Biology subjects

Mammola, S.

Publications and source records attributed to Mammola, S..

16 recordsLinked to original sources

bioRxiv2026

The power of naming: shorter and simpler species names draw more attention

If youve ever complained about a species name thats a mouthful--say, the soldier fly Parastratiosphecomyia stratiosphecomyioides or the myxobacterium Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis--youre in very good company. But could the readability of binomial scientific names cause more than complaints? Could it influence how much species are studied and talked about? We examined a random sample of 3,019 species names spanning 29 phyla/divisions. We tested whether name length and reading difficulty are associated with species representation in the scientific literature (measured via literature mentions) and their visibility to the public (measured via Wikipedia pageviews). Both species name traits showed significant negative relationships with literature mentions and Wikipedia reads. Increasing name length from 10 to 30 characters is associated with a 66% decrease in expected mentions and a 65% decrease in Wikipedia reads, while shifting from the most to the least readable name in the dataset corresponds to 53% and 76% decreases. These patterns are consistent with something familiar: the fickleness of human attention, responding to features of the world that are far from rational. While creativity in naming is a cherished part of taxonomy, a touch of orthographic restraint may ultimately benefit both science and the species themselves--especially among understudied uncharismatic taxa.

scientific communication and education↗

bioRxiv2025

Macroinvertebrate diversity patterns in a guano-rich temperate cave

Most caves in temperate regions are energy-poor, leading to low richness and abundances of terrestrial macroinvertebrates. However, caves with abundant bat populations may represent a notable exception, as bat guano serves as a significant source of organic matter, supporting diverse specialized invertebrates. Yet, given the overall rarity of guano-rich caves in temperate region, their ecological dynamics are poorly understood. We conducted a year-long monthly standardized monitoring of the macroinvertebrates of the Buca dei Ladri cave, a guano-rich cavity in Tuscany, Italy. At each survey, we counted species within different sampling quadrats and collected environmental variables such as temperature, structural heterogeneity of the substrate, dominant substrate, and presence of bats. Over the year, we identified 31 macroinvertebrate species in the cave as both morphospecies and molecular lineages, based on mitochondrial COI and nuclear 18S genes. The latter approach hinted at the presence of cryptic diversity in some species. We observed an increase in species diversity with increasing structural complexity and the presence of bats, whereas a lower species diversity was found in guano-dominated substrates, probably due to the old age and subsequent low nutritional value of the historical guano deposits. Changes in the abundance of species within the cave were primarily explained by differences in structural complexity across sampling quadrats, whereas the distance from the cave entrance mostly explained species replacement. Our results underscore the importance of preserving healthy bat populations and a high habitat heterogeneity within the cave for the long-term conservation of the unique macroinvertebrate assemblages of the cave.

ecology↗

bioRxiv2024

The what, how and why of trait-based analyses in ecology

Functional diversity is increasingly used alongside taxonomic diversity to describe populations and communities in ecology. Indeed, functional diversity metrics allow researchers to summarize complex occupancy patterns in space and/or time (what is changing?) that lead to changes in communities and/or populations (the process; how is it changing?) in response to some stressors (the mechanism; why is it changing?). However, as the diversity of functional diversity metrics and methods increases, it is often not directly clear which metric is more readily appropriate for which question. We studied the ability of different functional diversity metrics to recover patterns and signals from different processes linked to common assembly mechanisms (environmental filtering, competitive exclusion, equalizing fitness, and facilitation) in community ecology. Using both simulated data and an empirical dataset affected by more complex and nuanced mechanisms, we tested the effectiveness of different space occupancy metrics to recover the simulated or empirical changes. We show that different metrics perform better for different tasks, emphasizing the importance of not using a one-size-fits-all metric. Instead, researchers should carefully consider and test whether a particular metric will be effective in capturing a pattern of interest.

