Abundance and local-scale processes contribute to multi-phyla gradients in global marine diversity

Colonization Dynamics Explain the Decoupling of Species Richness and Morphological Disparity in Syngnatharian Fishes across Oceans

AbstractA clear longitudinal gradient in species richness across oceans is observed in extant marine fishes, with the Indo-Pacific exhibiting the greatest diversity. Three non-mutually-exclusive evolutionary hypotheses have been proposed to explain this diversity gradient: time for speciation, center of accumulation, and in situ diversification rates. Using the morphologically disparate syngnatharians (seahorses, dragonets, goatfishes, and relatives) as a study system, we tested these hypotheses and additionally assessed whether patterns of morphological diversity are congruent with species richness patterns. We used well-sampled phylogenies and a suite of phylogenetic comparative methods (including a novel phylogenetically corrected Kruskal-Wallis test) that account for various sources of uncertainty to estimate rates of lineage diversification and morphological disparity within all three major oceanic realms (Indo-Pacific, Atlantic, and eastern Pacific), as well as within the Indo-Pacific region. We find similar lineage diversification rates across regions, indicating that increased syngnatharian diversity in the Indo-Pacific is due to earlier colonizations from the Tethys Sea followed by in situ speciation and more frequent colonizations during the Miocene coinciding with the formation of coral reefs. These results support both time for speciation and center of accumulation hypotheses. Unlike species richness unevenness, shape disparity and evolutionary rates are similar across oceans because of the early origin of major body plans and their subsequent spread via colonization rather than in situ evolution. Our results illustrate how species richness patterns became decoupled from morphological disparity patterns during the formation of a major biodiversity hot spot.

Fish and invertebrate communities show greater day-night partitioning on tropical than temperate reefs

Diel partitioning of animals within ecological communities is widely acknowledged, yet rarely quantified. Investigation of most ecological patterns and processes involves convenient daylight sampling, with little consideration of the contributions of nocturnal taxa, particularly in marine environments. Here we assess diel partitioning of reef faunal assemblages at a continental scale utilizing paired day and night visual census across 54 shallow tropical and temperate reefs around Australia. Day-night differences were most pronounced in the tropics, with fishes and invertebrates displaying distinct and opposing diel occupancy on coral reefs. Tropical reefs in daytime were occupied primarily by fishes not observed at night (64% of all species sighted across day and night, and 71% of all individuals). By night, substantial emergence of invertebrates not otherwise detected during sunlit hours occurred (56% of all species, and 45% of individuals). Nocturnal emergence of tropical invertebrates corresponded with significant declines in the richness and biomass of predatory and herbivorous diurnal fishes. In contrast, relatively small diel changes in fishes active on temperate reefs corresponded to limited nocturnal emergence of temperate invertebrates. This reduced partitioning may, at least in part, be a result of strong top-down pressures from fishes on invertebrate communities, either by predation or competitive interference. For shallow reefs, the diel cycle triggers distinct emergence and retreat of faunal assemblages and associated trophic patterns and processes, which otherwise go unnoticed during hours of regular scientific monitoring. Improved understanding of reef ecology, and management of reef ecosystems, requires greater consideration of nocturnal interactions. Without explicit sampling of nocturnal patterns and processes, we may be missing up to half of the story when assessing ecological interactions.

Streamlining large-scale oceanic biomonitoring using passive eDNA samplers integrated into vessel's continuous pump underway seawater systems

Passive samplers are enabling the scaling of environmental DNA (eDNA) biomonitoring in our oceans, by circumventing the time-consuming process of water filtration. Designing a novel passive sampler that does not require extensive sample handling time and can be connected to ocean-going vessels without impeding normal underway activities has potential to rapidly upscale global biomonitoring efforts onboard the world's oceanic fleet. Here, we demonstrate the utility of an artificial sponge sampler connected to the continuous pump underway seawater system as a means to enable oceanic biomonitoring. We compared the performance of this passive sampling protocol with standard water filtration at six locations during a research voyage from New Zealand to Antarctica in early 2023. Eukaryote metabarcoding of the mitochondrial COI gene revealed no significant difference in phylogenetic α-diversity between sampling methods and both methods delineated a progressive reduction in number of Zero-Radius Operational Taxonomic Units (ZOTUs) with increased latitudes. While both sampling methods revealed comparable trends in geographical community compositions, distinct clusters were identified for passive samplers and water filtration at each location. Additionally, greater variability between replicates was observed for passive samplers, resulting in an increased estimated level of replication needed to recover 90 % of the biodiversity. Furthermore, traditional water filtration failed to detect three phyla observed by passive samplers and extrapolation analysis estimated passive samplers recover a larger number of ZOTUs compared to water filtration for all six locations. Our results demonstrate the potential of this passive eDNA sampler protocol and highlight areas where this emerging technology could be improved, thereby enabling large-scale offshore marine eDNA biomonitoring by leveraging the world's oceanic fleet without interfering with onboard activities.

