Science Enabled by Specimen Data
Quirk, Z. J., S. Y. Smith, R. Paul Acosta, and C. J. Poulsen. 2024. Where did they come from, where did they go? Niche conservatism in woody and herbaceous plants and implications for plant‐based paleoclimatic reconstructions. American Journal of Botany 111. https://doi.org/10.1002/ajb2.16426
AbstractPremiseThe ecological conditions that constrain plants to an environmental niche are assumed to be constant through time. While the fossil record has been used previously to test for niche conservatism of woody flowering plants, additional studies are needed in other plant groups especially since they can provide insight with paleoclimatic reconstructions, high biodiversity in modern terrestrial ecosystems, and significant contributions to agriculture.MethodsWe tested climatic niche conservatism across time by characterizing the climatic niches of living herbaceous ginger plants (Zingiberaceae) and woody dawn redwood (Metasequoia) against paleoniches reconstructed based on fossil distribution data and paleoclimatic models.ResultsDespite few fossil Zingiberaceae occurrences in the latitudinal tropics, unlike living Zingiberaceae, extinct Zingiberaceae likely experienced paratropical conditions in the higher latitudes, especially in the Cretaceous and Paleogene. The living and fossil distributions of Metasequoia largely remain in the upper latitudes of the northern hemisphere. The Zingiberaceae shifted from an initial subtropical climatic paleoniche in the Cretaceous, toward a temperate regime in the late Cenozoic; Metasequoia occupied a more consistent climatic niche over the same time intervals.ConclusionsBecause of the inconsistent climatic niches of Zingiberaceae over geologic time, we are less confident of using them for taxonomic‐based paleoclimatic reconstruction methods like nearest living relative, which assume a consistent climatic niche between extant and extinct relatives; we argue that the consistent climatic niche of Metasequoia is more appropriate for these reconstructions. Niche conservatism cannot be assumed between extant and extinct plants and should be tested further in groups used for paleoclimatic reconstructions.
Lin, P.-C., T.-Y. Chiang, M.-L. Chen, T.-W. Hsu, P.-W. Gean, S.-T. Cheng, and Y.-H. Hsu. 2024. Global prospects for cultivating Centella asiatica: An ecological niche modeling approach under current and future climatic scenarios. Journal of Agriculture and Food Research 18: 101380. https://doi.org/10.1016/j.jafr.2024.101380
Centella asiatica is a medicinal plant recognized for its various benefits contributed by its metabolites and has been used as a food supplement since prehistorical times across various cultures. Due to the reliance on natural populations of C. asiatica and the impacts of environmental factors on its yield and centelloside production, there is a need to identify suitable cultivation areas for this species. We employed ecological niche modelling with bioclimatic and soil variables to evaluate the suitability of cultivation under current and future climatic scenarios. Our results identified suitable areas for cultivating C. asiatica worldwide, indicating its potential for global commercial cultivation. However, the niche reconstruction of highly concentrated centelloside was restricted to South and Southeast Asia due to the lack of available data. When we projected the modelled niche of centelloside in these regions, we observed a lower occurrence probability in some areas, suggesting potential challenges in cost-effectiveness. Nevertheless, our results suggest a consistent future distribution for this species when we projected the modelled niche under future climates based on various socio-economic scenarios. This study not only identifies suitable areas to develop commercial cultivation for C. asiatica with highly concentrated centelloside, but also provides supporting evidence of the consistency of these areas, which can increase its sustainability.
