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Non-invasive, low-cost methods for censusing depleted fish populations are being prioritised among many jurisdictions worldwide. Collecting environmental DNA (eDNA) could offer one such option for augmenting fish population assessments. However, candidate species need to be carefully selected because species-specific DNA shedding and decay rates are affected by many biotic and abiotic factors that may influence relative abundance estimates. In this study, we sought to ascertain if the eDNA of a depleted Australian teleost, mulloway, Argyrosomus japonicus, reflects its weight under controlled aquaria conditions. With four experiments, we investigated the relationships between mulloway eDNA concentrations and their weight tank−1 as a function of: (1) time post-tank establishment; (2) water temperatures (within the species’ tolerance range); (3) stocking densities; and (4) among individual, similar-sized fish. The concentrations of eDNA in tanks stabilised after six days, and a positive relationship was found between fish weight and eDNA concentration, despite some variability in shedding rates by similar-sized fish. There was also a positive effect of water temperature on eDNA concentrations, which reinforces the need to control for such abiotic factors. We conclude that there is strong utility in applying eDNA concentrations as an index of relative abundance for mulloway under controlled conditions, which justifies future field-based investigations.

Environmental DNA (eDNA) can potentially facilitate estimating the abundance of teleosts and might therefore be used for stock assessments. Nevertheless, relationships are species-specific—reflecting several abiotic and biotic factors that require understanding prior to ongoing research investment. Here, we investigated potential relationships between eDNA concentrations and the weights of an endemic and threatened Australian teleost, Murray cod, Maccullochella peelii to determine if eDNA could be used to estimate biomass. Three controlled aquaria experiments using juvenile fish were conducted to investigate the time to eDNA stabilisation in tanks following stocking (aquaria experiment 1), and then if water temperature (aquaria experiment 2) and/or fish weight (aquaria experiment 3) explained variability among eDNA concentrations in tanks. In aquaria experiment 1, eDNA concentrations stabilised nine days after stocking, but there were no significant effects of water temperature or fish weight in aquaria experiments 2 and 3. The latter result was verified during a mesocosm experiment using brood stock held in semi-natural outdoor ponds. During a fourth aquaria experiment (experiment 4), ten similar-sized juveniles were held under identical conditions in individual replicate tanks, with significant variability in eDNA concentrations that was not explained by individual fish weights. When all aquaria data were collectively assessed, there was a significant (but not useful) quadratic relationship between eDNA concentrations and fish weight. We conclude eDNA is not suitable for estimating the weight/biomass of Murray cod. Assessing the suitability of future candidate species might benefit from similar initial aquaria experiments under controlled conditions to test the independence of individual fish weight on variability among eDNA concentrations in tanks.

Recreational fishing (RF) is a popular pastime resulting in substantial fish mortality in many regions. Yet inclusion of RF in fishery harvest strategies is limited, because the sector's objectives are poorly understood, as are the data required to track their performance. To address this, we reviewed RF data sources available from a region of globally high participation (New South Wales [NSW], Australia) and evaluated their utility for RF-specific performance indicators within harvest strategies. We then linked these data sources to RF objectives they may be used to monitor. A total of 21 RF data sources were identified in NSW over the past two decades, spanning all major aquatic environments and 146 fished species. Numerous data sources were available to monitor ecological objectives, providing time-series and potential reference points for key indicators such as catch-per-unit-effort. Few data sources were available for social, economic, and institutional objectives, consistent with a global paucity of these data. We found that most social objectives of RF lie outside the scope of traditional harvest strategies, although some are linked to underlying ecological performance. Harvest strategy performance for RF will depend on the relative importance of social objectives and whether these can be achieved by controlling harvest.

Analysis of environmental (e)DNA can facilitate an understanding of the presence and distribution of aquatic species. However, eDNA detection using quantitative PCR requires validated and standardized species-specific assay designs. This study presents two eDNA assays to detect Murray cod, Maccullochella peelii, and mulloway, Argyrosomus japonicus (two ecologically vulnerable Australian species), based on small fragments of the mitochondrial 12S ribosomal RNA gene. A comprehensive description of species-specific assay development, from assay design to testing in silico, in vitro and in situ, has been included to guide effective assay design and validation in future studies. The results indicate that the assay was species specific for M. peelii within its natural distribution. However, the assay also amplified genomic DNA from two allopatric and endangered congeners (Maccullochella ikei and Maccullochella mariensis), thus potentially facilitating their eDNA detection elsewhere. In contrast, the A. japonicus assay was highly species specific with no amplification among close relatives. Both target-species assays are highly sensitive to as few as four and 10 copies per PCR reaction, respectively. This study has demonstrated that the assays assessed are effective tools for detecting the targeted species in situ from environmental DNA samples, which will assist efforts to conserve and manage their stocks.

