cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.20783/dias.jle.73
title: Database of Japanese semi-natural grassland flora

description: The biodiversity of temperate grasslands can change considerably as a result of social　and climate change. We have compiled information from published studies and created　a database of Japanese semi-natural grassland flora, which contains databases of flora of each grassland, grassland locations, and management methods. This database is useful as a basis for the analysis of changes in the flora of Japanese grasslands as well as for future monitoring. The detailed Metadata for this abstract published in the Data Article section of the journal is available in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2023-01.1/jalter-en.
DOI: 10.20783/dias.jle.77
title: Database of Aquatic Macrophytes in Japanese lakes

description: Macrophytes, comprising aquatic vascular plants, bryophytes and macroalgae, including charophytes, are crucial components of lake ecosystems. Their diversity affects ecosystem functions and services, and they are sensitive to environmental changes, making them effective indicators of lake health. Historical records of macrophyte species composition are essential for evaluating environmental changes and conservation goals. In this study, we compiled a comprehensive database of macrophytes, along with lake and survey information from the literature, providing a historical record of macrophyte biodiversity for lakes in Japan. This database enables the analysis of changes in the flora of Japanese lakes and fluctuations in species distribution, facilitating future monitoring. The complete data set for this abstract published in the Data Article section of the journal is available in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2024-02.1/jalter-en.
DOI: 10.20783/dias.jle.76
title: Dataset of the impacts of invasive alien species (IAS) in Brazil

description: This dataset summarizes the research on the impacts of Invasive Alien Species (IAS) documented in Brazil from 1981 to 2022 and was used to subsidize the Brazilian Platform on Biodiversity and Ecosystem Services (BPBES). Impacts of non-native plants and animals, but not microorganisms and fungi, on terrestrial and aquatic (freshwater and marine) environments were included in this review. Most of the literature reviewed consisted of published articles, plus a few book chapters, dissertations, theses, and reports. We found 1,003 records of ecological and economic impacts (970 negative and 33 positive) caused by 239 different species, as well as effects on people’s well-being. Understanding and assessing all ecological interactions of IAS in nature, as well as evaluating their contributions to humans, can be a complex task. However, the current scientific evidence from Brazil suggests that negative impacts of IAS are far more common than positive impacts, highlighting the importance of avoiding novel introductions. From a conservationist perspective, the simple presence of IAS may cause the negative impact of changing the original structure and processes of nature. This is of special concern in megadiverse countries like Brazil, where interactions among species are multiple and complex. Therefore, we believe this extensive review is an important contribution to the national knowledge of IAS and the improvement of global databases, which must be periodically reviewed. The complete data set for this abstract published in the Data Article section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2024-01.1/jalter-en.
DOI: 10.3535/dmr-png-jgd
title: Ranunculus acris L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-0c1-7rc
title: Salix caprea L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-237-tg9
title: Botrychium boreale Milde

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.82
title: BirdWingData: Wingspan and wing area data of birds compiled from multiple literature sources and original measurements

description: Wing morphology plays a pivotal role in avian flight capabilities and ecological adaptations across diverse environments. Consequently, wing measurement data are used frequently in comparative analyses and hypothesis exploration to understand avian evolution. Among the parameters representing wing morphology, wingspan and wing area are relatively challenging to obtain compared to simpler measures such as wing length and hand-wing index. This study aimed to enhance accessibility to existing wingspan and wing area data by compiling measurements from 25 literature sources, in addition to unpublished data. The dataset covers 856 species across 95 families and 28 orders. Although the inclusion proportion varies widely among orders, ranging from 0 to 100%, this initial dataset forms a foundation for a more comprehensive database on avian wing morphology. The dataset for this abstract published in the Data Article section of the journal is available in electronic format in MetaCat in JaLTER at https://jalter.diasjp.net/data/ERDP-2024-04 The dataset will be updated continuously, with the latest version available on figshare in CSV and Microsoft Excel formats (https://doi.org/10.6084/m9.figshare.23537892.v2).
DOI: 10.3535/dms-7s7-m0t
title: Turritis glabra L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-9n8-0ln
title: Poa angustifolia L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.75
title: Parentage of 920 gray-sided voles (Myodes rufocanus) born in a 3-ha outdoor enclosure between September 1992 and May 1994

