Worldwide, finfish fisheries receive increasing assessment and regulation, slowly leading to more sustainable exploitation and rebuilding. In their wake, invertebrate fisheries are rapidly expanding with little scientific scrutiny despite increasing socio-economic importance. This thesis provides the first global analysis of the trends, drivers, and population and ecosystem consequences of invertebrate fisheries, in general, and sea cucumber fisheries, in particular, based on a global catch database in combination with taxa-specific reviews. Further, I developed new methods to quantify trends over space and time in resource status and fishery development. Since 1950, global invertebrate catches increased six-fold with 1.5 times more countries fishing and double the taxa reported. By 2004, 31% of fisheries were over-exploited, collapsed, or closed. New fisheries developed increasingly rapidly, with a decrease of six years (± three years) in time from start to peak from 1960 to 1990. Moreover, 71% of invertebrate taxa (53% of catches) are harvested with habitat-destructive gear, and many provide important ecosystem functions including habitat, filtration, and grazing. For sea cucumber fisheries, global catch and value has increased strongly over the past two to three decades, closely linked to increasing prices and demand on Asian markets. However, the catch of individual fisheries followed a boom-and-bust pattern, declining nearly as quickly as it expanded, and expanding approximately five times as quickly in 1990 compared to 1960. Also, new fisheries expanded increasingly far from their driving market in Asia, and encompassed a global fishery by the 1990s. One-third of sea cucumber fisheries experienced declines in average body size fished; half showed serial exploitation over space by moving further away from the coast; three-quarters showed serial exploitation from high- to low-value species; and two-thirds experienced population declines due to overexploitation with local extirpation in some cases. One-third of all sea cucumber fisheries remain unregulated. These findings suggest that the basis of marine food webs is increasingly exploited with limited stock and ecosystem-impact assessments, and a new management focus is needed to avoid negative consequences for ocean ecosystems and human well-being.

This study examines the biology of the venus tuskfish Choerodon venustus from the southern Great Barrier Reef to enable better-informed management decisions. Venus tuskfish are taken almost exclusively by line fishing. The size of the catch is uncertain, but the annual Queensland commercial catch is probably about 30 t and the recreational catch much greater than this (possibly ca. 300 t). The species is not the primary target of fishers and can be regarded as by-catch taken while targeting other species. However C. venustus is the second or third most commonly retained species in the study area. Venus tuskfish are taken in habitats associated with coral and other reefs across a depth range from 5 m to 90 m. The species is a benthic predator, taking molluscs, echinoderms, annelids, arthropods, and fish (in decreasing order of importance). Feeding intensity was greatest in summer. There was evidence of complex feeding behaviours and a dominance hierarchy amongst feeding fish that may result in large males being more susceptible to fishing. The species is slow growing and long lived. Up to 38 bands were observed on the opercular bones of C. venustus. Back-calculation methods yielded von Bertalanffy growth parameters of L¥ =669 mm, K = 0.09 and t0 = -3.89. Male fish appear to grow faster than females. This may be related either to faster growing fish becoming males, growth acceleration following sex reversal, or both. Selective removal of faster growing males in heavily fished locations may result in a greater proportion of slower growing females in the remaining population. iv Choerodon venustus is a protogynous hermaphrodite; the proportion of males increases as the fish increase in size, transitional fish exist and remnant female tissue was evident in testes. The species is a serial spawner with an extended breeding season perhaps peaking in autumn and around the new and full moon. Females mature between 200 and 250 mm forklength (LCF). Venus tuskfish display sexually dimorphic colouration and appear to have a socio-sexual group structure. Fish occur in extended groups with several large males associated with a larger number of smaller females. Multiple sex-reversals may occur in the groups perhaps in response to the loss of the larger males. Large females produce over 100,000 eggs in the ovaries. The number of eggs released at each spawning is unknown. There is a direct cubic relationship between length and the weight of female gonads. Large females over 500 mm LCF are capable of producing over 20 times the number of eggs of small mature females (around 250 mm LCF). The locations sampled showed marked differences in fishing effort. The Capricorn Bunker Group was subject to much higher fishing effort than the Swains Reefs. Estimates of fishing mortality reflected this trend. Line fishing selects large male fish. The heavily fished Masthead Island had smaller males, females and transitional fish. Fish below 300 mm LCF were not captured efficiently. Venus tuskfish may be capable of modifying their life cycle in response to increased fishing mortality. Sex reversal may be related to the absence of large males in social groups. Hence sex ratio remains constant between fished and unfished locations. In heavily fished populations, females are smaller and consequently produce fewer eggs. Modeling suggests unfished areas may have a potential fecundity over six times that of those heavily exploited. Choerodon venustus are severely impacted by barotrauma during capture, and few captured and released fish are likely to survive. There are special challenges in managing venus tuskfish including: · Their status as a largely bycatch species; · The poor survival of released fish due to barotrauma; · A lack of good measures of catch and effort caused by inconsistent naming of the species and inherent errors in current data collection methods; · Their extended spawning period and likely widespread spawning sites and · The need to support group fecundity by protecting larger fish. A combination of a series of fish reserves, raising the minimum legal size to 36 cm TL, effective catch limits and an effective education program are likely to support the sustainability of the fishery.