Environmental DNA (eDNA) has revolutionized our ability to identify the presence and distributions of terrestrial and aquatic organisms. Recent evidence suggests the concentration of eDNA could also provide a rapid, cost-effective indicator of abundance and/or biomass for fisheries stock assessments. Globally, fisheries resources are under immense pressure, and their sustainable harvest requires accurate information on the sizes of fished stocks. However, in many cases the required information remains elusive because of a reliance on imprecise or costly fishery-dependent and independent data. Here, we review the literature describing relationships between eDNA concentrations and fish abundance and/or biomass, as well as key influencing factors, as a precursor to determining the broader utility of eDNA for monitoring fish populations. We reviewed 63 studies published between 2012 and 2020 and found 90% identified positive relationships between eDNA concentrations and the abundance and/or biomass of focal species. Key influencing biotic factors included the taxon examined as well as their body size, distribution, reproduction, and migration. Key abiotic factors mostly comprised hydrological processes affecting the dispersal and persistence of eDNA, especially water flow and temperature, although eDNA collection methods were also influential. The cumulative influence of these different factors likely explains the substantial variability observed in eDNA concentrations, both within and among studies. Nevertheless, there is considerable evidence to support using eDNA as an ancillary tool for assessing fish population abundance and/or biomass across discrete spatio-temporal scales, following preliminary investigations to determine species- and context-specific factors influencing the eDNA abundance/biomass relationship. Advantages of eDNA monitoring relative to other approaches include reduced costs, increased efficiencies, and nonlethal sampling.

Transport of larvae by ocean currents is an important dispersal mechanism for many species. The timing and location of spawning can have a large influence on settlement location. Shifts in the known spawning habitat of fish, whether due to climate or the discovery of new spawning stock, can influence the distribution of juveniles and our understanding of connectivity. The globally distributed species; Pomatomus saltatrix, is one such example where a previously unrecognised summer spawning event and a more southern latitudinal extent was recently reported for the southwest Pacific population. Although restrictions are in place to protect the traditional spawning event, the importance of the newly recognised summer spawning event is uncertain. Here, we investigate larval dispersal of P. saltatrix using particle tracking simulations to identify the contributions of the different spawning events to settlement. By modelling dispersal of larvae released in northern and mid-latitude regions over the Austral spring and summer, we show that the newly recognised mid-latitude summer spawning event contributes over 50% of the larvae reaching southern latitudes. This is due to a reduced (1–2 days) pelagic larval duration (associated with temperature), resulting in reduced larval mortality, and the seasonal (summer) strengthening of the East Australian Current (EAC) transporting particles ~50 km further south. These findings demonstrate that in dynamic boundary current systems such as the EAC, the final settlement location of larvae that are transported by ocean currents can vary considerably depending on the timing and location of spawning and that multiple spawning events are important for maximum dispersal.

Freshwater flows into estuaries influence fish populations through effects on recruitment, growth and mortality. We compared year class strength of a large sciaenid Argyrosomus japonicus with rainfall through a 16-year period in southeastern Australia, to understand the influence of freshwater input on this estuary-dependent and depleted population. Relative year class strength, estimated by back-calculating age composition data from commercial fishery landings, was positively related to rainfall within estuarine catchments (R2 = 52%). Commercial estuarine landings from a separate 29-year dataset were positively related to rainfall two and three years earlier (R2 = 21% and 44%, respectively). Year class strength of a key prey species, the penaeid prawn Metapenaeus macleayi, was also related to year class strength of A. japonicus (R2 = 39%), suggesting that rainfall influences recruitment of A. japonicus by affecting food availability. Several years of above average rainfall may be required to promote recruitment substantial enough to rebuild the population.