Morim Gomes, M., B. Moreira Carvalho, and M. Souto Couri. 2024. Distribution of Sarcophagidae (Diptera, Oestroidea) in Brazilian biomes: richness, endemism, and sampling gaps. Studies on Neotropical Fauna and Environment: 1–11. https://doi.org/10.1080/01650521.2024.2380155
Sarcophagid experts have made several efforts to associate biodiversity data and comprehend where each species occurs, but comprehensive faunal inventories remain scarce. Our aim was to provide a list of distributional patterns and endemic species and allow assessment of the sampling effort conducted within Brazilian biomes. We produced a dataset of Brazilian sarcophagids and overlaid with a biome map, to investigate distributional patterns, endemism and to build species accumulation curves. Additionally, we calculated nonparametric asymptotic species richness estimators and extrapolation of species diversity (Hill numbers). Our dataset comprised 288 sarcophagid species, which 21 were identified as endemic. The biomes with the highest species richness were the Atlantic Rainforest and the Amazon Forest, and no biome exhibited a stabilized asymptotic curve. This is the first proposal of listing Sarcophagidae species by biomes and essential to understand the spatial distribution of this family in Brazil. We present maps and richness estimators that allow identifying gaps and guiding survey planning.
Martínez-Fonseca, J. G., L. A. Trujillo, E. P. Westeen, F. A. Reid, C. Hood, M. A. Fernández-Mena, L. E. Gutiérrez-López, et al. 2024. New departmental and noteworthy records of mammals (Mammalia, Theria) from Nicaragua. Check List 20: 706–720. https://doi.org/10.15560/20.3.706
AbstractAbstract. neighboring countries. Recently, an increase in biological surveys and access to natural preserves has led to a better understanding of species distributions in Nicaragua and across Central America. Here, we provide new departmental records for three species of didelphid, 18 chiropterans (Phyllostomidae, Molossidae, Vespertilionidae), one geomyid, and one mustelid from 21 sites across the country. This work underscores the need for additional sampling across Nicaragua to fill gaps in the known distribution of many species. This information can facilitate or inform conservation actions in established and proposed preserves in Nicaragua.
Köhler, M., M. Romeiro‐Brito, and M. Telhe. 2024. The Cerrado through cacti. Journal of Biogeography. https://doi.org/10.1111/jbi.14846
Cerrado is a large and heterogeneous ecoregion in the Neotropics marked by the fire‐prone savanna vegetation, to which succulent lineages are usually not associated due to this adverse condition. However, recent studies have highlighted the importance of Cerrado as an ancestral range for the origin, dispersal and in situ diversification of remarkable lineages of South American cacti. In this perspective, we explore the implications of these occurrences in the Cerrado, shedding light on a frequently overlooked aspect of this ecoregion—the role of scattered rocky outcrop habitats acting as micro‐refuges for fire‐sensitive lineages. We show that most cacti occurrences are associated with patches of rock outcrops across the Cerrado. In contrast, when terricolous, a few disparate and not closely related species can develop underground structures or present a specialized habit that facilitates their presence as a putative response to fire—reinforcing the evolutionary lability of fire adaptation in Cerrado lineages. Despite some notable endemisms, several occurrences are from species with core distributions in adjacent ecoregions (e.g. Caatinga and Chaco), demonstrating the permeability of Cerrado, which can act concomitantly as a biogeographical barrier (especially due to its fire‐prone habitats) and as a corridor for biota interchange. Finally, we stress that Cerrado heterogeneity, often leading to different circumscriptions, is a relevant issue when studying and characterizing Neotropical biota, which must be further explored and considered to assess the evolutionary assembly of the biomes involved.
Dantas, V. L., L. C. S. Oliveira, C. R. Marcati, and J. Sonsin‐Oliveira. 2024. Coordination of bark and wood traits underlies forest‐to‐savanna evolutionary transitions. Journal of Biogeography. https://doi.org/10.1111/jbi.14850
Aim To test the hypothesis that adaptive shifts leading to the assembly of tropical savannas involved coordination between bark and wood traits and to understand the underlying mechanisms.LocationTropical South America.TaxonAngiosperms (woody).MethodsWe compiled data on three bark traits (total, inner and outer relative bark thickness), wood density, maximum height, five secondary xylem traits and on species' habitat information (light environment, climate, soil and fire history) for Neotropical savanna, forest and generalist species (biome groups). We tested for pairwise and multivariate associations among traits across species and if biome group and habitat conditions explained species positions along the resulting strategy axes.ResultsTraits covaried along four different axes. The first axis was consistent with a trade‐off between fire (thick barks) and shade tolerance (low bark to diameter ratio, high vessel density) and contributed to differentiate the three biome groups according to the preference for shaded environments. Forest species also differed from savanna and generalist species in a separate axis by being more resource acquisitive. Maximum height and wood density did not strongly trade‐off with bark thickness, although maximum height was negatively covaried with relative outer bark thickness. Preference for shaded conditions was the main driver of variation in the two principal strategy axes, but temperature, fire and soil sand content also explained differences in plant stature between savanna and generalist species.Main ConclusionsAllocation to bark is constrained by trade‐offs with wood, opposing shade‐tolerant and acquisitive forest species to fire‐resistant and conservative savanna species. Rather than a single strategy axis, three axes are necessary to understand the functional differences among savanna, forest and generalist species. Because two of these axes are controlled by light availability, the associated traits tend to covary in space and time, but not across species.
