A standard protocol for reporting species distribution models

Ecography, Journal Year: 2020, Volume and Issue: 43(9), P. 1261 - 1277

Published: June 1, 2020

Species distribution models (SDMs) constitute the most common class of across ecology, evolution and conservation. The advent ready‐to‐use software packages increasing availability digital geoinformation have considerably assisted application SDMs in past decade, greatly enabling their broader use for informing conservation management, quantifying impacts from global change. However, must be fit purpose, with all important aspects development applications properly considered. Despite widespread SDMs, standardisation documentation modelling protocols remain limited, which makes it hard to assess whether steps are appropriate end use. To address these issues, we propose a standard protocol reporting an emphasis on describing how study's objective is achieved through series modeling decisions. We call this ODMAP (Overview, Data, Model, Assessment Prediction) protocol, as its components reflect main involved building other empirically‐based biodiversity models. serves two purposes. First, provides checklist authors, detailing key model analyses, thus represents quick guide generic workflow modern SDMs. Second, introduces structured format documenting communicating models, ensuring transparency reproducibility, facilitating peer review expert evaluation quality, well meta‐analyses. detail elements ODMAP, explain can used different objectives applications, complements efforts store associated metadata define standards. illustrate utility by revisiting nine previously published case studies, provide interactive web‐based facilitate plan advance encouraging further refinement adoption scientific community.

Language: Английский

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Data integration enables global biodiversity synthesis

Proceedings of the National Academy of Sciences, Journal Year: 2021, Volume and Issue: 118(6)

Published: Feb. 1, 2021

Significance As anthropogenic impacts to Earth systems accelerate, biodiversity knowledge integration is urgently required support responses underpin a sustainable future. Consolidating information from disparate sources (e.g., community science programs, museums) and data types environmental, biological) can connect the biological sciences across taxonomic, disciplinary, geographical, socioeconomic boundaries. In an analysis of research uses world’s largest cross-taxon network, we report emerging roles open-access aggregation in development increasingly diverse, global research. These results indicate new landscape centered on big integration, informing ongoing initiatives strategic prioritization diverse domains, including environmental policy, evolutionary biology, conservation, human health.

Language: Английский

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Challenges and opportunities of area-based conservation in reaching biodiversity and sustainability goals

Biodiversity and Conservation, Journal Year: 2021, Volume and Issue: 31(2), P. 325 - 352

Published: Dec. 1, 2021

Abstract Area-based conservation is essential to safeguard nature’s diversity. In view of expanding human land use, increasing climate change and unmet targets, area-based requires efficiency effectiveness more than ever. this review, I identify relate pressing challenges promising opportunities for effective efficient protected area governance management, enhance research, decision-making capacity building in under uncertain future developments. reveal that management particularly challenged by change, invasive species, social, political economic limitations. Protected often lacks the continuous availability data on current states trends nature threats. Biocultural conservation, climate-smart biosecurity approaches help overcome induced needs, respectively. Economic valuation shifts funding priorities can boost efficiency. In-situ monitoring techniques, remote sensing open infrastructures fill information gaps planning management. Moreover, adaptive an auspicious concept framework systematic ensure enduring areas despite unpredictable Post-2020 international biodiversity sustainable development goals could be met earlier if were effective. consequently conclude with need a global system support synthesizing at local level.

Language: Английский

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Global patterns of vascular plant alpha diversity

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: Sept. 1, 2022

Global patterns of regional (gamma) plant diversity are relatively well known, but whether these hold for local communities, and the dependence on spatial grain, remain controversial. Using data 170,272 georeferenced assemblages, we created global maps alpha (local species richness) vascular plants at three different grains, forests non-forests. We show that is consistently high across grains in some regions (for example, Andean-Amazonian foothills), 'scaling anomalies' (deviations from positive correlation) exist elsewhere, particularly Eurasian temperate with disproportionally higher fine-grained richness many African tropical coarse-grained richness. The influence climatic, topographic biogeographical variables also varies grains. Our multi-grain return a nuanced understanding biodiversity complements classic hotspots will improve predictions change effects biodiversity.

Language: Английский

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Harmonizing taxon names in biodiversity data: A review of tools, databases and best practices

Methods in Ecology and Evolution, Journal Year: 2022, Volume and Issue: 14(1), P. 12 - 25

Published: Jan. 18, 2022

Abstract The process of standardizing taxon names, taxonomic name harmonization, is necessary to properly merge data indexed by names. large variety databases and related tools are often not well described. It unclear which actively maintained or what the original source information. In addition, software access these developed following non‐compatible standards, creates additional challenges for users. As a result, harmonization has become major obstacle in ecological studies that seek combine multiple datasets. Here, we review categorize set publicly available as collection R packages them harmonize lists We categorized according their breadth (e.g. specific vs. multi‐taxa) spatial scope regional global), highlighting strengths caveats each type database. divided function, syntax standardization tools, online databases, etc.) highlighted overlaps among them. present our findings network linkages, tool characteristics) ready‐to‐use Shiny web application (available at: https://mgrenie.shinyapps.io/taxharmonizexplorer/ ). also provide general guidelines best practice principles harmonization. an illustrative example, harmonized names one largest community time series currently available. showed how different workflows can be used goals, weaknesses providing practical solutions avoid common pitfalls. To knowledge, opinionated represents most exhaustive evaluation links tools. Finally, based on new insights field, make recommendations users, database managers package developers alike.

