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The rapid emergence of antimicrobial resistance (AMR) is a major concern for wildlife and ecosystem health globally. Genetic determinants of AMR have become indicators of anthropogenic pollution due to their greater association with humans and rarer presence in environments less affected by humans. The objective of this study was to determine the distribution and frequency of the class 1 integron, a genetic determinant of AMR, in both the faecal microbiome and in Escherichia coli isolated from neonates of three pinniped species. Australian sea lion (Neophoca cinerea), Australian fur seal (Arctocephalus pusillus doriferus) and long-nosed fur seal (Arctocephalus forsteri) pups from eight breeding colonies along the Southern Australian coast were sampled between 2016-2019. DNA from faecal samples (n=309) and from E. coli (n=795) isolated from 884 faecal samples were analysed for class 1 integrons using PCRs targeting the conserved integrase gene (intI) and the gene cassette array. Class 1 integrons were detected in A. p. doriferus and N. cinerea pups sampled at seven of the eight breeding colonies investigated in 4.85% of faecal samples (n=15) and 4.52% of E. coli isolates (n=36). Integrons were not detected in any A. forsteri samples. DNA sequencing of the class 1 integron gene cassette array identified diverse genes conferring resistance to four antibiotic classes. The relationship between class 1 integron carriage and the concentration of five trace elements and heavy metals was also investigated, finding no significant association. The results of this study add to the growing evidence of the extent to which antimicrobial resistant bacteria are polluting the marine environment. As AMR determinants are frequently associated with bacterial pathogens, their occurrence suggests that these pinniped species are vulnerable to potential health risks. The implications for individual and population health as a consequence of AMR carriage is a critical component of ongoing health investigations.

Marine ecosystems in southeastern Australia are responding rapidly to climate change. We monitored the diet of the Australian fur seal ( Arctocephalus pusillus doriferus ), a key marine predator, over 17 years (1998–2014) to examine temporal changes. Frequency of occurrence (FO) of prey was used as a proxy for ecosystem change. Hard part analysis identified 71 prey taxa, with eight dominant taxa in greater than 70% of samples and predominantly included benthic and small pelagic fish. FO changed over time, e.g. redbait ( Emmelichthys nitidus ) reduced after 2005 when jack mackerel ( Trachurus declivis ) increased, and pilchard ( Sardinops sajax ) increased after 2009. Using generalized additive models, correlations between FO and environmental variables were evident at both the local (e.g. wind, sea surface temperature (SST)) and regional (e.g. El Niño–Southern Oscillation Index (SOI), Southern Annular Mode (SAM)) scales, with redbait and pilchard showing the best model fits (greater than 75% deviance explained). Positive SAM was correlated to FO for both species, and wind and season were important for redbait, while SOI and SST were important for pilchard. Both large-scale and regional processes influenced prey taxa in variable ways. We predict that the diverse and adaptable diet of the Australian fur seal will be advantageous in a rapidly changing ecosystem.

Per and polyfluorinated substances (PFAS) exposure was investigated in Australian pinnipeds. Concentrations of 16 PFAS were measured in the livers of Australian sea lion (Neophoca cinerea), Australian fur seal (Arctocephalus pusillus doriferus) and a long-nosed Fur Seal (Arctocephalus forsteri) pup sampled between 2017 and 2020 from colonies in South Australia and Victoria. Findings reported in this study are the first documented PFAS concentrations in Australian pinnipeds. Median and observed range of values in ng/g wet weight were highest for perfluorooctane sulfonate (PFOS), perfluorooctanoic acid (PFOA) and perfluorononanoic acid (PFNA) in the liver of N. cinerea (PFOS = 7.14, 1.00-16.9; PFOA = 2.73, 0.32-11.2; PFNA = 2.96, 0.61-8.22; n = 28), A. forsteri (PFOS = 15.98, PFOA = 2.02, PFNA = 7.86; n = 1) and A. p. doriferus (PFOS = 27.4, 10.5-2119; PFOA = 0.98, 0.32-52.2; PFNA = 2.50, 0.91-44.2; n = 20). PFAS concentrations in A. p. doriferus pups were significantly greater (p < 0.05) than in N. cinerea pups for all PFAS except PFOA and were of similar magnitude to those reported in northern hemisphere marine animals. These results demonstrate exposure differences in both magnitude and PFAS profiles for N. cinerea in South Australia and A. p. doriferus in Victoria. This study reports detectable PFAS concentrations in Australian pinniped pups indicating the importance of maternal transfer of these toxicants. As N. cinerea are endangered and recent declines in pup production has been reported for A. p. doriferus at the colony sampled, investigation of potential health impacts of these toxicants on Australian pinnipeds is recommended.