Serra‐Diaz, J. M., J. Borderieux, B. Maitner, C. C. F. Boonman, D. Park, W. Guo, A. Callebaut, et al. 2024. occTest: An integrated approach for quality control of species occurrence data. Global Ecology and Biogeography. https://doi.org/10.1111/geb.13847
Aim Species occurrence data are valuable information that enables one to estimate geographical distributions, characterize niches and their evolution, and guide spatial conservation planning. Rapid increases in species occurrence data stem from increasing digitization and aggregation efforts, and citizen science initiatives. However, persistent quality issues in occurrence data can impact the accuracy of scientific findings, underscoring the importance of filtering erroneous occurrence records in biodiversity analyses.InnovationWe introduce an R package, occTest, that synthesizes a growing open‐source ecosystem of biodiversity cleaning workflows to prepare occurrence data for different modelling applications. It offers a structured set of algorithms to identify potential problems with species occurrence records by employing a hierarchical organization of multiple tests. The workflow has a hierarchical structure organized in testPhases (i.e. cleaning vs. testing) that encompass different testBlocks grouping different testTypes (e.g. environmental outlier detection), which may use different testMethods (e.g. Rosner test, jacknife,etc.). Four different testBlocks characterize potential problems in geographic, environmental, human influence and temporal dimensions. Filtering and plotting functions are incorporated to facilitate the interpretation of tests. We provide examples with different data sources, with default and user‐defined parameters. Compared to other available tools and workflows, occTest offers a comprehensive suite of integrated tests, and allows multiple methods associated with each test to explore consensus among data cleaning methods. It uniquely incorporates both coordinate accuracy analysis and environmental analysis of occurrence records. Furthermore, it provides a hierarchical structure to incorporate future tests yet to be developed.Main conclusionsoccTest will help users understand the quality and quantity of data available before the start of data analysis, while also enabling users to filter data using either predefined rules or custom‐built rules. As a result, occTest can better assess each record's appropriateness for its intended application.
Ract, C., N. D. Burgess, L. Dinesen, P. Sumbi, I. Malugu, J. Latham, L. Anderson, et al. 2024. Nature Forest Reserves in Tanzania and their importance for conservation S. S. Romanach [ed.],. PLOS ONE 19: e0281408. https://doi.org/10.1371/journal.pone.0281408
Since 1997 Tanzania has undertaken a process to identify and declare a network of Nature Forest Reserves (NFRs) with high biodiversity values, from within its existing portfolio of national Forest Reserves, with 16 new NFRs declared since 2015. The current network of 22 gazetted NFRs covered 948,871 hectares in 2023. NFRs now cover a range of Tanzanian habitat types, including all main forest types—wet, seasonal, and dry—as well as wetlands and grasslands. NFRs contain at least 178 of Tanzania’s 242 endemic vertebrate species, of which at least 50% are threatened with extinction, and 553 Tanzanian endemic plant taxa (species, subspecies, and varieties), of which at least 50% are threatened. NFRs also support 41 single-site endemic vertebrate species and 76 single-site endemic plant taxa. Time series analysis of management effectiveness tracking tool (METT) data shows that NFR management effectiveness is increasing, especially where donor funds have been available. Improved management and investment have resulted in measurable reductions of some critical threats in NFRs. Still, ongoing challenges remain to fully contain issues of illegal logging, charcoal production, firewood, pole-cutting, illegal hunting and snaring of birds and mammals, fire, wildlife trade, and the unpredictable impacts of climate change. Increased tourism, diversified revenue generation and investment schemes, involving communities in management, and stepping up control measures for remaining threats are all required to create a network of economically self-sustaining NFRs able to conserve critical biodiversity values.