ecology↗

bioRxiv2023

Drivers of species knowledge across the Tree of Life

Knowledge of biodiversity is unevenly distributed across the Tree of Life. In the long run, such disparity in awareness unbalances our understanding of life on Earth, influencing policy decisions and the allocation of research and conservation funding. We investigated how humans accumulate knowledge of biodiversity by searching for consistent relationships between scientific (number of publications) and societal (number of views in Wikipedia) interest, and species-level morphological, ecological and socio-cultural factors. Across a random selection of 3,019 species spanning 29 Phyla/Divisions, we show that socio-cultural factors are the most important correlates of scientific and societal interest in biodiversity, including the fact that a species is useful or harmful to humans, has a common name and is listed in the IUCN Red List. Furthermore, large-bodied, broadly distributed and taxonomically unique species receive more scientific and societal attention, whereas colorfulness and phylogenetic proximity to humans correlates exclusively with societal attention. These results highlight a favoritism towards limited branches of the Tree of Life, and that scientific and societal priorities in biodiversity research broadly align. This suggests that we may be missing out on key species in our research and conservation agenda simply because they are not on our cultural radar.

ecology↗

bioRxiv2023

Functional convergence underground? The scale-dependency of community assembly processes in European cave spiders

Understanding how species assemble into communities is a central tenet in ecology. One of the most elusive questions is the relative contribution of environmental filtering versus limiting similarity. Important advances in this area have been achieved by looking at communities through a functional lens (i.e., the traits they express), so as to derive principles valid across species pools. Yet, even using traits in lieu of taxonomy, the issue remains controversial because i) environmental filtering and limiting similarity often act simultaneously in shaping communities; and ii) their effect is scale-dependent. We exploited the experimental arena offered by caves, island-like natural laboratories characterized by largely constant environmental gradients and a limited diversity of species and interactions. Leveraging uniquely available data on distribution and traits for European cave spiders, we tested explicit hypotheses about variations in community assembly rules across ecological gradients and scales. We demonstrate that environmental filtering and limiting similarity shape cave communities acting on trait evolution in opposing directions. These effects are strongly scale dependent, varying along multiple environmental gradients. Conversely, the effect of geography on trait composition is weak, indicating that trait turnover in space happens primarily by substitution of species pursuing similar functions due to strong environmental filters. Our findings reconcile contrasted views about the relative importance of the two main mechanisms shaping patterns of biodiversity, and provide a conceptual foundation to account for scaling effects in the study of community assembly.

ecology↗

bioRxiv2023

On the quest for novelty in ecology

The volume of scientific publications continues to grow, making it increasingly challenging for scholars to publish papers that capture readers attention. While making a truly significant discovery is one way to attract readership, another approach may involve tweaking the language to overemphasize the novelty of results. Using a dataset of 52,236 paper abstracts published between 1997 and 2017 in 17 ecological journals, we found that the relative frequency of novelty terms (e.g. groundbreaking, innovative) nearly doubled over time. All journals but one exhibited a positive trend in the use of novelty terms during the studied period. Conversely, we found no such trend for confirmatory terms (e.g. confirm, replicated). Importantly, only papers using novelty terms were associated with significantly higher citation counts and were more often published in journals with a higher impact factor. While increasing research opportunities are surely driving advances in ecology, the writing style of authors and the publishing habits of journals may better reflect the inherently confirmatory nature of ecological research. We call for an open discussion among researchers about the potential reasons and implications of this language-use and scientometrics issue.

ecology↗

bioRxiv2023

An expert-based global assessment of threats and conservation measures for subterranean ecosystems

Subterranean ecosystems host unique biodiversity and deliver important services to humans. Yet, available data for subterranean ecosystems are limited in space and/or taxonomic scope and global monitoring programs are absent, preventing practitioners to develop effective conservation and management strategies. Expert opinion may help overcome some of these knowledge gaps. We designed a global survey to quantify the importance of anthropogenic impacts and conservation measures for subterranean ecosystems. We obtained 279 responses from 155 experts in different subterranean habitats, taxa, and regions. Experts perceived surface habitat change, direct habitat destruction (e.g., pollution, damming, mining), and climate change as the most relevant threats impacting subterranean ecosystems. Legislation, land protection, and education were scored as the most effective conservation measures, whereas species-level conservation was deemed less relevant. Whenever lacking hard data, expert opinion may be an effective, largely available, yet often overlooked source of information to implement timely conservation interventions for subterranean ecosystems.