Knowledge of the interactions among species and communities is vital for their management and protection. Increasingly, the role of marine protected areas in this regard is being recognised, primarily because of the potential for previously-harvested species to increase in density and biomass, and the linkages among species to be restored. Monitoring and research was conducted within and surrounding two marine reserves on the east coast of the North Island of New Zealand – Te Tapuwae o Rongokako, near Gisborne, and Te Angiangi, south of Napier. The aim was to describe the biological characteristics of spiny lobsters (Jasus edwardsii) in the absence of fishing, and to describe the effects of fishing and protection on lobster populations and the communities of which they are a component. Diver and pot surveys showed that lobsters were significantly more abundant within the reserves than in the surrounding fisheries and that the populations were comprised of a larger proportion of legal-sized individuals. Higher female fecundity within Te Tapuwae o Rongokako Marine Reserve compared with the surrounding fishery was proposed to be primarily a result of increased availability of large males within the reserve. The impact of the fishery on lobsters was also evidenced in the lower tail width to carapace length ratio of the fished population compared to the population within Te Tapuwae o Rongokako Marine Reserve, due to the minimum legal size for Jasus edwardsii in New Zealand being based on tail width. The largest tagging study ever to be conducted in a New Zealand marine reserve showed that sublegal male lobsters within Te Tapuwae o Rongokako Marine Reserve were growing on average faster than the same sized individuals outside the reserve, potentially as a result of the effects of handling and / or size-selective fishing. A decrease in growth rate over time was recorded in male lobsters within the reserve, which coincided with an increase in catch per unit effort and may indicate that density-dependent effects are operating. Distinct seasonal movements of tagged lobsters were recorded, with the vast majority of movements taking place within reefs. Where the boundaries of the reserve crossed reef habitat, significant movement of lobsters across the boundaries occurred. Lobsters within Te Tapuwae o Rongokako Marine Reserve not only exhibited cannibalistic behaviour but foraged during the day, including on intertidal reef platforms at high tide, potentially as a behavioural response to increased competition for food – behaviour not previously reported for this species. Outside the reserve, lobster bait apparently provided an alternative protein source but despite this supplementation of diet, these lobsters were in poorer nutritional condition, as evidenced by their lower body weights relative to carapace length and tail width for both sexes. Lobsters outside the reserve were also significantly more affected by a bacterial infection associated with handling, than lobsters within the reserve. These findings have significant implications for fisheries management and for the design and management of marine protected areas (MPAs). This study demonstrates that many of the biological parameters used in evaluating harvest strategies in the New Zealand lobster fishery may be biased unless collected from populations with a natural size structure, such as may occur within marine protected areas.

