Artificial Hotspot Occurrence Inventory (<scp>AHOI</scp>)

Park, Daniel; Xie, Yingying; Thammavong, Hanna T; Tulaiha, Rima; Feng, Xiao-Yong

doi:10.1111/jbi.14543

Cited by 6 publications

(4 citation statements)

References 37 publications

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“…As precise locality data are not available for the majority of historic specimen records ( 52 , 53 ), we used county as our geographical unit of analysis. For each county and year, we calculated the mean of each climatic variable and assigned these values to each specimen ( 4 , 9 ).…”

Section: Methodsmentioning

confidence: 99%

Sex-dependent phenological responses to climate vary across species’ ranges

Xie,

Thammavong,

Berry

et al. 2023

Proc. Natl. Acad. Sci. U.S.A.

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Anthropogenic climate change has significantly altered the flowering times (i.e., phenology) of plants worldwide, affecting their reproduction, survival, and interactions. Recent studies utilizing herbarium specimens have uncovered significant intra- and inter-specific variation in flowering phenology and its response to changes in climate but have mostly been limited to animal-pollinated species. Thus, despite their economic and ecological importance, variation in phenological responses to climate remain largely unexplored among and within wind-pollinated dioecious species and across their sexes. Using both herbarium specimens and volunteer observations of cottonwood ( Populus ) species, we examined how phenological sensitivity to climate varies across species, their ranges, sexes, and phenophases. The timing of flowering varied significantly across and within species, as did their sensitivity to spring temperature. In particular, male flowering generally happened earlier in the season and was more sensitive to warming than female flowering. Further, the onset of flowering was more sensitive to changes in temperature than leaf out. Increased temporal gaps between male and female flowering time and between the first open flower date and leaf out date were predicted for the future under two climate change scenarios. These shifts will impact the efficacy of sexual reproduction and gene flow among species. Our study demonstrates significant inter- and intra-specific variation in phenology and its responses to environmental cues, across species’ ranges, phenophases, and sex, in wind-pollinated species. These variations need to be considered to predict accurately the effects of climate change and assess their ecological and evolutionary consequences.

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Section: Methodsmentioning

confidence: 99%

Sex-dependent phenological responses to climate vary across species’ ranges

Xie,

Thammavong,

Berry

et al. 2023

Proc. Natl. Acad. Sci. U.S.A.

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“…The last submodule corresponds to the examination and eventual validation of outliers, and it is based on the distributional information of the species (native range or spatial extension) or the environmental range or values that this species occupies. Outliers must not be arbitrarily removed from the data without evidence that they actually resulted from an error (Park et al., 2022). Geographic estimates of certainty and data coverage are calculated individually for each of the created submodules.…”

Section: Information Included In Each Modulementioning

confidence: 99%

“…The final module accounts for duplicate information, one of the main issues of using occurrence records from public repositories (Feng et al., 2022; Park et al., 2022). This problem increases when researchers combine multiple repositories to create their data sets due to duplicities published in various sources (Chapman, 2005).…”

Section: Information Included In Each Modulementioning

confidence: 99%

OCCUR Shiny application: A user‐friendly guide for curating species occurrence records

Ronquillo,

Stropp,

Hortal

2024

Methods Ecol Evol

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Ecology increasingly relies on a massive volume of biodiversity occurrence records to draw insights into large‐scale biogeographical, ecological and evolutionary phenomena. This often involves defining a set of criteria that guides the collection, filtering and standardising of available records. These curation processes are often neither described in detail nor well documented. This hampers the comparability and reproducibility of studies and thus undermines the robustness of any ecological result. Yet, to date, there is no guide providing a friendly way to reason and document a complete data curation process. We reviewed the available literature on data curation, including tools such as R packages and workflows. From this assessment, we created a complete guide organised into five modules that allows users to consciously select and validate occurrence records based on these curation criteria. This is presented in the user‐friendly Shiny R OCCUR application, available at https://ecoinformatic.shinyapps.io/OCCUR/. OCCUR application provides a guide for researchers to deal with the trade‐off between data certainty and coverage generated in each data curation step. An interactive graph of these changes is provided within each module. OCCUR also produces a custom‐made final report including all steps used for data filtering. This report helps to streamline the writing of the methods section of manuscripts and technical reports, thus promoting the reproducibility of data curation processes. This Shiny application provides an interactive overview of the data curation methods and their use for handling occurrence records from public repositories. It brings together the taxonomic, temporal and spatial dimensions of data and also the identification of duplicates of the records. OCCUR can be applied for multiple purposes, such as teaching R to ecologists or enhancing reproducibility of macroecology and biogeography.

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“…Unsurprisingly, the biodiversity data compiled by different and uncoordinated initiatives (Feng et al., 2022) are almost always characterized by the pervasive existence of taxonomical and geographical biases and shortcomings (see, for example, Hortal et al., 2015; Hughes et al., 2021; Meyer et al., 2016; or Larsen & Shirey, 2021). These drawbacks, inherent to opportunistically collected historical occurrence data, may limit but not invalidate the use of such information for scientific or conservation purposes (Grand et al., 2007; Isaac et al., 2014; Park, Lyra, et al., 2023; Park, Xie, et al., 2023; van Strien et al., 2013). Different approaches to filtering and processing information from biodiversity databases have allowed taking advantage of this unprecedented source of information to propose explanatory hypotheses about the spatiotemporal distributions of organisms (Belitz et al., 2020; Di Cecco et al., 2023; García‐Roselló et al., 2015; Heberling et al., 2021; Isaac et al., 2014; Lajeunesse & Fourcade, 2023; Pagel et al., 2014).…”

Section: Introductionmentioning

confidence: 99%

Taking advantage of opportunistically collected historical occurrence data to detect responses to climate change: The case of temperature and Iberian dung beetles

Lobo,

Mingarro,

Godefroid

et al. 2023

Ecology and Evolution

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This study introduces a novel approach to leverage high‐resolution historical climate data and opportunistically collected historical species occurrence data for detecting adaptive responses to global change. We applied this procedure to the temperature data and the most comprehensive Iberian dataset of dung beetle occurrences as an illustrative example. To understand how populations of different species are responding, we devised a procedure that compares the temporal trend of spatial and temperature variables at the locations and times of all the occurrence data collection (overall trend) with the specific temporal trends among the occurrences of each species. The prevalence of various species responses is linked to life history or taxonomic characteristics, enabling the identification of key factors influencing the propensity to experience different effects from climate change. Our findings suggest that nearly half of the Iberian dung beetle species may be adversely affected by temperature increases, with a geographic shift being the most common response. The results generated through the proposed methodology should be regarded as preliminary information, serving to formulate hypotheses about the diverse responses of species to climate change and aiding in the selection of candidate species capable of coping with challenges posed by changing temperatures.

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Artificial Hotspot Occurrence Inventory (AHOI)

Cited by 6 publications

References 37 publications

Sex-dependent phenological responses to climate vary across species’ ranges

Sex-dependent phenological responses to climate vary across species’ ranges

OCCUR Shiny application: A user‐friendly guide for curating species occurrence records

Taking advantage of opportunistically collected historical occurrence data to detect responses to climate change: The case of temperature and Iberian dung beetles

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