Neighbourhood benthic configuration reveals hidden co-occurrence social diversity

Ecological interactions among benthic communities are crucial for shaping marine ecosystems. Understanding these interactions is essential for predicting how ecosystems will respond to environmental changes, invasive species, and conservation management. However, determining the prevalence of species interactions at the community scale is challenging. To overcome this challenge, we employ tools from social network analysis, specifically exponential random graph modelling (ERGM). Our approach explores the relationships among animal and plant organisms within their neighbourhoods. Inspired by companion planting in agriculture, we use spatiotemporal co-occurrence as a measure of mixed species interaction. In other words, the variety of community interactions based on co-occurrence defines what we call 'co-occurrence social diversity'. Our objective is to use ERGM to quantify the proportion of interactions at both the simple paired level and the more complex triangle level, enabling us to measure and compare co-occurrence social diversity. Applying our approach to the Spanish coastal zone across eight sites, five depths, and sunlit/shaded aspects, we discover that 80% of sessile communities, consisting of over a hundred species, exhibit co-occurrence social diversity, with 5% of species consistently forming associations with other species. These organism-level interactions probably have a significant impact on the overall character of the site. This article is part of the theme issue 'Connected interactions: enriching food web research by spatial and social interactions'.

Abundance-diversity relationship as a unique signature of temporal scaling in the fossil record

Species diversity increases with the temporal grain of samples according to the species-time relationship (STR), impacting palaeoecological analyses because the temporal grain (time averaging) of fossil assemblages varies by several orders of magnitude. We predict a positive relation between total abundance and sample size-independent diversity (ADR) in fossil assemblages because an increase in time averaging, determined by a decreasing sediment accumulation, should increase abundance and depress species dominance. We demonstrate that, in contrast to negative ADR of non-averaged living assemblages, the ADR of Holocene fossil assemblages is positive, unconditionally or when conditioned on the energy availability gradient. However, the positive fossil ADR disappears when conditioned on sediment accumulation, demonstrating that ADR is a signature of diversity scaling induced by variable time averaging. Conditioning ADR on sediment accumulation can identify and remove the scaling effect caused by time averaging, providing an avenue for unbiased biodiversity comparisons across space and time.

Thermal tolerance as a driver of reef fish community structure at the isolated tropical Mid-Atlantic Ridge Islands

Reef fish communities are shaped by historical and ecological factors, including abiotic and biotic mechanisms at different spatial scales, determining species composition, abundance and biomass. The oceanic islands in the Mid-Atlantic Ridge (St. Peter and St. Paul's Archipelago - SPSPA, Ascension, and St. Helena), exhibiting differences in community structure along a 14-degree latitudinal and a 10 °C thermal gradient. We investigate the influence of sea surface temperature, area, age, isolation and phosphate on reef fish community structures. Reef fish trophic structure varies significantly across the islands, with planktivores and herbivore-detritivores showing the highest abundances in SPSPA and Ascension, while less abundant in St. Helena, aligning with the thermal gradient. Variations in reef fish community structures were predominantly influenced by thermal regimes, corroborating the expansion of species' thermal niche breadth at higher latitudes and lower temperatures. This study highlights that in addition to biogeographic factors, temperature is pivotal on shaping oceanic island reef fish community structure.

Mean reef fish body size decreases towards warmer waters

Aquatic ectotherms often attain smaller body sizes at higher temperatures. By analysing ~15,000 coastal-reef fish surveys across a 15°C spatial sea surface temperature (SST) gradient, we found that the mean length of fish in communities decreased by ~5% for each 1°C temperature increase across space, or 50% decrease in mean length from 14 to 29°C mean annual SST. Community mean body size change was driven by differential temperature responses within trophic groups and temperature-driven change in their relative abundance. Herbivores, invertivores and planktivores became smaller on average in warmer temperatures, but no trend was found in piscivores. Nearly 25% of the temperature-related community mean size trend was attributable to trophic composition at the warmest sites, but at colder temperatures, this was <1% due to trophic groups being similarly sized. Our findings suggest that small changes in temperature are associated with large changes in fish community composition and body sizes, with important ecological implications.

Marine latitudinal diversity gradients are generally absent in intertidal ecosystems

Current latitudinal diversity gradient (LDG) meta-analyses have failed to distinguish one of the most widespread marine habitats, the intertidal zone, as a separate system despite it having unique abiotic challenges and spatially compressed stress gradients that affect the distribution and abundance of resident species. We address this issue by revisiting published literature and datasets on LDGs since 1911 to explore LDG patterns and their strengths in intertidal benthic, subtidal benthic, and pelagic realms and discuss the importance of recognizing intertidal ecosystems as distinct. Rocky shorelines were the most studied intertidal ecosystem encompassing 64.2% of intertidal LDG studies, and 62.9% of studies focused on assemblage composition, while the remaining 37.1% of studies were taxa specific. While our analyses confirmed LDGs in subtidal benthic and pelagic realms, with a decrease in richness toward the poles, we found no consistent intertidal LDGs in any ocean or coastline across hemispheres or biodiversity unit. Analyzing intertidal and subtidal zones as separate systems increased the strength of subtidal benthic LDGs relative to analyses combining these systems. We demonstrate that in intertidal ecosystems across oceans in both hemispheres, a latitudinal decrease in species richness is not readily apparent, which stands in contrast with significant LDG patterns found in the subtidal realm. Intertidal habitat heterogeneity, regional environmental variability and biological interactions can create species-rich hot spots independent of latitude, which may functionally outweigh a typical latitudinal decline in species richness. Although previous work has shown weaker LDGs in benthic than pelagic systems, we demonstrate that this is caused by combining subtidal and intertidal benthic ecosystems into a single benthic category. Thus, we propose that subtidal and intertidal ecosystems cannot be combined into one entity as the physical and biological parameters controlling ecosystem processes are vastly different, even among intertidal ecosystems. Thus, the intertidal zone offers a unique model system in which hypotheses can be further tested to better understand the complex processes underlying LDGs.

