Geoffrey P Jones

James Cook University | JCU

Anthropogenic pressure is increasing the variety and frequency of environmental disturbance events, limiting recovery and leading to long‐term declines in wild plant and animal populations. Coral reefs and associated fish assemblages are inherently dynamic due to their susceptibility to a host of disturbances, but regional‐scale nuances in the driv...

Coral reef fishes are usually assumed to be most strongly associated with reef-building corals. However, sponges can be a significant structural component of coral reef ecosystems and their framework can enhance the local abundance and biodiversity of fish assemblages. Little is known regarding the range of fish species using complex sponges as eit...

The abundance and distribution of demersal fishes rely on larvae successfully settling from the pelagic environment to a benthic habitat and their subsequent survival. With high mortality rates during this life stage, settling to a habitat that maximizes survival is critical. However, relationships between settlement choices and subsequent survival...

Dispersal, the movement of individuals away from their natal location to another location, is a basic driver of ecological and evolutionary processes. Direct measures of marine fish larval dispersal have shown that individual dispersal distances vary over several orders of magnitude within a species. We currently do not know the causes of this intr...

Hydrodynamic processes are important in all marine environments and on coral reefs drive patterns of habitat zonation, community structure, and biodiversity. Abrupt geomorphological features like pinnacles and seamounts often possess distinct localized currents and these habitats are also often characterized by high abundance and biomass of fishes....

Abundance, diversity and community assemblage structure are determined by multiple physical, habitat and management drivers that operate across multiple spatial scales. Here we used a multi-scale coral reef monitoring dataset to examine regional and local differences in the abundance, species richness and composition of fish assemblages in no-take...

Predation is a key ecological process regulating the structure and diversity of biological communities, yet predators do not exist homogeneously in nature. Coral reefs possess diverse assemblages of predatory fishes, the distribution and abundance of which is well documented for coastal and emergent reefs. However, for remote, isolated and submerge...

Gorgonians are a diverse and conspicuous component of coral reef ecosystems, providing habitat structure that supports unique assemblages of fishes and invertebrates. Evaluating their overall importance as ecological engineers requires an understanding of their spatial patterns of distribution, abundance and assemblage composition, and the biophysi...

Temporal patterns in spawning and juvenile recruitment can have major effects on population size and the demographic structure of coral reef fishes. For harvested species, these patterns are crucial in determining stock size and optimizing management strategies such as seasonal closures. For the commercially important coral grouper (Plectropomus sp...

Substratum preferences and contact interactions among sessile organisms can be a major determinant of biotic gradients in the structure of benthic communities on coral reefs. Sponges are a substantial component of these communities, but their substratum requirements and interactions with other benthic taxa are poorly understood. Here, we quantified...

Dispersal, the movement of individuals away from their natal location to another location, is a basic driver of ecological and evolutionary processes. Direct measures of marine fish larval dispersal have shown that individual dispersal distances can vary over several orders of magnitude within a species. We currently do not know the causes of this...

Social hierarchies within groups define the distribution of resources and provide benefits that support the collective group or favor dominant members. The progression of individuals through social hierarchies is a valuable characteristic for quantifying population dynamics. On coral reefs, some clownfish maintain size-based hierarchical communitie...

Body size influences many life‐history traits, with small‐bodied animals tending to have short life spans, high mortality and greater reproductive effort early in life. In this study, the authors investigated the life‐history traits and reproductive strategies of three small‐bodied coral reef gobies of the genus Trimma: Trimma benjamini, Trimma cap...

Sponges (Porifera) are a key component of many coral reef ecosystems. In some biogeographic regions, they are considered the dominant benthic fauna and they have the capacity to fulfil many similar roles to reef-building scleractinians. Certainly, sponges predominate at depth, below the critical thresholds of most coral species. The biological and...

Social hierarchies within groups define the distribution of resources and provide benefits that support the collective group or favor dominant members. The progression of individuals through social hierarchies is a valuable characteristic for quantifying population dynamics. On coral reefs, a number of small site-attached fish maintain size-based h...

Networks of no-take marine protected areas (MPAs), where all extractive activities are prohibited, are the most effective tool to directly protect marine ecosystems from destructive and unsustainable human activities. No-take MPAs and MPA networks have been globally implemented in coastal seas, and their success has been significantly enhanced wher...

Coral reefs exhibit consistent patterns in biodiversity across multiple spatial scales, from local to global clines in species richness, abundance and community structure. Knowledge of fundamental processes driving these patterns is largely derived from studies of shallow, emergent and nearshore reefs. Although research efforts are expanding to dee...

Fisheries management relies on various catch and effort controls to preserve spawning stock biomass and maximize sustainable yields while limiting fishery impacts on marine ecosystems. These include species-specific minimum or maximum size limits to protect either small non-reproductive subadults, a portion of reproductively mature adults, or large...

Despite increasing threats to Tonga’s coral reefs from stressors that are both local (e.g. overfishing and pollution) and global (e.g. climate change), there is yet to be a systematic assessment of the status of the country’s coral reef ecosystem and reef fish fishery stocks. Here, we provide a national ecological assessment of Tonga’s coral reefs...