description: This dataset provides the estimated birth location, sex, assigned parents, and estimated birth and death dates of 920 gray-sided voles (Myodes rufocanus) born in a 3-ha outdoor enclosure in Sapporo, Japan between September 1992 and May 1994, as well as capture–recapture data for 30 trapping sessions. We introduced 22 males and 25 females from several natural populations into the enclosure in late September 1992. Individuals in the enclosure were captured using live traps every two weeks until late April 1994, except for periods with deep snow cover. The location, body weight, and reproductive status of each vole were monitored throughout the study period. Complementary trapping was performed within the home ranges of breeding females to mark juveniles as early as possible. Upon first capture, each individual was marked by toe clipping for subsequent identification, and the clipped toes were used as DNA samples. For each individual, candidate parents were selected based on female reproduction history and capture points. Parentage then was determined using genotypes at 3–5 microsatellite loci with the CERVUS program. The results show that individuals born in the enclosure (N = 920) were derived from 215 litters, among which multiple males sired 51 litters. We used this database to elucidate the promiscuous mating system and inbreeding-avoidance mechanism of the gray-sided vole and to develop a new method for estimating the frequency of multiple-male mating. This dataset will contribute to future behavioral ecological research on this and other small mammal species. The complete data set for this abstract published in the Data Article section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2023-03.1/jalter-en.
DOI: 10.3535/dms-jcv-j8f
title: Diphasiastrum complanatum subsp. complanatum

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-n08-9qp
title: Carex elongata L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-nxc-fb5
title: Rhynchospora alba (L.) Vahl

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-z5r-ape
title: Goodyera repens (L.) R.Br.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.83
title: Physiological profiling of the soil microbe community using the EcoPlate and assessment of soil properties at 74 planted forest sites across Japan

description: Due to policies supporting large-scale expansion of plantation forestry, about 40% of the forests in Japan are planted forests, such as Japanese cedar (Cryptomeria japonica) and hinoki cypress (Chamaecyparis obtusa). We present the largest freely available EcoPlate dataset for planted forests in Japan, comprising data collected from a network of 74 planted forest sites (114 plots) in regions ranging from cool-temperate to subtropical. The EcoPlate is a 96-well microplate that contains three sets of 31 “response wells” with different carbon substrates. The utilization of each carbon substrate by the microbial community is quantified based on the color development of the well during incubation, providing a multifunctional index of the soil microbial community. Soil properties (water content, carbon, nitrogen, the carbon/nitrogen (C/N) ratio, and pH) essential for interpreting the EcoPlate results were also analyzed. Using a standardized protocol, soil was sampled between July and November 2021. A preliminary principal coordinate analysis (PCoA) was performed on the temporal integration of color density using the 31 substrates. PCo1 explained 36.5% of the variance of the overall absorbance of all substrates. A model of environmental factors, including elevation, and a model of soil properties, including pH, water content, and carbon, were the best-fit models. EcoPlate data allow us to test hypotheses related to community ecology and the ecosystem functions of the soil microbial community in planted forests on a regional scale.
DOI: 10.3535/dmr-nw6-r4x
title: Trifolium spadiceum L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dms-x55-qrf
title: Achnatherum calamagrostis (L.) P.Beauv.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.78
title: Forest monitoring data of 45 plots across the Japanese archipelago during 1980–2021

description: Long-term monitoring of forest tree communities is a basis for elucidating forest structure and dynamics and for evaluating ecosystem functions such as primary production. Because global climate change is changing forest ecosystems from the local to the global scale, it is essential to document long-term monitoring data of forests to examine the temporal and geographical trends of forest changes. We report monitoring data of 45 forest plots (average area 0.69 ha; range 0.0325–6.25 ha) at 27 sites in Japan. These plots are situated within 32.38°N to 43.36°N and at elevations ranging from 8 to 2453 m above sea level. The forest plots include both oldgrowth and secondary forests, and cover various forest biomes, such as warm-temperate evergreen forests, temperate deciduous broadleaved forests, and boreal or sub-alpine coniferous forests. In each plot, all living trees and lianas larger than a certain minimum size (typically 15 cm stem girth at breast height) were repeatedly measured and survival and recruitment of stems were recorded over 5 to 40 years (average 17.3 years). The data are presented in the format used by the Monitoring Sites 1000 Project in Japan (Ishihara et al. 2011) and in the sample-based Darwin Core format. This dataset expands existing open monitoring data for Japanese forests and thereby facilitates further meta-analysis of forest community structures and changes in relation to climate change and other drivers. The complete data set for this abstract is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2024-03.1/jalter-en.
DOI: 10.20783/dias.jle.86
title: Abundance and reproduction behavior data for waterbirds (Anatidae, Rallidae, Charadriiforms, Podicipediforms) breeding in European France based on a probability sampling design