Exceptional endemicity of Aotearoa New Zealand biota shows how taxa dispersal traits, but not phylogeny, correlate with global species richness

Species' with more limited dispersal and consequently less gene flow are more likely to form new spatially segregated species and thus contribute disproportionally to endemic biota and global species richness. Aotearoa New Zealand has exceptional endemicity, with 52% of its 54,000 named species endemic, including 32%, 39% and 68% for freshwater, marine and terrestrial environments respectively. The lower endemicity of freshwater biota (excluding insects) is attributed to their need to disperse between habitats that are temporary on evolutionary timescales. The percent endemicity of higher taxa (Order to Kingdom), a measure of phylogenetic relationships, was not correlated with regional and global species richness. However, there was a positive correlation between endemicity and species richness across dispersal trait groups based on their environment, typical body size, mobility (including flight), and if marine, whether pelagic or benthic. Typically flighted taxa had high endemicity contrary to the dispersal-endemicity hypothesis, but reflecting exceptional isolation by distance and time, and reduced flight ability as occurs on islands. It is proposed that the high richness and endemicity of mobile macrofauna is caused by a combination of niche specialisation opportunities and predation limiting dispersal respectively. Thus, dispersal traits better predicted endemicity and global species richness than phylogeny.

Continent-wide declines in shallow reef life over a decade of ocean warming

Human society is dependent on nature^1,2, but whether our ecological foundations are at risk remains unknown in the absence of systematic monitoring of species' populations³. Knowledge of species fluctuations is particularly inadequate in the marine realm⁴. Here we assess the population trends of 1,057 common shallow reef species from multiple phyla at 1,636 sites around Australia over the past decade. Most populations decreased over this period, including many tropical fishes, temperate invertebrates (particularly echinoderms) and southwestern Australian macroalgae, whereas coral populations remained relatively stable. Population declines typically followed heatwave years, when local water temperatures were more than 0.5 °C above temperatures in 2008. Following heatwaves^5,6, species abundances generally tended to decline near warm range edges, and increase near cool range edges. More than 30% of shallow invertebrate species in cool latitudes exhibited high extinction risk, with rapidly declining populations trapped by deep ocean barriers, preventing poleward retreat as temperatures rise. Greater conservation effort is needed to safeguard temperate marine ecosystems, which are disproportionately threatened and include species with deep evolutionary roots. Fundamental among such efforts, and broader societal needs to efficiently adapt to interacting anthropogenic and natural pressures, is greatly expanded monitoring of species' population trends^7,8.

Discovering marine biodiversity in the 21st century

We review the current knowledge of the biodiversity of the ocean as well as the levels of decline and threat for species and habitats. The lack of understanding of the distribution of life in the ocean is identified as a significant barrier to restoring its biodiversity and health. We explore why the science of taxonomy has failed to deliver knowledge of what species are present in the ocean, how they are distributed and how they are responding to global and regional to local anthropogenic pressures. This failure prevents nations from meeting their international commitments to conserve marine biodiversity with the results that investment in taxonomy has declined in many countries. We explore a range of new technologies and approaches for discovery of marine species and their detection and monitoring. These include: imaging methods, molecular approaches, active and passive acoustics, the use of interconnected databases and citizen science. Whilst no one method is suitable for discovering or detecting all groups of organisms many are complementary and have been combined to give a more complete picture of biodiversity in marine ecosystems. We conclude that integrated approaches represent the best way forwards for accelerating species discovery, description and biodiversity assessment. Examples of integrated taxonomic approaches are identified from terrestrial ecosystems. Such integrated taxonomic approaches require the adoption of cybertaxonomy approaches and will be boosted by new autonomous sampling platforms and development of machine-speed exchange of digital information between databases.

Reef Fish Diversity Across the Temperate South Pacific Ocean

Patterns of species richness and their structuring forces at multiple scales provide a critical context for research efforts focusing on ecology, evolution, and conservation. Diversity gradients have been demonstrated in tropical reef fish, but corresponding patterns and mechanisms remain poorly understood in temperate regions. We conducted hierarchical (spatially nested) sampling of temperate reef fish faunas across &gt; 140 degrees of longitude in the eastern and western South Pacific Ocean. Our sampling efforts spanned five distinct provinces: the Southeast Australian Shelf (SAS), Northern and Southern New Zealand (N-SNZ), Juan Fernandez and Desventuradas Islands (JFD), and the Warm Temperate Southeastern Pacific (WTPA). We evaluated (i) spatial variation in patterns of species richness and abundance (using Chao 1 index), and distribution of functional diversity (using several functional attributes: max body size, trophic groups, feeding guilds, trophic level, habitat use, gregariousness, and activity patterns) and (ii) scale-dependencies in these patterns. Species richness declined from west to east across the temperate South Pacific, but this pattern was detectable only across larger spatial scales. A functional redundancy index was significantly higher in the western South Australian Shelf at multiple scales, revealing that species contribute in equivalent ways to an ecosystem function such that one species may substitute for another. We also detected that patterns of variation in functional diversity differed from patterns of variation in species richness, and were also dependent on the spatial scale of analysis. Lastly, we identified that species’ traits are not equally distributed among reef fish assemblages, where some provinces are characterized by a distinct functional component within their reef fish assemblages. Planktivorous and schooling species, for instance, dominated the assemblages in the eastern Pacific, which is characterized by higher primary productivity and steep bathymetric slopes favoring these traits. Demersal and pairing behavior traits dominated the reef fish assemblages in western Pacific provinces (SAS, SNZ). We conclude that combining the identifies and species’ traits allow us to disentangle historical, biogeographic and environmental factors that structure reef fish fauna.