ecology↗

bioRxiv2022

Calculating functional diversity metrics using neighbor-joining trees

O_LIThe study of functional diversity (FD) provides ways to understand phenomena as complex as community assembly or the dynamics of biodiversity change under multiple pressures. Different frameworks are used to quantify FD, either based on dissimilarity matrices (e.g., Rao entropy, functional dendrograms) or multidimensional spaces (e.g. convex hulls, kernel-density hypervolumes). While the first does not enable the measurement of FD within a richness/divergence/regularity framework, or results in the distortion of the functional space, the latter does not allow for comparisons with phylogenetic diversity (PD) measures and can be extremely sensitive to outliers. C_LIO_LIWe propose the use of neighbor-joining trees (NJ) to represent and quantify functional diversity in a way that combines the strengths of current FD frameworks without many of their weaknesses. Our proposal is also uniquely suited for studies that compare FD with PD, as both share the use of trees (NJ or others) and the same mathematical principles. C_LIO_LIWe test the ability of this novel framework to represent the initial functional distances between species with minimal functional space distortion and sensitivity to outliers. The results using NJ are compared with conventional functional dendrograms, convex hulls, and kernel-density hypervolumes using both simulated and empirical datasets. C_LIO_LIUsing NJ we demonstrate that it is possible to combine much of the flexibility provided by multidimensional spaces with the simplicity of tree-based representations. Moreover, the method is directly comparable with PD measures, and enables quantification of the richness, divergence and regularity of the functional space. C_LI

ecology↗

bioRxiv2022

Climate change will redefine taxonomic, functional, and phylogenetic diversity patterns of Odonata in space and time

Climate change is rearranging the mosaic of biodiversity on our planet. These broad-scale species re-distributions will affect the structure of communities across multiple biodiversity facets (taxonomic, phylogenetic, and functional diversity). The current challenges to understand such effects involve focusing on organisms other than vertebrates and considering the signature of species redistribution on phylogenetic and functional diversity in addition to species composition. Using European dragonflies and damselflies (Odonata), we asked: i) how climate change will redefine taxonomic, phylogenetic, and functional diversity at continental scales; ii) which traits will mediate species response to global change; and iii) whether this response will be conserved across the phylogeny. First, we constructed stacked species distribution models for 107 species of Odonata under current and future climate conditions. Then, we quantified the temporal variation of taxonomic, functional and phylogenetic components, forecasting alpha and beta diversity changes through our geographical grid. Lastly, we used phylogenetic comparative models to test the influence of phylogeny and traits on range shifts. We observed broad latitudinal and altitudinal rearrangements in community composition driven by climate change. Given the high dispersal ability of Odonata, changes are predicted to be rapid, especially in areas experiencing faster climate change rates. According to our predictions, changes in species composition cascade to affect functional and phylogenetic diversity, determining broad turnovers in traits and evolutionary lineages. There was no clear phylogenetic signal in the range-shift response of European Odonata to climate change. According to our phylogenetic regression models, only body size and flight period can be partly correlated with observed range shifts. By considering all three primary facets of biodiversity, our results support the design of inclusive management and conservation strategies, accounting not only for the diversity of species, but also the services they provide and the phylogenetic heritage they carry in a targeted ecosystem.

ecology↗

bioRxiv2022

Taxonomic practice, creativity, and fashion: What's in a spider name?

