Predicting species abundance distributions by simultaneously using number and biomass as units of measurement

The universal observation that some species in an ecological community are common, but many more are rare, is neatly encapsulated in a species abundance distribution (SAD)1. However, the shape of the distribution can depend on the currency used to measure abundance 2. Here we show how the SADs for numerical abundance and biomass are related and how this relationship can be used to predict the form of the SAD. When plotted in log numerical abundance, log biomass space, species points lie within an approximately triangular area the limits of which are set by body size range, and the upper limit of abundance in both metrics. Under the simplifying, but reasonable, assumption that the observed scatter of species within this region is random, the shape of the SAD is immediately derived from simple geometrical considerations. For the SAD of numerical abundance this is a power curve. The biomass SAD can be either a power curve or, more frequently, a unimodal curve, which can approximate a log normal. This log triangular random placement model serves as a null hypothesis against which actual communities can be compared. Data from two intensively surveyed local communities indicate that it can give a good approximation, with species scattered within a triangle. Further, we can predict the consequences, for the SAD, of size-selective sampling protocols. We argue that mechanistic models of SADs must be able to account for the relative abundance of species in alternative currencies. Moreover, this approach will shed light on niche packing and may have application in environmental monitoring

The important challenge of quantifying tropical diversity

The tropics are the repository of much of the world’s biodiversity, yet are undersampled relative to temperate regions. To help fill this knowledge gap, a paper in BMC Biology explores diversity patterns in tropical African plants, as revealed by the RAINBIO database. The paper documents spatial variation in diversity and data coverage, but also highlights the challenges faced in quantifying diversity patterns using data collated from a range of sources including herbaria. See research article: http://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0356-8.Publisher PDFPeer reviewe

Q&A: What is biodiversity?

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The Shape of Species Abundance Distributions Across Spatial Scales

Species abundance distributions (SADs) describe community structure and are a key component of biodiversity theory and research. Although different distributions have been proposed to represent SADs at different scales, a systematic empirical assessment of how SAD shape varies across wide scale gradients is lacking. Here, we examined 11 empirical large-scale datasets for a wide range of taxa and used maximum likelihood methods to compare the fit of the logseries, lognormal, and multimodal (i.e., with multiple modes of abundance) models to SADs across a scale gradient spanning several orders of magnitude. Overall, there was a higher prevalence of multimodality for larger spatial extents, whereas the logseries was exclusively selected as best fit for smaller areas. For many communities the shape of the SAD at the largest spatial extent (either lognormal or multimodal) was conserved across the scale gradient, despite steep declines in area and taxonomic diversity sampled. Additionally, SAD shape was affected by species richness, but we did not detect a systematic effect of the total number of individuals. Our results reveal clear departures from the predictions of two major macroecological theories of biodiversity for SAD shape. Specifically, neither the Neutral Theory of Biodiversity (NTB) nor the Maximum Entropy Theory of Ecology (METE) are able to accommodate the variability in SAD shape we encountered. This is highlighted by the inadequacy of the logseries distribution at larger scales, contrary to predictions of the NTB, and by departures from METE expectation across scales. Importantly, neither theory accounts for multiple modes in SADs. We suggest our results are underpinned by both inter- and intraspecific spatial aggregation patterns, highlighting the importance of spatial distributions as determinants of biodiversity patterns. Critical developments for macroecological biodiversity theories remain in incorporating the effect of spatial scale, ecological heterogeneity and spatial aggregation patterns in determining SAD shape.Peer reviewe

Global patterns in functional rarity of marine fish

Funding: I.T.S. thanks CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior -Coordination for the Improvement of Higher Education Personnel), process number: #88881.129579/2016–01 (Finance Code 001) for a PhD scholarship. A.E.M. thanks the Leverhulme Trust (RPG-2019–402) for support.Rare species, which represent a large fraction of the taxa in ecological assemblages, account for much of the biological diversity on Earth. These species make substantial contributions to ecosystem functioning, and are targets of conservation policy. Here we adopt an integrated approach, combining information on the rarity of species trait combinations, and their spatial restrictedness, to quantify the biogeography of rare fish (a taxon with almost 13,000 species) in the world’s oceans. We find concentrations of rarity, in excess of what is predicted by a null expectation, near the coasts and at higher latitudes. We also observe mismatches between these rarity hotspots and marine protected areas. This pattern is repeated for both major groupings of fish, the Actinopterygii (bony fish) and Elasmobranchii (sharks, skates and rays). These results uncover global patterns of rarity that were not apparent from earlier work, and highlight the importance of using metrics that incorporate information on functional traits in the conservation and management of global marine fishes.Publisher PDFPeer reviewe