Pomatomus saltatrix is an important recreational fishing species with seven major populations worldwide. The reproductive biology of the southwest Pacific Ocean (east Australian) population is uncertain, with both an extended spawning and multiple spawning periods previously hypothesised. Here we demonstrate an altered sex ratio biased towards females and a larger length at 50% maturity (L50) compared to those recorded for the population 40 years ago, before comprehensive management strategies were implemented. We also report a second, previously undescribed, late-summer spawning event which was identified by analysing patterns in a gonadosomatic index across the whole population and an historical larval fish database. P. saltatrix are capable of spawning multiple times per season with estimates of batch fecundity ranging from 99,488 to 1,424,425 eggs per fish. When combined with the length frequency distribution of the population, the majority of eggs (64%) were shown to be produced by fish ≤40 cm fork length (FL). L50 was estimated at 30.2 and 31.5 cm FL for male and female P. saltatrix respectively, 4 cm larger than 40 years ago. The sex ratio of the population was found to have significantly shifted over the last 40 years from an equal sex ratio to a female dominated population (1.58 females:1 male). These dramatic alterations to the sex ratio and L50 highlights the value of monitoring the reproductive biology of exploited fish populations to ensure that management plans remain appropriate.

Consumption rates are the foundation of trophic ecology, yet bioenergetics models used to estimate these rates can lack realism by not incorporating the ontogeny of diet. We constructed a bioenergetics model of a marine predatory fish (tailor, Pomatomus saltatrix) that incorporated high-resolution ontogenetic diet variation, and compared consumption estimates to those derived from typical bioenergetics models that do not consider ontogenetic diet variation. We found tailor consumption was over-or under-estimated by ~5-25% when only including the most common prey item. This error was due to a positive relationship between mean prey energy density and predator body size. Since high-resolution diet data isn't always available, we also simulated how increasing dietary information progressively influenced consumption rate estimates. The greatest improvement in consumption rate estimates occurred when diet variation of 2-3 stanzas (1-2 juvenile stanzas, and adults) was included, with at least 5-6 most common prey types per stanza. We recommend increased emphasis on incorporating the ontogeny of diet and prey energy density in consumption rate estimates, especially for species with spatially segregated life stages or variable diets. A small-moderate increase in the resolution of dietary information can greatly benefit the accuracy of estimated consumption rates. We present a method of incorporating variable prey energy density into bioenergetics models.

Estuaries provide important nursery habitats for juvenile fish, but many species move between estuarine and coastal habitats throughout their life. We used otolith chemistry to evaluate the use of estuaries and the coastal marine environment by juvenile Pomatomus saltatrix in eastern Australia. Otolith chemical signatures of juveniles from 12 estuaries, spanning 10° of latitude, were characterised using laser ablation-inductively coupled plasma-mass spectrometry. Based upon multivariate otolith elemental signatures, fish collected from most estuaries could not be successfully discriminated from one another. This was attributed to the varying influence of marine water on otolith elemental composition in fish from all estuaries. Using a reduced number of estuarine groups, the multivariate juvenile otolith elemental signatures and univariate Sr:Ca ratio suggest that between 24 and 52% of adult P. saltatrix had a juvenile period influenced by the marine environment. Elemental profiles across adult (age-1) otoliths highlighted a variety of life history patterns, not all consistent with a juvenile estuarine phase. Furthermore, the presence of age-0 juveniles in coastal waters was confirmed from historical length-frequency data from coastal trawls. Combining multiple lines of evidence suggests considerable plasticity in juvenile life history for P. saltatrix in eastern Australia through their utilisation of both estuarine and coastal nurseries. Knowledge of juvenile life history is important for the management of coastal species of commercial and recreational importance such as P. saltatrix.