Individuals that forgo their own reproduction in animal societies represent an evolutionary paradox because it is not immediately apparent how natural selection can preserve the genes that underlie non-breeding strategies. Cooperative breeding theory provides a solution to the paradox: non-breeders benefit by helping relatives and/or inheriting bre...

Habitat area and fragmentation are recognised as important factors that influence population size, community structure and extinction risk. Abundance and species richness universally increase with habitat area. However, the effects of different aspects of habitat fragmentation, including variation in patch size, number and isolation are often not d...

Hybridization and introgression are evolutionarily significant phenomena breaking down species boundaries. "Hybrid zones" (regions of species overlap and hybridization) enable quantification of hybridization frequency and examination of mechanisms driving and maintaining gene flow. The hybrid anemonefish Amphiprion leucokranos is found where parent...

Sexual dimorphism is a common in the animal kingdom and is often linked to mate choice or competition for mates in polygynous mating systems. However, sexual dimorphism is less common in species that form heterosexual pairs and has not been recorded in pair-forming coral-reef fish. Here we demonstrate a pronounced morphological difference between m...

Significance Networks of no-take marine reserves support local fisheries by ensuring a consistent supply of juvenile fish. We measured larval dispersal patterns for a highly exploited coral grouper and quantified temporal fluctuations in the recruitment contribution from a network of no-take marine reserves on the Great Barrier Reef. Although recru...

Combining no‐take marine reserves with exclusive access by communities to unreserved waters could provide the required incentives for community management to achieve positive impacts. However, few protected areas have been critically evaluated for their impact, which involves applying counterfactual thinking to predict conditions within protected a...

Plasticity, the capacity of individuals to respond to changing environments by modifying traits, may be critically important for population persistence by allowing for adaptive responses on shorter timescales than genetic change. Here, we use the clown anemonefish (Amphiprion percula), whose access to resources is constrained by their anemones, to...

A central issue in evolutionary ecology is how patterns of dispersal influence patterns of relatedness in populations. In terrestrial organisms, limited dispersal of offspring leads to groups of related individuals. By contrast, for most marine organisms, larval dispersal in open waters is thought to minimize kin associations within populations. Ho...

The expansion of coastal marine protected areas can suffer from two key drawbacks: (a) the difficulty of incentivizing local communities to manage areas for conservation when their livelihoods also depend on resource use; and (b) that many protected areas get situated residually, or in locations with limited value for either biodiversity conservati...

The structure and function of coral reef ecosystems is increasingly compromised by multiple stressors, even in the most remote locations. Severe, acute disturbances such as volcanic eruptions represent extreme events that can annihilate entire reef ecosystems, but also provide unique opportunities to examine ecosystem resilience and recovery. Here,...

Coral reef fishes are known to respond to chemical cues in the selection of appropriate microhabitats at settlement. Coral- and non-coral-associated species are likely to respond to different stimuli and the cues may change as larvae settle and become familiar with the reef environment. Here, the chemosensory responses of both late-stage larvae and...

This report provides a detailed synthesis of the current ecological status of Tonga’s Special Management Area (SMA) program and the nations coral reef ecosystem. From 2016 to 2019, a total of 383 sites were surveyed across Tonga’s coral reef ecosystem to determine the health of the countries marine environment and the impacts of their approach to...

The hybrid anemonefish, Amphiprion leucokranos, is known to be the product of ongoing, introgressive hybridization between parent taxa Amphiprion sandaracinos and Amphiprion chrysopterus. Hybridization is an important evolutionary phenomenon contributing to biodiversity within marine systems, where hybrid zones provide ideal systems in which to stu...

Environmental conditions and anthropogenic impacts are key influences on ecological processes and associated ecosystem services. Effective management of Tonga’s marine ecosystems therefore depends on accurate and up-to-date knowledge of environmental and anthropogenic variables. Although many types of environmental and anthropogenic data are now av...

The relative contributions of environmental, maternal and additive genetic factors to the Lifetime reproductive success (LRS) determine whether species can adapt to rapid environmental change. Yet to date, studies quantifying LRS across multiple generations in marine species in the wild are non‐existent. Here we used 10‐year pedigrees resolved for...

Habitat characteristics play an important role in determining the structure of fish communities. The decline in fish diversity and abundance with the decline in coral diversity and cover may be explained by habitat specialisation and partitioning among reef fishes and/or preferences for particular corals that are susceptible to disturbance. These p...

Coral bleaching causes coral mortality that has knock-on effects on reef ecosystems, including reductions of some fish species. However, the extent of coral bleaching varies consider- ably among habitats. For example, deeper areas of reefs typically bleach less than areas in the shallows. However, rates of coral mortality at depth and the knock-on...

Spatial refuges in peripheral habitats will become increasingly important for species persistence as climate change and other disturbances progressively impact habitat quality and assemblage compositions. However, the capacity for persistence will be determined in part by species‐specific abilities to absorb costs related to altered or decreased qu...

Larval dispersal is a critically important yet enigmatic process in marine ecology, evolution, and conservation. Determining the distance and direction that tiny larvae travel in the open ocean continues to be a challenge. Our current understanding of larval dispersal patterns at management-relevant scales is principally and separately informed by...