description: Appropriate management of wildlife requires sound knowledge and high-quality data about species distributions, abundance, and trends in numbers. From a legal standpoint, article 12 of the European “Birds” Directive requires Member States to report on breeding populations sizes. Acquiring such data is difficult owing to the wide distribution of most species and the multispecies nature of surveys. We relied on a stratified two-stage spatial sampling design to assess breeding populations size of waterbirds in European France. The data come from 2,428 grid cells of 500 m  500 m surveyed by territory or spot mapping three times at one-month interval between 15 March and 15 June during the springs of 2021 or 2022. Individual bird location within each grid cell and their breeding behavior were recorded. A total of 6,938 grid cell visits were undertaken, yielding 64,731 observations accounting for 132,292 individuals. These data are primarily aimed to assess the breeding population size of the 25 most common waterbirds (the population sizes estimates will be presented in a future article). However, because the location and time of observation of all individuals, as well as their behavior, are recorded, questions such as intra- and interspecific distribution rules, or habitat selection processes, can be addressed with this dataset too. As observers were also incited to record all other species among Anatidae, Rallidae, Charadriiforms and Podicipediforms, this dataset also provides robust original data on exotic and rare birds. The detailed Metadata and complete data set are available in MetaCat in JaLTER at https://jalter.diasjp.net/data/ERDP-2025-02.
DOI: 10.3535/dms-zcb-sh4
title: Alopecurus pratensis L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.79
title: Multimammate rat (Mastomys erythroleucus) capture-mark-recapture data in Bandia (Senegal) between 1984 and 2012

description: Long-term ecological data are of paramount importance to document the effects of global changes on biodiversity and dynamics of populations and communities. The site of Bandia, 70 km southeast of Dakar in western Senegal, has been the scene of numerous ecological studies since the 1970s. In the frame of projects led by researchers of the Institut de Recherche pour le Développement (IRD), rodent populations were monitored at various periods using capture-mark-recapture (CMR) protocols on trapping grids that yielded important datasets on population dynamics and ecology of the main species present. Among them, the Guinea Multimammate Rat Mastomys erythroleucus proved to represent the dominant species. Thus, CMR data were collected on M. erythroleucus between i) November 1975 - March 1981, ii) January 1983 - October 1986, iii) January 1997 - April 2001 and iv) June 2007 - June 2012. Raw data from the 1975-1981 period were not available, but those from the three other periods are now in the IRD data repository DataSuds at https://doi.org/10.23708/YEA5AR. They represent 2556 (re)captures of 1296 Mastomys erythroleucus individuals. They include the identity of each animal captured with some biological attributes (sex, weight at first capture, and reproductive activity), exact date and point of capture (via a trap-specific code) at each trapping occasion, and additional comments that may help to interpret the data. This dataset concerning one of the most widespread rodent species of the Sahelo-Sudanian bioclimatic belt provides information that can be used to address various questions such as outbreak prediction, effects of climate change. The complete data set for this abstract published in the Data Article section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2024-05.1/jalter-en.
DOI: 10.3535/dms-zy0-nj9
title: Sparganium emersum Rehmann

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-07x-r7v
title: Luzula parviflora (Ehrh.) Desv.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-2w0-4m1
title: Oxytropis sordida (Willd.) Pers.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-800-bnz
title: Geum urbanum L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-cj7-nrc
title: Rumex acetosella var. tenuifolius Wallr.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-hst-r7t
title: Vicia cracca L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-pc5-rsv
title: Ruppia maritima L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.84
title: ATL_FISHREF: A 12S mitochondrial reference dataset for metabarcoding Atlantic Fishes frequently caught during scientific surveys in the Bay of Biscay