Theres a secret pleasure in naming new species. Besides traditional etymologies recalling the sampling locality, habitat, or morphology of the species, etymologies may be tributes to some meaningful person (for example, the species collector, the authors husband or wife, or a celebrity), pop culture references, and even exercises of enigmatography. The possibility of choosing witty or even playful names for new species departs from the otherwise impersonal and old-fashioned writing style thats common in taxonomic papers; but, how has the descriptors choice for specific etymologies changed over the 300+ years since the introduction of the Linnaean binomial system of nomenclature? Using an unprecedented dataset of 48,464 etymologies (all valid species and subspecies of spiders described between 1757 and May 2020), we tested the hypothesis that species names given by taxonomists are deeply influenced by their cultural background. In particular, we asked whether naming practices change through space (continent in which the species was found) or have changed through time (year of description). We observed spatial and temporal differences in the way taxonomists name new species. In absolute terms, etymologies referring to morphology were the most frequently used. In relative terms, however, references to morphology peaked in 1850-1900 and then began to decline, with a parallel increase in etymologies dedicated to people and geography. Currently, these are the most widely used, with [~]38% of all etymologies of spider species described in the last ten years referring to geography, [~]25% to people, and [~]25% to morphology. Interestingly, there has been a dramatic increase in etymologies referring to pop culture and other cultural aspects in the last two decades, especially in Europe and the Americas. While such fashionable names often carry little or no biological information regarding the species itself, they help give visibility to the science of taxonomy, a discipline currently facing a profound crisis within academia. Taxonomy is among the most unchanged disciplines across the last centuries in terms of background, tools, rules, and writing style; but our analysis suggests that taxonomists remain deeply influenced by their living time and space.

scientific communication and education↗

bioRxiv2020

Habitat differences filter functional diversity of low dispersive microscopic animals

O_LIWhereas the study of patterns of distribution of microscopic animals has long been dominated by the ubiquity paradigm, we are starting to appreciate that microscopic animals are not as widespread as previously thought and that habitat preferences may have a strong role in structuring their patterns of occurrence. However, we still ignore to what extent and through which mechanisms the environment selects for specific communities or traits in microscopic animals. This gap is partly due to the lack of data on the relevant traits of many species, and partly because measuring environmental variables at an appropriate resolution may be problematic. C_LIO_LIWe here overcome both issues by analysing the functional space of marine mite communities living in a sea-grass (Posidonia oceanica) meadow across two habitats: the leaves and the matte. The strictly benthic lifestyle and the conserved morphology of mites allow for unambiguous characterization of their functional traits, while the discrete nature of the two habitats alleviates the uncertainty in their ecological characterization. C_LIO_LIOur results show that habitat filters the distribution of certain traits favouring a higher diversity, dispersion, and evenness of functional traits in the matte than in the leaves. We further observed temporal variations in the functional diversity of communities, potentially following the seasonal renovation and decay of seagrass leaves. However, in spite of the stark ecological differences between the two habitats and across seasons, the filtering effect is partial and affects mostly relative species abundances. C_LIO_LIWe conclude that in other microscopic organisms, habitat filtering might appear even more subtle especially if they are capable of long distance dispersal or occur in ecological systems where environmental variables vary continuously or fluctuate through time. Our study therefore emphasises the need of moving from a merely taxonomical toward a functional view of ecological studies of microscopic organisms if we want to achieve a mechanistic understanding of their habitat and distribution patterns. C_LI Data availability statementRaw data and R script to generate the analyses will be deposited in a public repository upon acceptance.

ecology↗

bioRxiv2020

Specialized terminology limits the reach of new scientific knowledge

Words are the building blocks of science. As our understanding of the world progresses, scientific disciplines naturally enrich their specialized vocabulary (jargon). However, in the era of interdisciplinarity, the use of jargon may hinder effective communication amongst scientists that do not share a common linguistic background. The question of how jargon limits the transmission of scientific knowledge has long been debated, but rarely addressed quantitatively. We explored the relationship between the use of jargon and citations using 21,486 articles focusing on cave research, a multidisciplinary field particularly prone to terminological specialization and where linguistic disagreement among peers is frequent. We demonstrate that the use of jargon in the title and abstract significantly reduces the number of citations a paper receives. Given that these elements are the hook to readers, we urge scientists to restrict jargon to sections of the paper where its use is unavoidable.