Latitudinal patterns in reef fish assemblages reflect the influence of long-term environmental conditions, evolutionary processes and the recent, short-term influence of fishing. Long-term processes generate the typically common latitudinal patterns in reef fish assemblages, such as decreases in diversity and herbivory towards higher latitudes. These patterns reflect the global gradient in water temperature and the isolation of temperate regions from the tropics. Fishing also influences reef fish assemblages in that it decreases the abundance of large-bodied carnivore species on reefs, often leading to over-exploitation, depletion and in some cases the extirpation of populations. Indirectly, the removal of these large-bodied carnivores can influence the abundance of their prey, leading to an increase in non-target species. This study examines the latitudinal patterns in reef fish assemblages across a unique biogeographic region, the temperate Western Australian coast, and incorporates an investigation of the influence of fishing on the structure of these assemblages. Seven regions across seven degrees of latitude and seven degrees of longitude covering approximately 1500 km of coastline were sampled. Fish assemblages were characterised at each region using diver operated stereo-video transects. At each region, four locations, and within each location, four reefs were surveyed totalling 1344 transects. A significant gradient in water temperature exists with latitude and longitude. Along the Western Australian coast, and in contrast to other regions species diversity of reef fish increased towards higher latitudes and there was no evidence for a decrease in the biomass and abundance of herbivorous reef fish. The presence of the poleward flowing warm water Leeuwin current combined with the absence of major extinction events means the temperate Western Australian coast contrasts with global latitudinal trends in reef fish assemblage structure. The unique biogeographic history of temperate Western Australia has also generated a high degree of endemism among reef fish. Nearly 30 % of the species found along the west coast in this study are endemic to Western Australia, with the narrow range of these species playing an important role in the large scale patterns and spatial vi heterogeneity in reef fish assemblage structure. Furthermore, many of these endemic species are large-bodied carnivores and targeted by fishers. The impact of fishing on the abundance of large-bodied carnivores throughout the Western Australian temperate region is clear both spatially and temporally. The distribution of fishing effort is greatest along the west coast and decreases towards the south following the gradient in SST. Along the west coast, high levels of fishing effort have reduced the biomass and abundance of target carnivores to well below the standing biomass of the south coast where a low level of fishing effort occurs. This reduction in biomass is related to the historical declines in catch per unit effort (CPUE) of many key target species. These target species include endemic species such as Choerodon rubescens, Glaucosoma herbraicum, Epinephilides armatus Nemadactylus valenciennesi and Achoerodus gouldii.

Knowledge of the interactions among species and communities is vital for their management and protection. Increasingly, the role of marine protected areas in this regard is being recognised, primarily because of the potential for previously-harvested species to increase in density and biomass, and the linkages among species to be restored. Monitoring and research was conducted within and surrounding two marine reserves on the east coast of the North Island of New Zealand – Te Tapuwae o Rongokako, near Gisborne, and Te Angiangi, south of Napier. The aim was to describe the biological characteristics of spiny lobsters (Jasus edwardsii) in the absence of fishing, and to describe the effects of fishing and protection on lobster populations and the communities of which they are a component. Diver and pot surveys showed that lobsters were significantly more abundant within the reserves than in the surrounding fisheries and that the populations were comprised of a larger proportion of legal-sized individuals. Higher female fecundity within Te Tapuwae o Rongokako Marine Reserve compared with the surrounding fishery was proposed to be primarily a result of increased availability of large males within the reserve. The impact of the fishery on lobsters was also evidenced in the lower tail width to carapace length ratio of the fished population compared to the population within Te Tapuwae o Rongokako Marine Reserve, due to the minimum legal size for Jasus edwardsii in New Zealand being based on tail width. The largest tagging study ever to be conducted in a New Zealand marine reserve showed that sublegal male lobsters within Te Tapuwae o Rongokako Marine Reserve were growing on average faster than the same sized individuals outside the reserve, potentially as a result of the effects of handling and / or size-selective fishing. A decrease in growth rate over time was recorded in male lobsters within the reserve, which coincided with an increase in catch per unit effort and may indicate that density-dependent effects are operating. Distinct seasonal movements of tagged lobsters were recorded, with the vast majority of movements taking place within reefs. Where the boundaries of the reserve crossed reef habitat, significant movement of lobsters across the boundaries occurred. Lobsters within Te Tapuwae o Rongokako Marine Reserve not only exhibited cannibalistic behaviour but foraged during the day, including on intertidal reef platforms at high tide, potentially as a behavioural response to increased competition for food – behaviour not previously reported for this species. Outside the reserve, lobster bait apparently provided an alternative protein source but despite this supplementation of diet, these lobsters were in poorer nutritional condition, as evidenced by their lower body weights relative to carapace length and tail width for both sexes. Lobsters outside the reserve were also significantly more affected by a bacterial infection associated with handling, than lobsters within the reserve. These findings have significant implications for fisheries management and for the design and management of marine protected areas (MPAs). This study demonstrates that many of the biological parameters used in evaluating harvest strategies in the New Zealand lobster fishery may be biased unless collected from populations with a natural size structure, such as may occur within marine protected areas.