An important challenge for conservation science is to detect declines in intraspecific diversity so that management action can be guided towards populations or species at risk. The lifespan of Australian lungfish (Neoceratodus forsteri) exceeds 80 years, and human impacts on breeding habitat over the last half century may have impeded recruitment, leaving populations dominated by old postreproductive individuals, potentially resulting in a small and declining breeding population. Here, we conduct a "single-sample" evaluation of genetic erosion within contemporary populations of the Australian lungfish. Genetic erosion is a temporal decline in intraspecific diversity due to factors such as reduced population size and inbreeding. We examined whether young individuals showed signs of reduced genetic diversity and/or inbreeding using a novel bomb radiocarbon dating method to age lungfish nonlethally, based on 14 C ratios of scales. A total of 15,201 single nucleotide polymorphic (SNP) loci were genotyped in 92 individuals ranging in age from 2 to 77 years old. Standardized individual heterozygosity and individual inbreeding coefficients varied widely within and between riverine populations, but neither was associated with age, so perceived problems with recruitment have not translated into genetic erosion that could be considered a proximate threat to lungfish populations. Conservation concern has surrounded Australian lungfish for over a century. However, our results suggest that long-lived threatened species can maintain stable levels of intraspecific variability when sufficient reproductive opportunities exist over the course of a long lifespan.

Pelagic mesopredators are abundant in many marine ecosystems and exert strong top-down influence on food webs. We explored the dietary niche of Pomatomus saltatrix in eastern Australia, using a classification tree analysis to identify key factors driving diet variation. P. saltatrix was shown to be an opportunistic generalist predator which exhibited increased baitfish consumption, and decreased crustacean consumption, with increasing size. The classification tree analysis showed that body size and latitude had the greatest influence on the diet of P. saltatrix, with significant ontogenetic diet shifts occurring at 8 and 30 cm fork length (FL). While piscivory is evident in the majority of P. saltatrix diets by ~8 cm FL, crustaceans are almost entirely absent from the diet after ~30 cm FL. The importance of latitude was likely related to the broad-scale oceanography in the study region, including the East Australian Current and its separation from the continental shelf. The classification tree analysis is a powerful framework for identifying important variables in diet composition.

Summary Accounting for genetic diversity and evolutionary processes has long been recognised as an important goal in conservation planning. However, because genetic data are often lacking, surrogate approaches are widely used. Few studies have, however, assessed the capacity of surrogate data, such as higher taxonomic levels (e.g. species distributions) to portray intraspecific genetic diversity. Here, we contrast conservation plans based on traditional species distribution data, with those derived from intraspecific genetic data for a smaller subset of species, both using freshwater fish in northern Australia. We modelled the spatial distribution of 46 species and intraspecific genetic diversity within four common species. We then identified priority areas for conservation using both data sets and evaluated the extent to which solutions obtained from species distribution data portrayed genetic diversity. We found that genetic diversity could be adequately represented within priority areas identified using species distribution data, even at low conservation targets and for species with complex genetic structure. However, this was only true when using the entire fish community (i.e. all 46 species). In contrast, a substantial component of the genetic structure would not be represented in conservation priority areas when using a subset of species. Our results have important implications for the use of surrogates for genetic diversity in conservation planning. Sufficient genetic diversity might be represented in conservation priority areas by including a broad range of species with distributions ranging from common to rare elements in the community in the prioritisation analyses. We recommend focusing on improving accuracy of data on species distributions to reduce uncertainties in conservation recommendations derived from commission and omission errors, to avoid misuse of limited conservation funds and potential failure of conservation practice.

Knowledge about the biogeography of organisms has long been a focus in ecological research, including the mechanisms that generate and maintain diversity. In this study, we targeted a microbial group relatively underrepresented in the microbial biogeographic literature, the soil Archaea. We surveyed the archaeal abundance and community composition using real-time quantitative PCR and T-RFLP approaches for 105 soil samples from 2 habitat types to identify the archaeal distribution patterns and factors driving these patterns. Results showed that the soil archaeal community was affected by spatial and environmental variables, and 79% and 51% of the community variation was explained in the non-flooded soil (NS) and flooded soil (FS) habitat, respectively, showing its possible biogeographic distribution. The diversity patterns of soil Archaea across the landscape were influenced by a combination of stochastic and deterministic processes. The contribution from neutral processes was higher than that from deterministic processes associated with environmental variables. The variables pH, sample depth and longitude played key roles in determining the archaeal distribution in the NS habitat, while sampling depth, longitude and NH4 (+)-N were most important in the FS habitat. Overall, there might be similar ecological drivers in the soil archaeal community as in macroorganism communities.