scientific communication and education↗

bioRxiv2020

Towards a taxonomically unbiased EU Biodiversity Strategy for 2030

Through the Habitats Directive (92/43/EEC) and the LIFE projects financial investments, Europe has been the world’s experimental arena for biological conservation. With an estimated budget of €20 billion/year, the EU Biodiversity Strategy for 2030 has set an ambitious goal of reaching 30% Protected Areas and ensure no deterioration in conservation trends and status of all protected species. We analyzed LIFE projects focused on animals from 1992 to 2018 and we found that investment towards vertebrates has been six times higher than that for invertebrates (€970 vs €150 million), with birds and mammals alone accounting for 72% species and 75% total budget. Budget allocation is primarily explained by species’ popularity. We propose a roadmap to achieve unbiased conservation targets for 2030 and beyond.Competing Interest StatementThe authors have declared no competing interest.View Full Text

ecology↗

bioRxiv2020

Media representation of spiders may exacerbate arachnophobic sentiments by framing a distorted perception of risk

ABSTRACTSpiders are able to arouse strong emotional reactions in humans. While spider bites are statistically rare events, our perception is skewed towards the potential harm spiders can cause to humans. We examined the human dimension of spiders through the lens of traditional media, by analysing more than 300 spider-related news published online in Italian newspapers between 2010 and 2020. We observed a recent, exponential increase in the frequency of the news, particularly those focused on medically important spiders – the Mediterranean black widow (Latrodectus tredecimguttatus) and the Mediterranean recluse (Loxosceles refescens). The news quality was generally poor: 70% contained different types of error, 32% were exaggerated, and in virtually none was an expert consulted. Overstated news referring to spider bites were significantly more shared on social media, thus contributing to frame a distorted perception of the risk associated with a spider bite and possibly reducing general public tolerance of spiders.Competing Interest StatementThe authors have declared no competing interest.View Full Text

scientific communication and education↗

bioRxiv2020

Scientometric correlates of high-quality reference lists in ecological papers

It is said that the quality of a scientific publication is as good as the science it cites, but the properties of high-quality reference lists have never been numerically quantified. We examined seven numerical characteristics of reference lists of 50,878 primary research articles published in 17 ecological journals between 1997 and 2017. Over this 20-years period, there have been significant changes in reference lists’ properties. On average, more recent ecological papers have longer reference lists, cite more high Impact Factor papers, and fewer non-journal publications. Furthermore, we show that highly cited papers across the ecology literature have longer reference lists, cite more recent and impactful papers, and account for more self-citations. Conversely, the proportion of ‘classic’ papers and non-journal publications cited, as well as the temporal range of the reference list, have no significant influence on articles’ citations. From this analysis, we distill a recipe for crafting impactful reference lists.View Full Text

scientific communication and education↗

bioRxiv2020

Functional diversity metrics using kernel density n-dimensional hypervolumes

O_LIThe use of n-dimensional hypervolumes in trait-based ecology is rapidly increasing. By representing the functional space of a species or community as a Hutchinsonian niche, the abstract Euclidean space defined by a set of independent axes corresponding to individuals or species traits, these multidimensional techniques show great potential for the advance of functional ecology theory. C_LIO_LIIn the panorama of existing methods for delineating multidimensional spaces, the R package hypervolume [Glob. Ecol. Biogeogr. (2014) 23:595-609] is currently the most used. However, functions for calculating the standard set of functional diversity (FD) indices--richness, divergence, and regularity--have not been developed within the hypervolume framework yet. This gap is delaying its full exploitation in functional ecology, meanwhile preventing the possibility to compare its performance with that of other methods. C_LIO_LIWe develop a set of functions to calculate FD indices based on n-dimensional hypervolumes, including alpha (richness), beta (and respective components), dispersion, evenness, contribution, and originality. Altogether, these indices provide a coherent framework to explore the primary mathematical components of FD within a multidimensional setting. These new functions can work either with hypervolume objects or raw data (species presence or abundance and their traits) as input data, and are versatile in terms of input parameters and options. C_LIO_LIThese functions are implemented within BAT (Biodiversity Assessment Tools), an R package for biodiversity assessments. As a coherent corpus of functional indices based on a common algorithm, it opens the possibility to fully explore the strengths of the Hutchinsonian niche concept in community ecology research. C_LI

ecology↗