The bien r package: A tool to access the Botanical Information and Ecology Network (BIEN) database

There is an urgent need for largeâ scale botanical data to improve our understanding of community assembly, coexistence, biogeography, evolution, and many other fundamental biological processes. Understanding these processes is critical for predicting and handling humanâ biodiversity interactions and global change dynamics such as food and energy security, ecosystem services, climate change, and species invasions.The Botanical Information and Ecology Network (BIEN) database comprises an unprecedented wealth of cleaned and standardised botanical data, containing roughly 81 million occurrence records from c. 375,000 species, c. 915,000 trait observations across 28 traits from c. 93,000 species, and coâ occurrence records from 110,000 ecological plots globally, as well as 100,000 range maps and 100 replicated phylogenies (each containing 81,274 species) for New World species. Here, we describe an r package that provides easy access to these data.The bien r package allows users to access the multiple types of data in the BIEN database. Functions in this package query the BIEN database by turning user inputs into optimised PostgreSQL functions. Function names follow a convention designed to make it easy to understand what each function does. We have also developed a protocol for providing customised citations and herbarium acknowledgements for data downloaded through the bien r package.The development of the BIEN database represents a significant achievement in biological data integration, cleaning and standardization. Likewise, the bien r package represents an important tool for open science that makes the BIEN database freely and easily accessible to everyone.Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/142458/1/mee312861_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/142458/2/mee312861.pd

Five decades of terrestrial and freshwater research at Ny-Ålesund, Svalbard

For more than five decades, research has been conducted at Ny-Ålesund, in Svalbard, Norway, to understand the structure and functioning of High-Arctic ecosystems and the profound impacts on them of environmental change. Terrestrial, freshwater, glacial and marine ecosystems are accessible year-round from Ny-Ålesund, providing unique opportunities for interdisciplinary observational and experimental studies along physical, chemical, hydrological and climatic gradients. Here, we synthesize terrestrial and freshwater research at Ny-Ålesund and review current knowledge of biodiversity patterns, species population dynamics and interactions, ecosystem processes, biogeochemical cycles and anthropogenic impacts. There is now strong evidence of past and ongoing biotic changes caused by climate change, including negative effects on populations of many taxa and impacts of rain-on-snow events across multiple trophic levels. While species-level characteristics and responses are well understood for macro-organisms, major knowledge gaps exist for microbes, invertebrates and ecosystem-level processes. In order to fill current knowledge gaps, we recommend (1) maintaining monitoring efforts, while establishing a long-term ecosystem-based monitoring programme; (2) gaining a mechanistic understanding of environmental change impacts on processes and linkages in food webs; (3) identifying trophic interactions and cascades across ecosystems; and (4) integrating long-term data on microbial, invertebrate and freshwater communities, along with measurements of carbon and nutrient fluxes among soils, atmosphere, freshwaters and the marine environment. The synthesis here shows that the Ny-Ålesund study system has the characteristics needed to fill these gaps in knowledge, thereby enhancing our understanding of High-Arctic ecosystems and their responses to environmental variability and change

Lepidurus arcticus (Crustacea : Notostraca); an unexpected prey of Arctic charr (Salvelinus alpinus) in a High Arctic river

The phyllopod Lepidurus arcticus, commonly called the arctic tadpole shrimp, is an important food item of both Arctic charr Salvelinus alpinus and brown trout Salmo trutta in lakes in Iceland and Scandinavia, especially at low fish densities. In the High Arctic, the tadpole shrimp is abundant in fishless localities, but absent or rare in most lakes where fish are present. We studied the diet of Arctic charr in the Straumsjøen watercourse on Spitsbergen, the main island of Svalbard. The outlet river is dry nine months of the year, and all Arctic charr present during summer have descended from the lake. We found that tadpole shrimp contributed substantially to the diet of charr in the outlet river, while it was not found in charr caught in the lake. Low fish density combined with low discharge after hatching of tadpole shrimp eggs may have favoured the co-occurrence of this lacustrine crustacean and Arctic charr in a running water locality. The potential effect of climate change on the occurrence of riverine tadpole shrimp is still uncertain. Retreat of glaciers and decreased turbidity may promote tadpole shrimp, but a predicted increase in precipitation may also have adverse impacts by increasing the risk of flushing tadpole shrimp out of the streams, and thus affecting the Arctic charr diet in running waters on Svalbard

