| Literature DB >> 35383183 |
Krizler C Tanalgo1,2,3,4, John Aries G Tabora5,6, Hernani Fernandes Magalhães de Oliveira7, Danny Haelewaters8,9,10, Chad T Beranek11,12, Aída Otálora-Ardila13,14, Enrico Bernard14, Fernando Gonçalves15,16, Alan Eriksson17, Melissa Donnelly18, Joel Monzón González18,19,20, Humberto Fernández Ramos18,20, Alberto Clark Rivas18,20, Paul W Webala21, Stanimira Deleva22,23, Ridha Dalhoumi24, Jaycelle Maula25, Dennis Lizarro26,27, Luis F Aguirre27,28, Nils Bouillard29, Ma Niña Regina M Quibod30,31,32, Jennifer Barros14, Manfredo Alejandro Turcios-Casco33, Marcio Martínez33, Diego Iván Ordoñez-Mazier33, José Alejandro Soler Orellana33, Eduardo J Ordoñez-Trejo33, Danny Ordoñez33, Ada Chornelia30,31, Jian Mei Lu30, Chen Xing34, Sanjeev Baniya35, Renata L Muylaert36, Leonardo Henrique Dias-Silva37, Nittaya Ruadreo38, Alice Catherine Hughes39,40,41.
Abstract
Understanding biodiversity patterns as well as drivers of population declines, and range losses provides crucial baselines for monitoring and conservation. However, the information needed to evaluate such trends remains unstandardised and sparsely available for many taxonomic groups and habitats, including the cave-dwelling bats and cave ecosystems. We developed the DarkCideS 1.0 ( https://darkcides.org/ ), a global database of bat caves and species synthesised from publicly available information and datasets. The DarkCideS 1.0 is by far the largest database for cave-dwelling bats, which contains information for geographical location, ecological status, species traits, and parasites and hyperparasites for 679 bat species are known to occur in caves or use caves in part of their life histories. The database currently contains 6746 georeferenced occurrences for 402 cave-dwelling bat species from 2002 cave sites in 46 countries and 12 terrestrial biomes. The database has been developed to be collaborative and open-access, allowing continuous data-sharing among the community of bat researchers and conservation biologists to advance bat research and comparative monitoring and prioritisation for conservation.Entities:
Mesh:
Year: 2022 PMID: 35383183 PMCID: PMC8983664 DOI: 10.1038/s41597-022-01234-4
Source DB: PubMed Journal: Sci Data ISSN: 2052-4463 Impact factor: 6.444
Fig. 1A schematic diagram showing the features, contents, and potential applications of the DarkCideS 1.0 database. The database is a centralised, collaborative, and open-access platform that contains information on cave-dwelling bat species and their distribution.
DarkCideS 1.0 includes key traits for all living cave-dwelling bat species (N = 679). General metadata for traits included in the current version of the database: habitat preference, ecological status, feeding groups, geographical range, island endemism, geopolitical endemism, distribution range, biogeographical breadth, generation length, body mass, and threatening process.
