collected in the 1980s and the remaining stands were in secondary forests with data collected later. We collected 124 tree samples from ten species (Avicennia alba, Bruguiera cylindrica, B. gymnorrhiza, Ceriops tagal, Rhizophora apiculata, R. mucronata, Sonneratia alba, S. caseolaris, Xylocarpus granatum, and X. moluccensis) and measured the root weights of 32 individuals of nine species (A. alba, B. cylindrica, B. gymnorrhiza, C. tagal, R. apiculata, R. mucronata, S. alba, S. caseolaris, and X. granatum). All sampled trees were subjected to a standardized protocol to obtain aboveground weights. The trunks were divided into horizontal segments from which the leaves and branches were collected separately. Roots were collected by winching them out of the ground, by trench digging, or by complete excavation. Thus, we were able to compile the weights of the trunk, branches, leaves, and roots of each tree sampled. Aerial roots were included in root weight measurements, although they were collected above ground. We compiled separate lists of trunk diameters, trunk heights, heights of the lowest living branches, and the heights of aerial roots on the trunks of trees in different size categories. Our dataset includes a wide range of tree sizes (maximum trunk diameter: 48.9 cm), geographical locations (1°10′N–12°24′N, 98°32′E–123°49′E) and organ weights (trunks, branches, leaves, and roots), and therefore should prove useful in future biomass studies of mangrove forests.
DOI: 10.3535/dnf-m6r-fw6
title: Saxifraga hirculus L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-xef-94r
title: Juncus articulatus L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.18
title: Zooplankton abundance in the pelagic region of Lake Kasumigaura (Japan): Monthly data since 1980

description: Microscopic crustaceans (cladocerans and copepods) and rotifers are the principal zooplankton components of the pelagic food webs in lakes. They play important ecological roles, functioning as essential links between primary producers and planktivorous fish. Individuals zooplankton are important nodes of matter flow in pelagic ecosystems. The zooplankton community structure can provide useful indicators of top-down processes, such as the magnitude or strength of planktivorous predators and the extent of zooplankton grazing. Here we report the abundance of zooplankton taxa (crustaceans and rotifers) that were recorded monthly, from January 1980 to September 2015, at two stations on Lake Kasumigaura, a shallow eutrophic lake that is the second largest lake in Japan. The data include information on 12 copepod species (taxa), 20 cladoceran species (taxa), 40 rotifer species (taxa), and the opossum shrimp (Neomysis intermedia). In the 1980s, the plankton of the lake were characterized by cyanobacterial blooms and the co-dominance of Bosmina and Diaphanosoma in the summer. In addition, the two cladoceran genera, Daphnia galeata and Chydorus sphaericus were often prominent. The plankton profile changed dramatically in the middle (1997–2004) of the present long-term monitoring period, when cyanobacteria disappeared and diatoms became dominant even in the summer; concurrently, only the Diaphanosoma cladocerans were evident. However, in the past 10 years , cyanobacterial blooms, the co-dominance of Bosmina and Diaphanosoma, and D. galeata have re-emerged. Zooplankton monitoring forms part of the Lake Kasumigaura Long-Term Environmental Monitoring Program, which has been conducted by the National Institute for Environmental Studies (NIES) since 1977. Data on other planktonic components (phytoplankton and the elements of microbial food webs) noted during monitoring and on primary production were published in Takamura and Nakagawa (2012ab; 2016). Lake Kasumigaura is a core site of the Japan Long-term Ecological Research Network, a member of the International Long-term Ecological Research Network. Our quantitative dataset spanning several decades is unique in terms of the work on lakes and the plankton therein, and is freely available. The dataset has been used in ecological and environmental programs, as well as in studies on lake management.
DOI: 10.3535/dnf-zfj-73y
title: Salix acutifolia Willd.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dnf-zxt-fwa
title: Koeleria spicata (L.) Barberá, Quintanar, Soreng & P.M.Peterson