Karimi, N., and M. M. Hanes. 2024. Patterns of Grewia (Malvaceae) diversity across geographic scales in Africa and Madagascar. Annals of Botany. https://doi.org/10.1093/aob/mcae009
Background and aims Quantifying spatial species richness is useful to describe biodiversity patterns across broad geographic areas, especially in large, poorly known plant groups. We explore patterns and predictors of species richness across Africa in one such group; the paleotropical genus Grewia L. (Malvaceae). Methods Grewia species richness was quantified by extracting herbarium records from GBIF and Tropicos and creating geographic grids at varying spatial scales. We assessed predictors of species richness using spatial regression models with 30 environmental variables. We explored species co-occurrence in Madagascar at finer resolutions using Schoener's index, and compared species’ range sizes and IUCN status among ecoregions. Lastly, we derived a trait matrix for a subset of species found in Madagascar to characterize morphological diversity across space. Key Results Grewia species occur in 50 countries in Africa, with the highest number of species in Madagascar (93, with 80 species endemic). Species richness is highest in Madagascar, with up to 23 Grewia species in a grid cell, followed by coastal Tanzania/Kenya (up to 13 species), and northern South Africa and central Angola (11 species each). Across Africa, higher species richness was predicted by variables related to aridity. In Madagascar, a greater range in environmental variables best predicted species richness, consistent with geographic grid cells of highest species richness occurring near biome/ecoregion transitions. In Madagascar we also observe increasing dissimilarity in species composition with increasing geographic distance. Conclusions The spatial patterns and underlying environmental predictors that we uncover in Grewia represent an important step in our understanding of plant distribution and diversity patterns across Africa. Madagascar boasts nearly twice the Grewia species richness, compared to the second most species-rich country in Africa, which might be explained by complex topography and environmental conditions across small spatial scales.
Munna, A. H., N. A. Amuri, P. Hieronimo, and D. A. Woiso. 2023. Modelling ecological niches of Sclerocarya birrea subspecies in Tanzania under the current and future climates. Silva Fennica 57. https://doi.org/10.14214/sf.23009
The information on ecological niches of the Marula tree, Sclerocarya birrea (A. Rich.) Horchst. subspecies are needed for sustainable management of this tree, considering its nutritional, economic, and ecological benefits. However, despite Tanzania being regarded as a global genetic center of diversity of S. birrea, information on the subspecies ecological niches is lacking. We aimed to model ecological niches of S. birrea subspecies in Tanzania under the current and future climates. Ecological niches under the current climate were modelled by using ecological niche models in MaxEnt using climatic, edaphic, and topographical variables, and subspecies occurrence data. The Hadley Climate Center and National Center for Atmospheric Research's Earth System Models were used to predict ecological niches under the medium and high greenhouse gases emission scenarios for the years 2050 and 2080. Area under the curves (AUCs) were used to assess the accuracy of the models. The results show that the models were robust, with AUCs of 0.85–0.95. Annual and seasonal precipitation, elevation, and soil cation exchange capacity are the key environmental factors that define the ecological niches of the S. birrea subspecies. Ecological niches of subsp. caffra, multifoliata, and birrea are currently found in 30, 22, and 21 regions, and occupy 184 814 km2, 139 918 km2, and 28 446 km2 of Tanzania's land area respectively, which will contract by 0.4–44% due to climate change. Currently, 31–51% of ecological niches are under Tanzania’s protected areas network. The findings are important in guiding the development of conservation and domestication strategies for the S. birrea subspecies in Tanzania.