description: The biodiversity crisis driven by anthropogenic pressures significantly threatens marine ecosystems. The rate of climate change and anthropogenic impacts outpace our traditional observation tools' capabilities, underscoring the urgency for new assessment methods. Environmental DNA (eDNA; DNA traces released by organisms) metabarcoding, a non-invasive method widely developed over the last decade, represents a promising biomonitoring tool thanks to a large spatio-temporal coverage, high detection of rare species and its time and cost effectiveness. However, capturing fish diversity using eDNA requires genetic reference databases, currently lacking. Improving reference databases relies on opportunistic sampling enabling the reporting of sequences for new species. The data provided here consists of barcoding 86 species of fishes over the 12S mitochondrial DNA gene. We generated 156 sequences of the mitochondrial 12S gene adapted to the “Teleo” barcodes from fishes sampled in the Bay of Biscay (BoB; Northeast Atlantic, France) between 2017 and 2019. In addition, we provided for each individual the barcode details (Genbank accession number, chromatograms), a photograph, 5 ecomorphological measures and 11 life-history traits documenting ecological functions (e.g., dispersion, habitat use, diet). Furthermore, we provided the sampling metadata (e.g., date, time, gear, coordinates, 46 depth) and environmental variables measured in situ (e.g., conductivity, water/air temperature). This data set is valuable to improve the Northeast Atlantic eDNA genetic database, thus helping to better understand the effects of environmental forcing in the BoB, a transition zone housing mixed assemblages of boreal, temperate, and subtropical fish species susceptible to display variability in functional traits to adapt to changing conditions. The detailed Metadata for this abstract published in the Data Article section of the journal is available in MetaCat in JaLTER at https://jalter.diasjp.net/data/ERDP-2024-09.
DOI: 10.3535/dmt-w50-e9v
title: Lotus corniculatus L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmt-ylq-1lm
title: Stellaria nemorum L.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.37
title: Long-term (2005–2017) macromoth community monitoring at Mt. Jirisan National Park, South Korea

description: Moths, which are one of the mega-diversity insect groups, play important roles as herbivores in terrestrial ecosystems. Because most moths are nocturnal and easily attracted to lights, the utilization of consistent and uniform sampling methods based on a set of standardized protocols can lead to creation of comparable datasets on regional to global scales. These datasets can be used to address environmental issues such as the biological impacts resulting from climate change and land-use policies. More than 60% of the Korean peninsula is mountainous, and the forests on most mountains are undergoing marked changes related to forest succession and recent climatic variability. Therefore, the present study was conducted to monitor macromoth communities in a mountain ecosystem of Korea. Our study site, Mt. Jirisan National Park is the first national park and the highest mountain on the mainland of South Korea. This mountain range runs 34 km east to west and 26 km north to south, harboring more than 1,400 vascular plant and more than 3,000 insect species. We monitored macromoth communities at six sites in Mt. Jirisan National Park, South Korea from 2005 to 2017, during which time moths were collected from May to October using an ultraviolet bucket trap. The generated dataset, which contains 1,089 species and 40,694 individuals in 20 families, can be used to establish a baseline for development of a network-oriented database to assess the temporal and spatial changes of moths in temperate and tropical forests and the biotic impact of environmental change.
DOI: 10.3535/dmv-61k-gqb
title: Spergula morisonii Boreau

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.20783/dias.jle.88
title: High-resolution digital canopy height models, terrain models, ortho-mosaic photos, and canopy tree crown shapes derived from UAV-borne LiDAR at 22 tree census plots across Japanese natural forests

description: Recent developments in Unmanned Aerial Vehicles (UAVs) and Light Detection and Ranging (LiDAR) technology have enhanced the ability to capture precise three-dimensional forest information at a lower cost. This paper reports four types of high -resolution digital datasets derived from UAV-LiDAR measurements and associated fieldwork. The dataset includes 5 cm resolution Digital Terrain Models (DTMs) and Canopy Height Models (CHMs), ortho-mosaic photos with sub-2.7 cm resolution, and 4328 tree crown polygons with information on 151 species, stem girth at breast height, and canopy height. Data were collected from 22 approximately one-hectare long-term monitoring plots across Japan, spanning major climate zones from subtropical to subarctic. These plots encompass evergreen conifer, broadleaf and conifer mixed, deciduous broadleaf, and evergreen broadleaf forests. UAV surveys were conducted from May 2022 to October 2023. Based on these data, we also report basic profiles of these natural forests: a median slope of 22.2 degrees (ranging from 2.5 to 35.0 degrees across sites), median canopy height of 19.2 m (10.5−25.2 m), median maximum canopy height of 29.4 m (17.6−39.8 m), median gap ratios of 1.7% (0−10.7%) and 7.7% (0−28.9%) depending on gap definitions, and median crown area of 42.9 m² (10.7−80.2 m²) for canopy trees. This dataset is the first publicly available collection of forest structure and individual tree crown information for Japanese natural forests. We hope this dataset will be useful for a wide range of studies and analyses, from site-specific case studies to global-scale meta-analyses. The Metadata is available in MetaCat in JaLTER at https://jalter.diasjp.net/data/ERDP-2025-04.
DOI: 10.3535/dmv-90k-w0d
title: Argentina anserina (L.) Rydb.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmv-a1m-322
title: Carex nigra subsp. juncea (Fr.) Soó

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/dmv-b91-le4
title: Alchemilla acutiloba Opiz

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