Knowledge of the interactions among species and communities is vital for their management and protection. Increasingly, the role of marine protected areas in this regard is being recognised, primarily because of the potential for previously-harvested species to increase in density and biomass, and the linkages among species to be restored. Monitoring and research was conducted within and surrounding two marine reserves on the east coast of the North Island of New Zealand – Te Tapuwae o Rongokako, near Gisborne, and Te Angiangi, south of Napier. The aim was to describe the biological characteristics of spiny lobsters (Jasus edwardsii) in the absence of fishing, and to describe the effects of fishing and protection on lobster populations and the communities of which they are a component. Diver and pot surveys showed that lobsters were significantly more abundant within the reserves than in the surrounding fisheries and that the populations were comprised of a larger proportion of legal-sized individuals. Higher female fecundity within Te Tapuwae o Rongokako Marine Reserve compared with the surrounding fishery was proposed to be primarily a result of increased availability of large males within the reserve. The impact of the fishery on lobsters was also evidenced in the lower tail width to carapace length ratio of the fished population compared to the population within Te Tapuwae o Rongokako Marine Reserve, due to the minimum legal size for Jasus edwardsii in New Zealand being based on tail width. The largest tagging study ever to be conducted in a New Zealand marine reserve showed that sublegal male lobsters within Te Tapuwae o Rongokako Marine Reserve were growing on average faster than the same sized individuals outside the reserve, potentially as a result of the effects of handling and / or size-selective fishing. A decrease in growth rate over time was recorded in male lobsters within the reserve, which coincided with an increase in catch per unit effort and may indicate that density-dependent effects are operating. Distinct seasonal movements of tagged lobsters were recorded, with the vast majority of movements taking place within reefs. Where the boundaries of the reserve crossed reef habitat, significant movement of lobsters across the boundaries occurred. Lobsters within Te Tapuwae o Rongokako Marine Reserve not only exhibited cannibalistic behaviour but foraged during the day, including on intertidal reef platforms at high tide, potentially as a behavioural response to increased competition for food – behaviour not previously reported for this species. Outside the reserve, lobster bait apparently provided an alternative protein source but despite this supplementation of diet, these lobsters were in poorer nutritional condition, as evidenced by their lower body weights relative to carapace length and tail width for both sexes. Lobsters outside the reserve were also significantly more affected by a bacterial infection associated with handling, than lobsters within the reserve. These findings have significant implications for fisheries management and for the design and management of marine protected areas (MPAs). This study demonstrates that many of the biological parameters used in evaluating harvest strategies in the New Zealand lobster fishery may be biased unless collected from populations with a natural size structure, such as may occur within marine protected areas.