Recent increases in assemblage rarity are linked to increasing local immigration

F.A.M.J.'s PhD was financed by the School of Biology, University of St Andrews. M.D. and A.E.M. acknowledge funding by the Leverhulme Trust. A.E.M. acknowledges funding from the European Research Council (ERC AdG BioTIME 250189 and ERC PoC BioCHANGE 727440).As pressures on biodiversity increase, a better understanding of how assemblages are responding is needed. Because rare species, defined here as those that have locally low abundances, make up a high proportion of assemblage species lists, understanding how the number of rare species within assemblages is changing will help elucidate patterns of recent biodiversity change. Here, we show that the number of rare species within assemblages is increasing, on average, across systems. This increase could arise in two ways: species already present in the assemblage decreasing in abundance but with no increase in extinctions, or additional species entering the assemblage in low numbers associated with an increase in immigration. The positive relationship between change in rarity and change in species richness provides evidence for the second explanation, i.e. higher net immigration than extinction among the rare species. These measurable changes in the structure of assemblages in the recent past underline the need to use multiple biodiversity metrics to understand biodiversity change.Publisher PDFPeer reviewe

Global change in the functional diversity of marine fisheries exploitation over the past 65 years

Funding: CAPES (Coordination for the Improvement of Higher Education Personnel), process number: #88881.129579/2016–01 (Finance Code 001). A.E.M. and F.M.thank the ERC (ERC AdG BioTIME 250189 and ERC PoC BioCHANGE 727440) and the Leverhulme Trust (RPG-2019–402) for support.Overexploitation is recognized as one of the main threats to global biodiversity. Here, we report a widespread change in the functional diversity of fisheries catches from the large marine ecosystems (LMEs) of the world over the past 65 years (1950 to 2014). The spatial and temporal trends of functional diversity exploited from the LMEs were calculated using global reconstructed marine fisheries catch data provided by the Sea Around Us initiative (including subsistence, artisanal, recreational, industrial fisheries, and discards) and functional trait data available in FishBase. Our analyses uncovered a substantial increase in the functional richness of both ray-finned fishes (80% of LMEs) and cartilaginous species (sharks and rays) (75% of LMESs), in line with an increase in the taxonomic richness, extracted from these ecosystems. The functional evenness and functional divergence of these catches have also altered substantially over the time span of this study, with considerable geographic variation in the patterns detected. These trends show that global fisheries are increasingly targeting species that play diverse roles within the marine ecosystem and underline the importance of incorporating functional diversity in ecosystem management.PostprintPeer reviewe

The guppy sex chromosome system and the sexually antagonistic polymorphism hypothesis for y chromosome recombination suppression

Sex chromosomes regularly evolve suppressed recombination, distinguishing them from other chromosomes, and the reason for this has been debated for many years. It is now clear that non-recombining sex-linked regions have arisen in different ways in different organisms. A major hypothesis is that a sex-determining gene arises on a chromosome and that sexually antagonistic (SA) selection (sometimes called intra-locus sexual conflict) acting at a linked gene has led to the evolution of recombination suppression in the region, to reduce the frequency of low fitness recombinant genotypes produced. The sex chromosome system of the guppy (Poecilia reticulata) is often cited as supporting this hypothesis because SA selection has been demonstrated to act on male coloration in natural populations of this fish, and probably contributes to maintaining polymorphisms for the genetic factors involved. I review classical genetic and new molecular genetic results from the guppy, and other fish, including approaches for identifying the genome regions carrying sex-determining loci, and suggest that the guppy may exemplify a recently proposed route to sex chromosome evolution

Predation pressure shapes brain anatomy in the wild

The predation pressure data were collected by AEM and AED as part of an ERC-funded project (BioTIME 250189), AEM was supported by the Royal Society, AK and NK were supported by the Knut and Alice Wallenberg Foundation (KAW2013.0072 to NK).There is remarkable diversity in brain anatomy among vertebrates and evidence is accumulating that predatory interactions are crucially important for this diversity. To test this hypothesis, we collected female guppies (Poecilia reticulata) from 16 wild populations and related their brain anatomy to several aspects of predation pressure in this ecosystem, such as the biomass of the four major predators of guppies (one prawn and three fish species), and predator diversity (number of predatory fish species in each site). We found that populations from localities with higher prawn biomass had relatively larger telencephalon size as well as larger brains. Optic tectum size was positively associated with one of the fish predator’s biomass and with overall predator diversity. However, both olfactory bulb and hypothalamus size were negatively associated with the biomass of another of the fish predators. Hence, while fish predator occurrence is associated with variation in brain anatomy, prawn occurrence is associated with variation in brain size. Our results suggest that cognitive challenges posed by local differences in predator communities may lead to changes in prey brain anatomy in the wild.Publisher PDFPeer reviewe