The genre of biosensing interactive art relies on the bodily responses of participants to complete the work. Exploring the experience of participants during such encounters is central to fully appreciating the work of art. Yet few artists and researchers

The purpose of these analyses was to explore whether physical activity score, leg power or grip strength were associated with tibia and radius estimates of bone strength, cortical density, or total bone area. Peripheral quantitative computed tomography (pQCT) was used to compare tibial and radial bone volumetric density (vBMD, mg/cm3), total (ToA, mm2) and cortical (CoA, mm2) bone area, and estimates of bone compressive strength (bone strength index, BSI) and bending strength (polar strength strain index, SSIp) in a subset (n=1171) of men (- 65years) who participated in the multi-site Osteoporotic Fractures in Men (MrOS) study. Physical activity was assessed by questionnaire (PASE), leg power by Nottingham Power Rig, and grip strength by a hand-held Dynamometer. Participants were categorized into quartiles of PASE, grip strength or leg power. The model was adjusted for age, race, clinic, weight, and limb length. In the tibia, BSI (+7%) and SSIp (+4%) were highest in the most active physically quartile compared to the least active (p<0.05). At the 4% site of the tibia, men with the greatest leg power had both greater ToA (+5%, p<0.001) and BSI (+5.3%, p=0.086) compared to men with the least leg power. At the 66% site of the tibia, the men with the highest leg power, compared to the men with the lowest leg power, had greater ToA (+3%, p=0.045) SSIp (+5%, p=0.008). Similar results were found at both the distal and midshaft of the radius. The findings of this study suggest the importance of maintaining levels of physical activity and muscle strength in older men to prevent bone fragility. © 2010.

The effects of type 2 diabetes mellitus (T2DM) on bone volumetric density, bone geometry, and estimates of bone strength are not well established. We used peripheral quantitative computed tomography (pQCT) to compare tibial and radial bone volumetric density (vBMD, mg/cm3), total (ToA, mm2) and cortical (CoA, mm2) bone area and estimates of bone compressive and bending strength in a subset (n=1171) of men (≥65 years of age) who participated in the multisite Osteoporotic Fractures in Men (MrOS) study. Analysis of covariance-adjusted bone data for clinic site, age, and limb length (model 1) and further adjusted for body weight (model 2) were used to compare data between participants with (n=190) and without (n=981) T2DM. At both the distal tibia and radius, patients with T2DM had greater bone vBMD (+2% to +4%, model 1, p<.05) and a smaller bone area (ToA -1% to -4%, model 2, p<.05). The higher vBMD compensated for lower bone area, resulting in no differences in estimated compressive bone strength at the distal trabecular bone regions. At the mostly cortical bone midshaft sites of the radius and tibia, men with T2DM had lower ToA (-1% to -3%, p<.05), resulting in lower bone bending strength at both sites after adjusting for body weight (-2% to -5%, p<.05) despite the lack of difference in cortical vBMD at these sites. These data demonstrate that older men with T2DM have bone strength that is low relative to body weight at the cortical-rich midshaft of the radius despite no difference in cortical vBMD. © 2010 American Society for Bone and Mineral Research.

Labrids are abundant on temperate rocky reefs yet their life histories are poorly known. Three co-occurring Australian labrids (Ophthalmolepis lineolatus, Notolabrus gymnogenis and Pictilabrus laticlavius) exhibited protogynous hermaphroditism typical of labrids. Juveniles reached sexual maturity at 184 mm total length (TL) (2.1 years) in O. lineolatus, 177 mm TL (1.8 years) in N. gymnogenis and <95 mm TL (<0.9 years) in P. laticlavius. Individuals were sexually active initial phase females until changing to a terminal phase male at 295 mm TL (5.2 years) in O. lineolatus, 273 mm TL (4.5 years) in N. gymnogenis and 138 mm TL (2.0 years) in P. laticlavius. The occurrence of males only at greater lengths and older ages suggests that O. lineolatus and N. gymnogenis are monandrous, whereas P. laticlavius appears to be diandrous. Reproduction was asynchronous among species with reproductive activity peaking in January-March for O. lineolatus, April-October for N. gymnogenis and October-December for P. laticlavius. Sectioned otoliths revealed that O. lineolatus and N. gymnogenis grew rapidly to 300 mm TL (6 years) and P. laticlavius to 180 mm TL (3 years). Longevity was at least 13.8, 9.6 and 4.8 years respectively. These life history data will aid management of these frequently harvested species. © CSIRO 2008.