Marine diversity patterns in Australia are filtered through biogeography

Latitudinal diversity gradients are among the most striking patterns in nature. Despite a large body of work investigating both geographic and environmental drivers, biogeographical provinces have not been included in statistical models of diversity patterns. Instead, spatial studies tend to focus on species-area and local-regional relationships. Here, we investigate correlates of a latitudinal diversity pattern in Australian coastal molluscs. We use an online database of greater than 300 000 specimens and quantify diversity using four methods to account for sampling variation. Additionally, we present a biogeographic scheme using factor analysis that allows for both gradients and sharp boundaries between clusters. The factors are defined on the basis of species composition and are independent of diversity. Regardless of the measure used, diversity is not directly explained by combinations of abiotic variables. Instead, transitions between regions better explain the observed patterns. Biogeographic gradients can in turn be explained by environmental variables, suggesting that environmental controls on diversity may be indirect. Faunas within provinces are homogeneous regardless of environmental variability. Thus, transitions between provinces explain most of the variation in diversity because small-scale factors are dampened. This explanation contrasts with the species-energy hypothesis. Future work should more carefully consider biogeographic gradients when investigating diversity patterns.

Climate change: Large-scale abundance shifts in fishes

Warming seas are driving a mass-scale restructuring of marine life, with observed responses expanding beyond species' range shifts. New evidence highlights large regions where ecological change has been dominated by the declining abundance of species that prefer cooler waters.

How many replicates to accurately estimate fish biodiversity using environmental DNA on coral reefs?

Quantifying fish species diversity in rich tropical marine environments remains challenging. Environmental DNA (eDNA) metabarcoding is a promising tool to face this challenge through the filtering, amplification, and sequencing of DNA traces from water samples. However, because eDNA concentration is low in marine environments, the reliability of eDNA to detect species diversity can be limited. Using an eDNA metabarcoding approach to identify fish Molecular Taxonomic Units (MOTUs) with a single 12S marker, we aimed to assess how the number of sampling replicates and filtered water volume affect biodiversity estimates. We used a paired sampling design of 30 L per replicate on 68 reef transects from 8 sites in 3 tropical regions. We quantified local and regional sampling variability by comparing MOTU richness, compositional turnover, and compositional nestedness. We found strong turnover of MOTUs between replicated pairs of samples undertaken in the same location, time, and conditions. Paired samples contained non-overlapping assemblages rather than subsets of one another. As a result, non-saturated localized diversity accumulation curves suggest that even 6 replicates (180 L) in the same location can underestimate local diversity (for an area <1 km). However, sampling regional diversity using ~25 replicates in variable locations (often covering 10 s of km) often saturated biodiversity accumulation curves. Our results demonstrate variability of diversity estimates possibly arising from heterogeneous distribution of eDNA in seawater, highly skewed frequencies of eDNA traces per MOTU, in addition to variability in eDNA processing. This high compositional variability has consequences for using eDNA to monitor temporal and spatial biodiversity changes in local assemblages. Avoiding false-negative detections in future biomonitoring efforts requires increasing replicates or sampled water volume to better inform management of marine biodiversity using eDNA.

Evolutionary drivers of the hump-shaped latitudinal gradient of benthic polychaete species richness along the Southeastern Pacific coast

Latitudinal diversity gradients (LDG) and their explanatory factors are among the most challenging topics in macroecology and biogeography. Despite of its apparent generality, a growing body of evidence shows that 'anomalous' LDG (i.e., inverse or hump-shaped trends) are common among marine organisms along the Southeastern Pacific (SEP) coast. Here, we evaluate the shape of the LDG of marine benthic polychaetes and its underlying causes using a dataset of 643 species inhabiting the continental shelf (<200 m depth), using latitudinal bands with a spatial resolution of 0.5°, along the SEP (3-56° S). The explanatory value of six oceanographic (Sea Surface Temperature (SST), SST range, salinity, salinity range, primary productivity and shelf area), and one macroecological proxy (median latitudinal range of species) were assessed using a random forest model. The taxonomic structure was used to estimate the degree of niche conservatism of predictor variables and to estimate latitudinal trends in phylogenetic diversity, based on three indices (phylogenetic richness (PD_SES), mean pairwise distance (MPD_SES), and variation of pairwise distances (VPD)). The LDG exhibits a hump-shaped trend, with a maximum peak of species richness at ca. 42° S, declining towards northern and southern areas of SEP. The latitudinal pattern was also evident in local samples controlled by sampling effort. The random forest model had a high accuracy (pseudo-r² = 0.95) and showed that the LDG could be explained by four variables (median latitudinal range, SST, salinity, and SST range), yet the functional relationship between species richness and these predictors was variable. A significant degree of phylogenetic conservatism was detected for the median latitudinal range and SST. PD_SES increased toward the southern region, whereas VPD showed the opposite trend, both statistically significant. MPD_SES has the same trend as PD_SES, but it is not significant. Our results reinforce the idea that the south Chile fjord area, particularly the Chiloé region, was likely the evolutionary source of new species of marine polychaetes along SEP, creating a hotspot of diversity. Therefore, in the same way as the canonical LDG shows a decline in diversity while moving away from the tropics; on this case the decline occurs while moving away from Chiloé Island. These results, coupled with a strong phylogenetic signal of the main predictor variables suggest that processes operating mainly at evolutionary timescales govern the LDG.