The world's coral reefs are rapidly transforming, with decreasing coral cover and new species configurations. These new Anthropocene reefs pose a challenge for conservation; we can no longer rely on established management plans and actions designed to maintain the status quo when coral reef habitats, and the challenges they faced, were very differe...

Marine reserve networks are increasingly implemented to conserve biodiversity and enhance the persistence and resilience of exploited species and ecosystems. However, the efficacy of marine reserve networks in frequently disturbed systems, such as coral reefs, has rarely been evaluated. Here we analyze a well‐mixed larval pool model and a spatially...

Many vertebrates form monogamous pairs to mate and care for their offspring. However, genetic tools have increasingly shown that many offspring arise from matings outside of the monogamous pair bond. Social monogamy is relatively common in coral reef fishes, but there have been relatively few studies that have confirmed monogamy or extra‐pair repro...

Artificial reefs (ARs) have been advocated and implemented as management tools for recreational fisheries, species conservation and habitat replacement. For ARs to function as substitute habitat for degraded natural reefs, they should perform as close as possible to local natural reefs, however this is seldom investigated. Here we evaluated the per...

Investigating the niche overlap of ecologically similar species can reveal the mechanisms that drive spatial partitioning in high-diversity systems. Understanding how food resources are used and whether the diets of neighboring species are different are particularly important when considering the coexistence and functional role of species. Territor...

It is being increasingly recognized that small coral reef fishes are highly specialised on branching coral substrata and are threatened by reef degradation. In the past, it has been assumed that medium-sized mobile coral reef fishes may be less at risk. This assumes medium-sized mobile fishes are not as equally associated with and susceptible to th...

In social groups, high reproductive skew is predicted to arise when the reproductive output of a group is limited, and dominant individuals can suppress subordinate reproductive efforts. Reproductive suppression is often assumed to occur via overt aggression or the threat of eviction. It is unclear, however, whether the threat of eviction alone is...

Escalating climate-related disturbances and asymmetric habitat losses will increasingly result in species living in more marginal habitats. Marginal habitats may represent important refuges if individuals can acquire adequate resources to survive and reproduce. However, resources at range margins are often distributed more sparsely; therefore, incr...

Escalating climate-related disturbances and asymmetric habitat losses will increasingly result in species living in more marginal habitats. Marginal habitats may represent important refuges if individuals can acquire adequate resources to survive and reproduce. However, resources at range margins are often distributed more sparsely; therefore, incr...

The size and structure of social groups of animals can be governed by a range of ecological factors and behavioral interactions. In small, highly site-attached coral reef fishes, group size is often constrained by the size of the habitat patch they are restricted to. However, group size may also be influenced by changes in abundance along important...

During the planning phase the efficacy of different strategies to manage marine resources should ultimately be assessed by their potential impact, or ability to make a difference to ecological and social outcomes. While community‐based and systematic approaches to establishing marine protected areas have their strengths and weaknesses, comparisons...

The During the planning phase the efficacy of different strategies to manage marine resources should ultimately be assessed by their potential impact, or ability to make a difference to ecological and social outcomes. While community‐based and systematic approaches to establishing marine protected areas have their strengths and weaknesses, comparis...

Competitive interactions and resource partitioning facilitate species coexistence in complex ecosystems. However, while pairwise interactions between ecologically similar species have been well studied, multi‐species competitive networks have received less attention. When interference competition between two species results in partitioning of resou...

Infographic for: Direct and indirect effects of interspecific competition in a highly partitioned guild of reef fishes Jacob G. Eurich, Mark I. McCormick, and Geoffrey P. Jones Full text at https://doi.org/10.1002/ecs2.2389

While there is increasing evidence for habitat specialization in coral reef fishes, the extent to which different corals support different fish communities is not well understood. Here we quantitatively assess the relative importance of different coral species in structuring fish communities and evaluate whether sampling scale and coral colony size...

Assumptions testing. (DOCX)

Increasing disturbances on coral reefs threaten fish species with close microhabitat associations in shallow waters, but deep reefs may provide refuge habitats. Assessing this potential requires a comprehensive understanding of how versatility in microhabitat use, preference, and selectivity interact with changes in habitat composition along depth...

Roving herbivorous fishes play an important role in coral reef communities by removing turf-algae, which can facilitate the settlement of coral larvae. Territorial damselfishes can influence the foraging patterns of roving herbivores by excluding them from their territories, altering the benthic assemblage. However, the impacts depend on the intens...

Settlement preferences play a critical role in the successful transition from pelagic larvae to benthic juveniles for many coral reef organisms. Reef fish larvae are capable of recognizing and behaviorally responding to a variety of sensory cues when assessing settlement site locations. The presence of resident conspecifics for site attached coral...

Tropical reefs have experienced an unprecedented loss of live coral in the past few decades and the biodiversity of coral-dependent species is under threat. Many reef fish species decline in abundance as coral cover is lost, yet the mechanisms responsible for these losses are largely unknown. A commonly hypothesised cause of fish decline is the los...