Language: Английский

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Species distribution modelling supports the study of past, present and future biogeographies

Journal of Biogeography, Journal Year: 2023, Volume and Issue: 50(9), P. 1533 - 1545

Published: April 10, 2023

Abstract Species distribution modelling (SDM), also called environmental or ecological niche modelling, has developed over the last 30 years as a widely used tool in core areas of biogeography including historical biogeography, studies diversity patterns, species ranges, ecoregional classification, conservation assessment and projecting future global change impacts. In 50th anniversary year Journal Biogeography , I reflect on developments illustrate how embedded methodology become all speculate directions field. Challenges to raised this journal 2006 have been addressed significant degree. Those challenges are clarification concept; improved sample design for occurrence data; model parameterization; predictor selection; assessing performance transferability; integrating correlative process models distributions. SDM is used, often conjunction with other evidence, understand past range dynamics, identify patterns drivers biological diversity, limits, define delineate ecoregions, estimate distributions biodiversity elements relation protected status prioritize action, forecast shifts response climate scenarios. Areas progress that may more accessible useful tools include genetically informed community models.

Language: Английский

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Significance of precise documentation of hosts and geospatial data of fungal collections, with an emphasis on plant-associated fungi

New Zealand Journal of Botany, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 28

Published: July 28, 2024

In taxonomy, precision of species collection data is a cornerstone for advancing research and its diverse applications. Despite the widespread recognition significance these data, researchers have frequently neglected some important details in published taxonomic studies. Historically, fungal studies leaned heavily on morphological delineation taxa. contrast, methods currently employ synthesis combination morpho-molecular markers, chemical attributes both ecological geographic data. Even with new methods, mycologists value derived from old records as essential guides current future Therefore, this underscores importance careful documentation habits habitats parallel collection. While collecting specimens fungi, it to record metadata such sampling location, habitat (host/substrate), season (date or specific season) physical information specimen itself. These datasets will provide rich source ecology conservation resources. Understanding distribution patterns possible explanations real challenge conserving biodiversity, lack data-recording creates substantial obstacles. Accurate fungarium are basic understanding richness assessing red-listed invasive species. This paper explores additions recording, emphasising hosts locations. We also discuss significant roles seemingly insignificant recording enhance about relationships

Language: Английский

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Transnational conservation to anticipate future plant shifts in Europe

Nature Ecology & Evolution, Journal Year: 2024, Volume and Issue: 8(3), P. 454 - 466

Published: Jan. 22, 2024

Abstract To meet the COP15 biodiversity framework in European Union (EU), one target is to protect 30% of its land by 2030 through a resilient transnational conservation network. The Alps are key hub this network hosting some most extensive natural areas and hotspots Europe. Here we assess robustness current reserve safeguard Alps’ flora 2080 using semi-mechanistic simulations. We first highlight that needs strong readjustments as it does not capture patterns well our Overall, predict shift need time along latitudes, from lower higher elevations plants migrate upslope shrink their distribution. While increasing species, trait evolutionary diversity, migration could also threaten 70% resident flora. In face global changes, future will ensure elevation latitudinal connections complementarily multifaceted beyond national borders.

Language: Английский

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Experimental support for genomic prediction of climate maladaptation using the machine learning approach Gradient Forests

Molecular Ecology Resources, Journal Year: 2021, Volume and Issue: 21(8), P. 2749 - 2765

Published: March 8, 2021

Gradient Forests (GF) is a machine learning algorithm that gaining in popularity for studying the environmental drivers of genomic variation and incorporating information into climate change impact assessments. Here we (i) provide first experimental evaluation ability "genomic offsets" - metric maladaptation derived from to predict organismal responses change, (ii) explore use GF identifying candidate SNPs. We used high-throughput sequencing, genome scans, several methods, including GF, identify loci associated with adaptation balsam poplar (Populus balsamifera L.). Individuals collected throughout poplar's range also were planted two common garden experiments. relate gradients expected magnitude response (i.e., genetic offset maladaptation) populations when transplanted their "home" environment gardens. then compared predicted offsets different sets randomly selected SNPs measurements population performance found inverse relationship between performance: larger performed worse gardens than smaller offsets. Also, better did "naive" transfer distances. However, slightly Our study provides evidence represent order estimate degree exposed rapid suggests may have some promise as method

Language: Английский

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Convolutional neural networks improve species distribution modelling by capturing the spatial structure of the environment

PLoS Computational Biology, Journal Year: 2021, Volume and Issue: 17(4), P. e1008856 - e1008856

Published: April 19, 2021

Convolutional Neural Networks (CNNs) are statistical models suited for learning complex visual patterns. In the context of Species Distribution Models (SDM) and in line with predictions landscape ecology island biogeography, CNN could grasp how local structure affects prediction species occurrence SDMs. The can thus reflect signatures entangled ecological processes. Although previous machine-learning based SDMs learn influences environmental predictors, they cannot acknowledge influence landscapes (hence denoted “punctual models”). this study, we applied CNNs to a large dataset plant occurrences France (GBIF), on taxonomical scale, predict ranked relative probability (by joint learning) any geographical position. We examined way improve by performing alternative deprived information heterogeneity (“ablation experiments”). found that around location crucially contributed predictive performance CNN-SDMs. classify predicted distributions many species, as other modelling approaches, but further prove efficient identifying landscapes. then represent spatially structured drivers. gain is noticeable rare which open promising perspectives biodiversity monitoring conservation strategies. Therefore, approach both theoretical practical interest. discuss test hypotheses patterns learnt CNN, should be essential interpretation processes at play.

Language: Английский

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