The distribution of benthic amphipod crustaceans in Indonesian seas

Amphipod crustaceans are an essential component of tropical marine biodiversity. However, their distribution and biogeography have not been analysed in one of the world’s largest tropical countries nested in the Coral Triangle, Indonesia. We collected and identified amphipod crustaceans from eight sites in Indonesian waters and combined the results with data from 32 additional sites in the literature. We analysed the geographic distribution of 147 benthic amphipod crustaceans using cluster analysis and the ‘Bioregions Infomaps’ neural network method of biogeographic discrimination. We found five groups of benthic amphipod crustaceans which show relationships with sampling methods, depth, and substrata. Neural network biogeographic analysis indicated there was only one biogeographic region that matched with the global amphipod regions and marine biogeographic realms defined for all marine taxa. There was no support for Wallaces or other lines being marine biogeographic boundaries in the region. Species richness was lower than expected considering the region is within the Coral Triangle. We hypothesise that this low richness might be due to the intense fish predation which may have limited amphipod diversification. The results indicated that habitat rather than biogeography determines amphipod distribution in Indonesia. Therefore, future research needs to sample more habitats, and consider habitat in conservation planning.

Trait similarity in reef fish faunas across the world's oceans

Species' traits, rather than taxonomic identities, determine community assembly and ecosystem functioning, yet biogeographic patterns have been far less studied for traits. While both environmental conditions and evolutionary history shape trait biogeography, their relative contributions are largely unknown for most organisms. Here, we explore the global biogeography of reef fish traits for 2,786 species from 89 ecoregions spanning eight marine realms with contrasting environmental conditions and evolutionary histories. Across realms, we found a common structure in the distribution of species traits despite a 10-fold gradient in species richness, with a defined "backbone" of 21 trait combinations shared by all realms globally, both temperate and tropical. Across ecoregions, assemblages under similar environmental conditions had similar trait compositions despite hosting drastically different species pools from separate evolutionary lineages. Thus, despite being separated by thousands of kilometers and millions of years of evolution, similar environments host similar trait compositions in reef fish assemblages worldwide. Our findings suggest that similar trait-based management strategies can be applied among regions with distinct species pools, potentially improving conservation outcomes across diverse jurisdictions.

Global gradients in intertidal species richness and functional groups

Whether global latitudinal diversity gradients exist in rocky intertidal α-diversity and across functional groups remains unknown. Using literature data from 433 intertidal sites, we investigated α-diversity patterns across 155° of latitude, and whether local-scale or global-scale structuring processes control α-diversity. We, furthermore, investigated how the relative composition of functional groups changes with latitude. α-Diversity differed among hemispheres with a mid-latitudinal peak in the north, and a non-significant unimodal pattern in the south, but there was no support for a tropical-to-polar decrease in α-diversity. Although global-scale drivers had no discernible effect, the local-scale drivers significantly affected α-diversity, and our results reveal that latitudinal diversity gradients are outweighed by local processes. In contrast to α-diversity patterns, species richness of three functional groups (predators, grazers, and suspension feeders) declined with latitude, coinciding with an inverse gradient in algae. Polar and tropical intertidal data were sparse, and more sampling is required to improve knowledge of marine biodiversity.

Thorson J. Are we ready to track climate-driven shifts in marine species across international boundaries? - A global survey of scientific bottom trawl data

Marine biota are redistributing at a rapid pace in response to climate change and shifting seascapes. While changes in fish populations and community structure threaten the sustainability of fisheries, our capacity to adapt by tracking and projecting marine species remains a challenge due to data discontinuities in biological observations, lack of data availability, and mismatch between data and real species distributions. To assess the extent of this challenge, we review the global status and accessibility of ongoing scientific bottom trawl surveys. In total, we gathered metadata for 283,925 samples from 95 surveys conducted regularly from 2001 to 2019. We identified that 59% of the metadata collected are not publicly available, highlighting that the availability of data is the most important challenge to assess species redistributions under global climate change. Given that the primary purpose of surveys is to provide independent data to inform stock assessment of commercially important populations, we further highlight that single surveys do not cover the full range of the main commercial demersal fish species. An average of 18 surveys is needed to cover at least 50% of species ranges, demonstrating the importance of combining multiple surveys to evaluate species range shifts. We assess the potential for combining surveys to track transboundary species redistributions and show that differences in sampling schemes and inconsistency in sampling can be overcome with spatio-temporal modeling to follow species density redistributions. In light of our global assessment, we establish a framework for improving the management and conservation of transboundary and migrating marine demersal species. We provide directions to improve data availability and encourage countries to share survey data, to assess species vulnerabilities, and to support management adaptation in a time of climate-driven ocean changes.