| Trait category | Trait (Data name) | Variable type | Data filters | N species | Sources |
|---|---|---|---|---|---|
| Habitat preference | Forest | Binomial | Yes = 1, No = 0 | 586 | IUCN Red List database |
| Savanna | 140 | ||||
| Desert | 45 | ||||
| Urban | 16 | ||||
| Underground | 523 | ||||
| Wetlands | 56 | ||||
| Ecological status and distribution | Population.status | Nominal | Decreasing | 150 | |
| Stable | 161 | ||||
| Increasing | 6 | ||||
| Unknown | 362 | ||||
| Conservation.status | Data.Deficient | 83 | |||
| Least.Concern | 452 | ||||
| Near.Threatened | 54 | ||||
| Vulnerable | 54 | ||||
| Endangered | 25 | ||||
| Critically.Endangered | 11 | ||||
| Geopolitical.endemism | Non.Endemic | 459 | |||
| Endemic | 220 | ||||
| Island.endemism | Island.Endemic | 159 | Phylacine 1.2 | ||
| Mainland | 520 | ||||
| Biogeographic.breadth | Afrotropical | 102 | |||
| Indomalayan | 184 | ||||
| Austral-Oceania | 49 | ||||
| Neotropical | 173 | ||||
| Palearactic | 85 | ||||
| Neactic | 18 | ||||
| Cosmopolitan | 68 | ||||
| Feeding groups | Feeding.groups | Carnivore | 553 | EltonTraits 1.0 | |
| Frugi-nectarivore | 60 | ||||
| Omnivore | 66 | ||||
| Geographical range | Island.endemism | Nominal | Islandic | 160 | Phylacine 1.2 |
| Non-islandic | 521 | ||||
| Current.range | Continuous | N/A | 679 | Phylacine 1.2 | |
| Natural.range | Continuous | N/A | 679 | ||
| Biological traits | Generation.length | Continuous | N/A | 679 | Pacifi |
| Body.mass (grams) | Continuous | N/A | 679 | Phylacine 1.2 | |
| Direct threats | Mining.quarrying | Binomial | Yes = 1, No = 0 | 155 | IUCN Red List database |
| Sacred.activities | 11 | ||||
| Tourism.caving | 226 | ||||
| Guano.extraction | 69 | ||||
| Vandalism | 106 | ||||
| Nest.harvesting | 5 | ||||
| Hunting.bushmeat | 109 | ||||
| Intensional.killings | 48 | ||||
| Gating | 7 | ||||
| Scientific.research | 7 | ||||
| Indirect threats | Agricultural.conversion | 155 | |||
| Urbanisation | 76 | ||||
| Deforestation | 284 | ||||
| Pollution | 65 | ||||
| Road.kills | 12 | ||||
| Natural threats | Disease.parasites | 5 | |||
| Invasive.species | 21 | ||||
| Fires | 36 | ||||
| Drought | 9 | ||||
| Extreme.cold | 1 | ||||
| Storm | 17 |
Fig. 2Percentage of species data completeness according to biogeographical realm (a) and family-level (b) between IUCN estimates (red bars) and sampled caves from DarkCideS 1.0 (black bars) species richness, the proportion of endemism, and proportion of threatened species worldwide.
Metadata of the georeferenced information of cave-dwelling bats and caves.
| Data Column | Data type | Data filters |
|---|---|---|
| Biogeographical.realm | Nominal | Afrotropical |
| Indomalayan | ||
| Austral-Oceania | ||
| Neotropical | ||
| Palearctic | ||
| Nearctic | ||
| Biome.classification | Nominal | Deserts & Xeric Shrublands = DES |
| Flooded Grasslands & Savannas = FLO | ||
| Mangroves = MAN | ||
| Mediterranean Forests, Woodlands & Scrub = MFWS | ||
| Montane Grasslands & Shrublands = MGS | ||
| Temperate Broadleaf & Mixed Forests = TBMF | ||
| Temperate Conifer Forests = TCF | ||
| Temperate Grasslands, Savannas & Shrublands = TGSS | ||
| Tropical & Subtropical Coniferous Forests = TSCF | ||
| Tropical & Subtropical Dry Broadleaf Forests = TSDB | ||
| Tropical & Subtropical Grasslands, Savannas & Shrublands = TSGS | ||
| Tropical & Subtropical Moist Broadleaf Forests = TSMB | ||
| Country.record | Nominal | All countries with records |
| Latitude | Continuous (WGS 84 in DD) | N/A |
| Longitude | Continuous (WGS 84 in DD) | N/A |
Fig. 3The geographical data turnover of the current database version: (a) geographical locations of all bat caves included in the database, (b) percent distribution of species occurrence in terms of the biogeographical realm and terrestrial biome, (c) country-level turnover.