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.20
title: Allometric and growth data of an evergreen oak, Quercus glauca, in a secondary broadleaved forest

description: The evergreen oak Quercus glauca often dominates secondary broadleaved forests in Western Japan. It is regarded as a mid-successional species, whose diameter and height growth fall between those of early- and late-successional species. Despite the ecological importance of this evergreen oak in the secondary succession of the evergreen broadleaved forest zone in Japan, tree-felling data that allow estimations of tree mass and leaf area from non-destructive measurements are lacking. This paper provides stem growth data, read from tree rings on disks sampled from 13 Q. glauca stems, and their allometric data. The samples were collected in 1994 from the Ginkakuji-san National Forest, Kyoto City, Japan. Allometric data comprised data on stem age, diameter at breast height, diameter at 10 % height, tree height, height of the lowest living branch, height of the lowest living leaf in the crown, volume of the main stem, squared stem diameter just below the lowest living branch, total leaf area of the stem, dry weight of the total leaves, dry weight of all branches, dry weight of the main stem, total aboveground dry weight, mean relative photosynthetic photon flux density (PPFD) above the crown, mean relative PPFD below the crown, crown projection area, and specific leaf area. These data can be helpful for estimating the biomass and leaf area index of a Q. glauca stand by enabling the derivation of allometric relationships between non-destructive measurements (such as stem diameter at breast height, and tree height) and tree mass or leaf area. Diameters (including bark thickness) at ground height and above (at 0.5- or 1-m intervals) for each stem are also provided. Stem growth data were based on tree-ring reads from disks taken from heights of 0.0 m and 0.3 m, and at 0.5-m (stem height &lt; 7 m) or 1.0-m (stem height ≥ 7 m) intervals above that. Stem volume growth derived from these tree-ring data can be converted into stem mass growth if combined with an analysis of the allometric data, which may serve as a useful resource for the estimation of carbon fixation by evergreen oaks in relation to global climate change.
DOI: 10.3535/dng-ceh-v5a
title: Noccaea Moench

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dng-cqx-129
title: Anemone nemorosa L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.22
title: Seasonality of leaf litter and leaf area index data for various tree species in a cool-temperate deciduous broad-leaved forest, Japan, 2005–2014

description: This paper reports seasonal data regarding leaf litter for 14 deciduous broad-leaved species and one evergreen coniferous species as well as leaf area index (LAI) data for the 14 deciduous broad-leaved species in a cool-temperate deciduous broad-leaved forest in Japan. The seasonal leaf biomass of various tree species is important for accurately evaluating ecosystem functions such as photosynthesis and evapotranspiration under climate change. However, there is a lack of freely available, long-term data. We collected litterfall every 1 to 4 weeks from September or October to November or December each year from 2005 to 2014 in Takayama, Japan (36° 08′ 46″N, 137° 25′ 23″E, 1420 m a.s.l.). After sorting the litter into leaves (according to species categories), stems + branches, and "other", we dried and weighed the litter groups. We also collected seasonal leaf data (number of leaves and leaf length and width) for each broad-leaved species, which we recorded every 1 to 4 weeks from April or May to October or November using multiple target shoots. To estimate the LAI in autumn for each deciduous broad-leaved species, we used a semi-empirical model of the vertical integration of leaf dry mass per unit leaf area. To estimate the LAI in spring and summer, we used the relationship between the LAI in autumn and the seasonal leaf data. Our data provide input, calibration, and validation parameters for determining LAI based on satellite remote-sensing observations or radiative transfer models and for use in ecosystem models.
DOI: 10.3535/dng-dzh-189
title: Dianthus superbus L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.5281/zenodo.18004396
title: 2019 01 S29
DOI: 10.3535/dng-exg-05d
title: Malus domestica (Suckow) Borkh.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dng-fks-3q1
title: Trifolium aureum Pollich

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.5281/zenodo.18004395
title: 2019 01 S29
DOI: 10.20783/dias.jle.21
title: Seasonal leaf phenology data for 12 tree species in a cool-temperate deciduous broadleaved forest in Japan from 2005 to 2014

description: This paper reports seasonal data regarding leaf number, leaf length and width, leaf area, leaf angle, and SPAD (leaf chlorophyll content index) for 11 genera (12 species) in a cool-temperate deciduous broadleaved forest in Japan. Knowing the leaf phenology of tree species is important for accurately evaluating the temporal variability of ecosystem functions (e.g., photosynthesis and evapotranspiration) under rapid climate change. However, there is a lack of freely available long-term observation data regarding leaf phenological characteristics for many tree species. We collected leaf phenological data from tagged shoots every 1 to 4 weeks from April or May to October or November each year from 2005 to 2014 in Takayama, Japan (36°08′46″N, 137°25′23″E, 1420 m a.s.l.). We targeted typical dominant, codominant, and understory tree species at the site. To evaluate differences among individuals and between sunlit and shaded leaves, we measured one to four shoots of some species and individuals. Our data provide input, calibration, and validation parameters for a terrestrial ecosystem and for radiative-transfer models and remote-sensing observations.
DOI: 10.3535/dng-gkk-geh
title: Gagea lutea (L.) Ker Gawl.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.