Latitude and protection affect decadal trends in reef trophic structure over a continental scale

The relative roles of top-down (consumer-driven) and bottom-up (resource-driven) forcing in exploited marine ecosystems have been much debated. Examples from a variety of marine systems of exploitation-induced, top-down trophic forcing have led to a general view that human-induced predator perturbations can disrupt entire marine food webs, yet other studies that have found no such evidence provide a counterpoint. Though evidence continues to emerge, an unresolved debate exists regarding both the relative roles of top-down versus bottom-up forcing and the capacity of human exploitation to instigate top-down, community-level effects. Using time-series data for 104 reef communities spanning tropical to temperate Australia from 1992 to 2013, we aimed to quantify relationships among long-term trophic group population density trends, latitude, and exploitation status over a continental-scale biogeographic range. Specifically, we amalgamated two long-term monitoring databases of marine community dynamics to test for significant positive or negative trends in density of each of three key trophic levels (predators, herbivores, and algae) across the entire time series at each of the 104 locations. We found that trophic control tended toward bottom-up driven in tropical systems and top-down driven in temperate systems. Further, alternating long-term population trends across multiple trophic levels (a method of identifying trophic cascades), presumably due to top-down trophic forcing, occurred in roughly fifteen percent of locations where the prerequisite significant predator trends occurred. Such alternating trophic trends were significantly more likely to occur at locations with increasing predator densities over time. Within these locations, we found a marked latitudinal gradient in the prevalence of long-term, alternating trophic group trends, from rare in the tropics (<5% of cases) to relatively common in temperate areas (~45%). Lastly, the strongest trends in predator and algal density occurred in older no-take marine reserves; however, exploitation status did not affect the likelihood of alternating long-term trophic group trends occurring. Our data suggest that the type and degree of trophic forcing in this system are likely related to one or more covariates of latitude, and that ecosystem resiliency to top-down control does not universally vary in this system based on exploitation level.

Temperature-related biodiversity change across temperate marine and terrestrial systems

Climate change is reshaping global biodiversity as species respond to changing temperatures. However, the net effects of climate-driven species redistribution on local assemblage diversity remain unknown. Here, we relate trends in species richness and abundance from 21,500 terrestrial and marine assemblage time series across temperate regions (23.5-60.0° latitude) to changes in air or sea surface temperature. We find a strong coupling between biodiversity and temperature changes in the marine realm, where species richness mostly increases with warming. However, biodiversity responses are conditional on the baseline climate, such that in initially warmer locations richness increase is more pronounced while abundance declines with warming. In contrast, we do not detect systematic temperature-related richness or abundance trends on land, despite a greater magnitude of warming. As the world is committed to further warming, substantial challenges remain in maintaining local biodiversity amongst the non-uniform inflow and outflow of 'climate migrants'. Temperature-driven community restructuring is especially evident in the ocean, whereas climatic debt may be accumulating on land.

Pelagic fish predation is stronger at temperate latitudes than near the equator

Species interactions are widely thought to be strongest in the tropics, potentially contributing to the greater number of species at lower latitudes. Yet, empirical tests of this "biotic interactions" hypothesis remain limited and often provide mixed results. Here, we analyze 55 years of catch per unit effort data from pelagic longline fisheries to estimate the strength of predation exerted by large predatory fish in the world's oceans. We test two central tenets of the biotic interactions hypothesis: that predation is (1) strongest near the equator, and (2) positively correlated with species richness. Counter to these predictions, we find that predation is (1) strongest in or near the temperate zone and (2) negatively correlated with oceanic fish species richness. These patterns suggest that, at least for pelagic fish predation, common assumptions about the latitudinal distribution of species interactions do not apply, thereby challenging a leading explanation for the latitudinal gradient in species diversity.

Kelp forests at the end of the earth: 45 years later

The kelp forests of southern South America are some of the least disturbed on the planet. The remoteness of this region has, until recently, spared it from many of the direct anthropogenic stressors that have negatively affected these ecosystems elsewhere. Re-surveys of 11 locations at the easternmost extent of Tierra del Fuego originally conducted in 1973 showed no significant differences in the densities of adult and juvenile Macrocystis pyrifera kelp or kelp holdfast diameter between the two survey periods. Additionally, sea urchin assemblage structure at the same sites were not significantly different between the two time periods, with the dominant species Loxechinus albus accounting for 66.3% of total sea urchin abundance in 2018 and 61.1% in 1973. Time series of Landsat imagery of the region from 1998 to 2018 showed no long-term trends in kelp canopy over the past 20 years. However, ~ 4-year oscillations in canopy fraction were observed and were strongly and negatively correlated with the NOAA Multivariate ENSO index and sea surface temperature. More extensive surveying in 2018 showed significant differences in benthic community structure between exposed and sheltered locations. Fish species endemic to the Magellanic Province accounted for 73% of all nearshore species observed and from 98-100% of the numerical abundance enumerated at sites. Fish assemblage structure varied significantly among locations and wave exposures. The recent creation of the Yaganes Marine Park is an important step in protecting this unique and biologically rich region; however, the nearshore waters of the region are currently not included in this protection. There is a general lack of information on changes in kelp forests over long time periods, making a global assessment difficult. A complete picture of how these ecosystems are responding to human pressures must also include remote locations and locations with little to no impact.