Bat cave distance at 1-km resolution to landscape features included in the current version of the database.
| Variables | Variable type | Data Filters | Description | Sources |
|---|---|---|---|---|
| Biogeographical.realm | Nominal | Afrotropical | N/A | N/A |
| Indomalayan | N/A | |||
| Austral-Oceania | N/A | |||
| Neotropical | N/A | |||
| Palearctic | N/A | |||
| Nearctic | N/A | |||
| Region | All continents entered | N/A | ||
| Country | All countries entered | N/A | ||
| Cave_Name | All cave names entered | N/A | ||
| Latitude | Continuous (WGS84 DD) | N/A | N/A | |
| Longitude | Continuous (WGS84 DD) | N/A | N/A | |
| Canopy cover height | Continuous (see source for units) (in 1-km distance resolution) | Canopy.cov | A wall-to-wall, global map of canopy height at 1-km spatial resolution | Simard |
| Tree density | Tree.dens | A spatially continuous map of forest tree density based in global scale. | Crowther | |
| Distance to freshwater bodies | Freshwater.dist | A global 3arc-second Water Body Map (G3WBM) | Yamazaki | |
| Bare ground cover change | Bareground.change | Continuous global vegetation for tall vegetation ( ≥ 5 m in height; hereafter referred to as tree canopy (TC)) cover, short vegetation (SV) cover and bare ground (BG) cover, at 0.05° × 0.05° spatial resolution | Song | |
| Short vegetation cover change | Shortveg.change | Continuous global vegetation for tall vegetation ( ≥ 5 m in height; hereafter referred to as tree canopy (TC)) cover, short vegetation (SV) cover and bare ground (BG) cover, at 0.05° × 0.05° spatial resolution | Song | |
| Tall tree cover change | Talltree.change | Continuous global vegetation for tall vegetation ( ≥ 5 m in height; hereafter referred to as tree canopy (TC)) cover, short vegetation (SV) cover and bare ground (BG) cover, at 0.05° × 0.05° spatial resolution | Song | |
| Distance to urban areas | Urban.dist | Continuous global vegetation for tall vegetation ( ≥ 5 m in height; hereafter referred to as tree canopy (TC)) cover, short vegetation (SV) cover and bare ground (BG) cover, at 0.05° × 0.05° spatial resolution | Song | |
| Distance to roads | Road.dist | A globally harmonised map for road networks and road density at a 5 arcminutes resolution (~8x8km) based on Global Road Inventory Project | Meijer | |
| Mine density | Mine.dens | A global distribution of selected critical mineral resources in mines, deposits, districts, and regions | Labay | |
| Nightlight | Nightlight | Satellite images of Earth at night based on 2016 cloud-free observations over land mass. The image is divided in to three different resolutions: 0.1 degrees (3600 × 1800), 3 km (13500 × 6750), and 500 m (86400 × 43200). | Earth at Night[ | |
| Relative pesticide exposure | Pesticide.exp | A database of the 20 most used pesticide active ingredients on 6 dominant crops and 4 aggregated crop classes at 5 arc-min resolution (about 10 km at the equator) projected from 2015 to 2025 | Maggi | |
| Population density | Pop.dens | Population input data are collated from the 2010 round of Population and Housing Censuses, from 2005 and 2014 data. The input data are extrapolated to produce population estimates for the years 2000, 2005, 2010, 2015, and 2020. GPWv4 is gridded with an output resolution of 30 arc-seconds (approximately 1 km at the equator). | Hughes[ |
Fig. 4Biogeographical comparison (mean, 95% CI) of landscape parameters at 1-km resolution.
Fig. 5Schematic diagram showing the updating workflow of the database from new data entry. The DarkCideS database aims to be a long-term biodiversity data exchange platform by including new data from fieldwork and assessments. Authors can upload their dataset containing species records, geographical information, and landscape threats on the web page. The corresponding authors will receive new data entries for validation before being merged into the database.
| Measurement(s) | spatial region |
| Technology Type(s) | occurrent |
| Sample Characteristic - Organism | Mammalia • Chiroptera sp. BOLD:AAA2524 |
| Sample Characteristic - Environment | cave system • karst cave |
| Sample Characteristic - Location | Global |