Functional trait space and the latitudinal diversity gradient

The processes causing the latitudinal gradient in species richness remain elusive. Ecological theories for the origin of biodiversity gradients, such as competitive exclusion, neutral dynamics, and environmental filtering, make predictions for how functional diversity should vary at the alpha (within local assemblages), beta (among assemblages), and gamma (regional pool) scales. We test these predictions by quantifying hypervolumes constructed from functional traits representing major axes of plant strategy variation (specific leaf area, plant height, and seed mass) in tree assemblages spanning the temperate and tropical New World. Alpha-scale trait volume decreases with absolute latitude and is often lower than sampling expectation, consistent with environmental filtering theory. Beta-scale overlap decays with geographic distance fastest in the temperate zone, again consistent with environmental filtering theory. In contrast, gamma-scale trait space shows a hump-shaped relationship with absolute latitude, consistent with no theory. Furthermore, the overall temperate trait hypervolume was larger than the overall tropical hypervolume, indicating that the temperate zone permits a wider range of trait combinations or that niche packing is stronger in the tropical zone. Although there are limitations in the data, our analyses suggest that multiple processes have shaped trait diversity in trees, reflecting no consistent support for any one theory

Estrutura de estádios ontogenéticos em população nativa da palmeira Syagrus romanzoffiana (Cham.) Glassman (Arecaceae) Structure of ontogenetic stages in a native population of the palm Syagrus romanzoffiana (Cham.) Glassman (Arecaceae)

O jerivá tem importância ecológica e econômica, inclusive palmito de qualidade. Para conhecer características básicas do ciclo de vida desta espécie, estudou-se a população na floresta paludícola da Reserva Santa Genebra (Campinas, SP). Observações e medições foram feitas em 100 parcelas (5×5 m) e sub-parcelas (2×2 m) aleatórias, dentro de uma área de 1 ha, realizadas novamente após 400 &plusmn; 3 dias. Foram reconhecidos seis estádios ontogenéticos, distinguíveis no campo: plântula (folha inteira estreita), juvenil fase 1 (folha inteira, largura > 2 cm), juvenil fase 2 (folha segmentada), imaturo (folha segmentada e estipe aéreo), virgem (estipe aéreo e raízes caulígenas) e reprodutor (raízes caulígenas e presença periódica de estruturas reprodutivas). Para o reconhecimento das plântulas usaram-se características foliares, pois o momento da independência trófica não pôde ser determinado no campo, tendo, o estádio, longa existência sob a baixa luminosidade do sub-bosque. Ocorreu sobreposição de tamanhos e na produção de folhas, embora houvesse diferenças significativas, pelo menos entre alguns estádios. As estruturas e propriedades adquiridas ou perdidas em cada estádio representariam vantagens adaptativas sob circunstâncias diferentes durante a ontogenia do jerivá, como a germinação remota, que pode ajudar a explicar a ampla ocorrência da espécie, incluindo áreas mais secas, e raízes caulígenas, por melhorar a fixação e nutrição previamente à reprodução, na floresta paludícola.<br>Syagrus romanzoffiana is ecologically and economically important, including the production of good-quality hearts of palm. Aiming to describe this plant's basic life cycle, we studied a natural population in the swamp forest at the Santa Genebra Reserve, Campinas municipality, São Paulo state. Observations and measurements were made, and repeated after 400 &plusmn; 3 days, in 100 randomly located plots (5×5 m) and sub-plots (2×2 m), in an area of 1 ha. Six ontogenetic stages were recognized: seedling (narrow entire leaf), juvenile phase 1 (entire leaf, width > 2 cm), juvenile phase 2 (segmented leaf), immature (segmented leaf, aerial stem), virgin (aerial stem, cauligenous roots), and reproductive (cauligenous roots and periodic presence of reproductive structures). Since the moment of trophic independence could not be determined in the field, leaf characteristics were used to identify seedlings. Seedlings live for a long time in the low light of the understory. Even though significant differences could be observed, size and leaf production overlapped among different stages. Remote germination, used to explain the widespread occurrence of the species even in dry regions, and cauligenous roots that improve fixation and nutrition previous to reproduction in swamp forests, are morphological structures and properties acquired or lost in each stage that may represent adaptive advantages under different circumstances during ontogeny of S. romanzoffiana

Global beta-diversity of angiosperm trees is shaped by Quaternary climate change

As Earth's climate has varied strongly through geological time, studying the impacts of past climate change on biodiversity helps to understand the risks from future climate change. However, it remains unclear how paleoclimate shapes spatial variation in biodiversity. Here, we assessed the influence of Quaternary climate change on spatial dissimilarity in taxonomic, phylogenetic, and functional composition among neighboring 200-kilometer cells (beta-diversity) for angiosperm trees worldwide. We found that larger glacial-interglacial temperature change was strongly associated with lower spatial turnover (species replacements) and higher nestedness (richness changes) components of beta-diversity across all three biodiversity facets. Moreover, phylogenetic and functional turnover was lower and nestedness higher than random expectations based on taxonomic beta-diversity in regions that experienced large temperature change, reflecting phylogenetically and functionally selective processes in species replacement, extinction, and colonization during glacial-interglacial oscillations. Our results suggest that future human-driven climate change could cause local homogenization and reduction in taxonomic, phylogenetic, and functional diversity of angiosperm trees worldwide