Beyond the visual: using metabarcoding to characterize the hidden reef cryptobiome

In an era of coral reef degradation, our knowledge of ecological patterns in reefs is biased towards large conspicuous organisms. The majority of biodiversity, however, inhabits small cryptic spaces within the framework of the reef. To assess this biodiverse community, which we term the ‘reef cryptobiome’, we deployed 87 autonomous reef monitoring structures (ARMS), on 22 reefs across 16 degrees latitude of the Red Sea. Combining ARMS with metabarcoding of the mitochondrial cytochrome oxidase I gene, we reveal a rich community, including the identification of 14 metazoan phyla within 10 416 operational taxonomic units (OTUs). While mobile and sessile subsets were similarly structured along the basin, the main environmental driver was different (particulate organic matter and sea surface temperature, respectively). Distribution patterns of OTUs showed that only 1.5% were present in all reefs, while over half were present in a single reef. On both local and regional scales, the majority of OTUs were rare. The high heterogeneity in community patterns of the reef cryptobiome has implications for reef conservation. Understanding the biodiversity patterns of this critical component of reef functioning will enable a sound knowledge of how coral reefs will respond to future anthropogenic impacts.

On the importance of habitat continuity for delimiting biogeographic regions and shaping richness gradients

The formation and maintenance of biogeographic regions and the latitudinal gradient of species richness are thought to be influenced, in part, by the spatial distribution of physical habitat (habitat continuity). But the importance of habitat continuity in relation to other variables for shaping richness gradients and delimiting biogeographic regions has not been well established. Here, we show that habitat continuity is a top predictor of biogeographic structure and the richness gradient of eastern Pacific rocky shore gastropods (spanning c. 23 000 km, from 43°S to 48°N). Rocky shore habitat continuity is generally low within tropical/subtropical regions (compared to extratropical regions), but particularly at biogeographic boundaries where steep richness gradients occur. Regions of high rocky shore habitat continuity are located towards the centres of biogeographic regions where species turnover tends to be relatively low. Our study highlights the importance of habitat continuity to help explain patterns and processes shaping the biogeographic organisation of species.

The future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystems

The bioassessment of aquatic ecosystems is currently based on various biotic indices that use the occurrence and/or abundance of selected taxonomic groups to define ecological status. These conventional indices have some limitations, often related to difficulties in morphological identification of bioindicator taxa. Recent development of DNA barcoding and metabarcoding could potentially alleviate some of these limitations, by using DNA sequences instead of morphology to identify organisms and to characterize a given ecosystem. In this paper, we review the structure of conventional biotic indices, and we present the results of pilot metabarcoding studies using environmental DNA to infer biotic indices. We discuss the main advantages and pitfalls of metabarcoding approaches to assess parameters such as richness, abundance, taxonomic composition and species ecological values, to be used for calculation of biotic indices. We present some future developments to fully exploit the potential of metabarcoding data and improve the accuracy and precision of their analysis. We also propose some recommendations for the future integration of DNA metabarcoding to routine biomonitoring programs.

Habitat complexity effects on diversity and abundance differ with latitude: an experimental study over 20 degrees

Habitat complexity is accepted as a general mechanism for increasing the abundance and diversity of communities. However, the circumstances under which complexity has the strongest effects are not clear. Over 20 degrees of Australia's east coast, we tested whether the effects of within-site structural habitat complexity on the diversity and community structure of sessile marine invertebrates was consistent over a latitudinal gradient where environmental conditions and species composition vary. We used experimental arrays with varied structural treatments to detect whether community cover, species richness, diversity and community composition (β-diversity) changed with increasing complexity. Community response to complexity varied over latitude due to differences in species richness and community development. Increased complexity had the greatest positive effects on community cover and species richness at higher latitudes where recruitment and growth were low. At lower latitudes, community cover and species richness were higher overall and did not vary substantially between complexity treatments. Latitudinal variation in within-treatment β-diversity relative to complexity further suggest divergent community responses. At higher latitudes, increased similarity in more complex treatments suggests community dominance of successful taxonomic groups. Despite limited effects on species richness and community cover at lower latitudes, β-diversity was higher in more complex treatments, signifying potential positive effects of increased complexity at these sites. These results demonstrate the context-dependency of complexity effects in response to variation in species richness and community development and should be taken into consideration to help direct conservation and restoration efforts.

Ecosystem restructuring along the Great Barrier Reef following mass coral bleaching