Knowledge of the interactions among species and communities is vital for their management and protection. Increasingly, the role of marine protected areas in this regard is being recognised, primarily because of the potential for previously-harvested species to increase in density and biomass, and the linkages among species to be restored. Monitoring and research was conducted within and surrounding two marine reserves on the east coast of the North Island of New Zealand – Te Tapuwae o Rongokako, near Gisborne, and Te Angiangi, south of Napier. The aim was to describe the biological characteristics of spiny lobsters (Jasus edwardsii) in the absence of fishing, and to describe the effects of fishing and protection on lobster populations and the communities of which they are a component. Diver and pot surveys showed that lobsters were significantly more abundant within the reserves than in the surrounding fisheries and that the populations were comprised of a larger proportion of legal-sized individuals. Higher female fecundity within Te Tapuwae o Rongokako Marine Reserve compared with the surrounding fishery was proposed to be primarily a result of increased availability of large males within the reserve. The impact of the fishery on lobsters was also evidenced in the lower tail width to carapace length ratio of the fished population compared to the population within Te Tapuwae o Rongokako Marine Reserve, due to the minimum legal size for Jasus edwardsii in New Zealand being based on tail width. The largest tagging study ever to be conducted in a New Zealand marine reserve showed that sublegal male lobsters within Te Tapuwae o Rongokako Marine Reserve were growing on average faster than the same sized individuals outside the reserve, potentially as a result of the effects of handling and / or size-selective fishing. A decrease in growth rate over time was recorded in male lobsters within the reserve, which coincided with an increase in catch per unit effort and may indicate that density-dependent effects are operating. Distinct seasonal movements of tagged lobsters were recorded, with the vast majority of movements taking place within reefs. Where the boundaries of the reserve crossed reef habitat, significant movement of lobsters across the boundaries occurred. Lobsters within Te Tapuwae o Rongokako Marine Reserve not only exhibited cannibalistic behaviour but foraged during the day, including on intertidal reef platforms at high tide, potentially as a behavioural response to increased competition for food – behaviour not previously reported for this species. Outside the reserve, lobster bait apparently provided an alternative protein source but despite this supplementation of diet, these lobsters were in poorer nutritional condition, as evidenced by their lower body weights relative to carapace length and tail width for both sexes. Lobsters outside the reserve were also significantly more affected by a bacterial infection associated with handling, than lobsters within the reserve. These findings have significant implications for fisheries management and for the design and management of marine protected areas (MPAs). This study demonstrates that many of the biological parameters used in evaluating harvest strategies in the New Zealand lobster fishery may be biased unless collected from populations with a natural size structure, such as may occur within marine protected areas.

In this thesis I assessed the causes of long-term changes in two large, commercially important decapod crustacean populations, American lobster (Homarus americanus) and snow crab (Chionoecetes opilio), in the northwest (NW) Atlantic Ocean. By combining available time-series data, including commercial landings, research surveys, and local ecological knowledge (LEK), I explored the causes of an observed ecosystem shift in the NW Atlantic (~1950–2009) which entailed a region-wide decline of groundfish and an increase in benthic invertebrates, including these decapods. Three hypotheses were examined to explain the increase in decapod abundance: (1) the predation hypothesis, whereby a decrease in predatory groundfish led to an increase in their decapod prey (top-down effects); (2) the climate hypothesis, whereby changes in temperature or other climatic variables helped to increase decapod numbers (bottom-up effects); and (3) the anthropogenic hypothesis, whereby changes in fishing pressure drove decapod population dynamics. I explored these hypotheses separately for lobster and snow crab, which may experience different ecological and commercial pressures. First, I investigated the interactions between predatory groundfish and lobster in the inshore region of southwest Nova Scotia. Long-term fisheries-independent abundance indices for lobsters and their predators are available for Gulf of Maine (GOM) waters in the USA, but not in Canada. To address research gaps I designed and executed a survey to collect the LEK of lobster fishermen fishing in the Canadian GOM. Forty-two fishermen were interviewed. Corresponding survey results from the USA were compared to the LEK results. Both sources provided evidence for a top-down effect (predation release), contributing to observed increases in GOM lobster abundance and landings. Second, I explored relationships between lobster abundance and landings in the NW Atlantic as they may relate to temporal changes in predators, temperature, climate (North Atlantic Oscillation Index, NAOI), and fishing. Available landings data and fisheries-independent abundance estimates were collated to investigate trends in lobster abundance and catch. Links between lobster, groundfish, temperature and climate indices were explored using mixed effects models. Results offered partial support for the predation hypothesis, namely in the waters off Newfoundland, Nova Scotia, and southern New England as well as broad support for a climate effect on early life stages. This effect appeared related to a region-wide climate signal, the NAOI, but was independent of changes in water temperature. Fishing effort appeared to be following lobster abundance, rather than regulating abundance in a consistent way. Third, variation in snow crab abundance was examined through meta-analysis of time-series data of cod and crab abundance and temperature. Temperature had opposing effects on the two species: snow crab abundance was negatively correlated with temperature whereas cod and temperature were positively related. Controlling for the effect of temperature, the analysis revealed significant negative interactions between snow crab and cod abundance, with cod leading snow crab up to a five-year lag. Results indicate that snow crab is largely influenced by temperature during early post-settlement years and becomes increasingly regulated by top-down mechanisms as they approach fishery recruitment. Overall, I conclude that both climate and predation can act as population controls on large decapod populations, but these variables affect decapods at different life stages.