Global warming is markedly changing diverse coral reef ecosystems through an increasing frequency and magnitude of mass bleaching events^1-3. How local impacts scale up across affected regions depends on numerous factors, including patchiness in coral mortality, metabolic effects of extreme temperatures on populations of reef-dwelling species⁴ and interactions between taxa. Here we use data from before and after the 2016 mass bleaching event to evaluate ecological changes in corals, algae, fishes and mobile invertebrates at 186 sites along the full latitudinal span of the Great Barrier Reef and western Coral Sea. One year after the bleaching event, reductions in live coral cover of up to 51% were observed on surveyed reefs that experienced extreme temperatures; however, regional patterns of coral mortality were patchy. Consistent declines in coral-feeding fishes were evident at the most heavily affected reefs, whereas few other short-term responses of reef fishes and invertebrates could be attributed directly to changes in coral cover. Nevertheless, substantial region-wide ecological changes occurred that were mostly independent of coral loss, and instead appeared to be linked directly to sea temperatures. Community-wide trophic restructuring was evident, with weakening of strong pre-existing latitudinal gradients in the diversity of fishes, invertebrates and their functional groups. In particular, fishes that scrape algae from reef surfaces, which are considered to be important for recovery after bleaching², declined on northern reefs, whereas other herbivorous groups increased on southern reefs. The full impact of the 2016 bleaching event may not be realized until dead corals erode during the next decade^5,6. However, our short-term observations suggest that the recovery processes, and the ultimate scale of impact, are affected by functional changes in communities, which in turn depend on the thermal affinities of local reef-associated fauna. Such changes will vary geographically, and may be particularly acute at locations where many fishes and invertebrates are close to their thermal distribution limits⁷.

Trophic interactions among vertebrate guilds and plants shape global patterns in species diversity

Trophic interactions play critical roles in structuring biotic communities. Understanding variation in trophic interactions among systems provides important insights into biodiversity maintenance and conservation. However, the relative importance of bottom-up versus top-down trophic processes for broad-scale patterns in biodiversity is poorly understood. Here, we used global datasets on species richness of vascular plants, mammals and breeding birds to evaluate the role of trophic interactions in shaping large-scale diversity patterns. Specifically, we used non-recursive structural equation models to test for top-down and bottom-up forcing of global species diversity patterns among plants and trophic guilds of mammals and birds (carnivores, invertivores and herbivores), while accounting for extrinsic environmental drivers. The results show that trophic linkages emerged as being more important to explaining species richness than extrinsic environmental drivers. In particular, there were strong, positive top-down interactions between mammal herbivores and plants, and moderate to strong bottom-up and/or top-down interactions between herbivores/invertivores and carnivores. Estimated trophic interactions for separate biogeographical regions were consistent with global patterns. Our findings demonstrate that, after accounting for environmental drivers, large-scale species richness patterns in plant and vertebrate taxa consistently support trophic interactions playing a major role in shaping global patterns in biodiversity. Furthermore, these results suggest that top-down forces often play strong complementary roles relative to bottom-up drivers in structuring biodiversity patterns across trophic levels. These findings underscore the importance of integrating trophic forcing mechanisms into studies of biodiversity patterns.

Marine biodiversity at the end of the world: Cape Horn and Diego Ramírez islands

The vast and complex coast of the Magellan Region of extreme southern Chile possesses a diversity of habitats including fjords, deep channels, and extensive kelp forests, with a unique mix of temperate and sub-Antarctic species. The Cape Horn and Diego Ramírez archipelagos are the most southerly locations in the Americas, with the southernmost kelp forests, and some of the least explored places on earth. The giant kelp Macrocystis pyrifera plays a key role in structuring the ecological communities of the entire region, with the large brown seaweed Lessonia spp. forming dense understories. Kelp densities were highest around Cape Horn, followed by Diego Ramírez, and lowest within the fjord region of Francisco Coloane Marine Park (mean canopy densities of 2.51 kg m-2, 2.29 kg m-2, and 2.14 kg m-2, respectively). There were clear differences in marine communities among these sub-regions, with the lowest diversity in the fjords. We observed 18 species of nearshore fishes, with average species richness nearly 50% higher at Diego Ramírez compared with Cape Horn and Francisco Coloane. The number of individual fishes was nearly 10 times higher at Diego Ramírez and 4 times higher at Cape Horn compared with the fjords. Dropcam surveys of mesophotic depths (53-105 m) identified 30 taxa from 25 families, 15 classes, and 7 phyla. While much of these deeper habitats consisted of soft sediment and cobble, in rocky habitats, echinoderms, mollusks, bryozoans, and sponges were common. The southern hagfish (Myxine australis) was the most frequently encountered of the deep-sea fishes (50% of deployments), and while the Fueguian sprat (Sprattus fuegensis) was the most abundant fish species, its distribution was patchy. The Cape Horn and Diego Ramírez archipelagos represent some of the last intact sub-Antarctic ecosystems remaining and a recently declared large protected area will help ensure the health of this unique region.

Thermal limits to the geographic distributions of shallow-water marine species

Temperature profoundly affects species' geographic ranges, but the extent to which it limits contemporary range edges has been difficult to assess from laboratory experiments of thermal tolerance. The persistence of populations depends on temperature-mediated outcomes of ecological and demographic processes across all stages of a species' life history, as well as any adaptation to local temperature regimes. We assessed the relationships between sea temperature and observed distributional ranges for 1,790 shallow-water marine species from 10 animal classes and found remarkable consistencies in trends in realized thermal limits among taxa and ocean basins, as well as general agreement with previous laboratory findings. Realized thermal niches increase from the Equator towards cold-temperate locations, despite an opposite trend in geographic range size. Species' cool distribution limits are best predicted by the magnitude of seasonality within their range, while a relatively firm thermal barrier exists on the equatorward range edge for temperate species. Our findings of consistencies in realized thermal limits indicate potential limits to adaptation among common marine species and highlight the value of realized thermal niches for predicting species' distributional dynamics in warming seas.