The Australian fur seal (Arctocephalus pusillus doriferus) resulted from an emigration by South African fur seals (A. p. pusillus) across the Indian Ocean 18,000 to 12,000 years ago. The sub-species look and behave similarly. The Australian fur seal has a smaller range, smaller population density and smaller total population probably because waters around south-eastern Australia are less productive than coastal waters off Southern Africa. The Australian fur seals’ distribution and habitat uses are likely influenced by interactions with New Zealand fur seals (A. forsteri) and Australian sea lions (Neophoca cinerea), which had prior occupation of southern Australian waters. Australian fur seals are primarily benthic foragers and adaptable generalist predators. Their life history traits are comparable to other otariids, being linked to an annual reproductive cycle, a territorial defense/polygynous mating system, and extreme sexual dimorphism—males are twice the size of females. Conservation issues facing Australian fur seals are comparable to those facing other otariids, and include competition from fisheries, entanglement in marine debris, exposure to pollutants, and disturbance on land.

Like most sea lions, Australian sea lions are benthic foragers with prolonged lactation, extensive parental care, complex social interactions, mild-moderate polygyny, are relatively long-lived and near apex predators. They have been well studied in regards to population dynamics, foraging ecology, parent-offspring behavior and social communication; in fact, they are probably the best understood of all the otariids in regards to mother-offspring recognition and mating strategies. Yet they remain an enigmatic beast with a unique, asynchronous aseasonal reproductive cycle, the evolution of which is still not fully understood. In this chapter we compare Australian sea lions to other otariids and the odobenid, describe the detailed understanding of their life history traits and explore putative hypotheses as to how their unique reproductive cycle evolved.

One of the most critical phases in the life of petrels (Procellariiformes) is at fledging when young birds pass from parental dependence on land to an independent life at sea. To mitigate mortality at this time, rescue programs are implemented near breeding sites around the world, especially for birds grounded by artificial lights. We evaluated the plumage and body condition of short-tailed shearwater (Ardenna tenuirostris) fledglings captured at colonies just before departure in comparison to fledglings washed up on beaches and to fledglings attracted by artificial light along roads. We measured abundance of down, body mass, and body condition index as the standardized residuals of a regression of body mass on size, and employed linear models to test differences on body mass and body condition between locations. Beach-washed birds were underweight and in poor condition, suggesting their future survival probabilities at sea were low. Birds rescued on roads as a consequence of light attraction had lower body weights and condition indices than fledglings captured at the colony. However, more than 50% of light-attracted birds had attained similar weights to those of adults, suggesting they have higher probabilities of survival than beach-washed birds. Water-logged birds being washed onto beaches is a natural process, but birds grounded by lighting along roads is an increasing anthropogenic threat that requires management. Thus, management and conservation efforts should be directed to protect birds in the colonies and reduce light-induced mortality, ideally through the strategic reduction of light sources and lateral light spillage. When resources for conservation are limited, rescue programs should focus on rescuing birds from roads rather than beach-washed birds, which have a lower probability of survival. © 2017 The Wildlife Society.

Remotely piloted aircraft (RPA or drones) have become a powerful tool for use in spatial and temporal ecology. Major benefits for environmental management, including improved accuracy and precision for population monitoring of fauna, are being realized. We used Australian fur seals (Arctocephalus pusillus) as a model system to assess how counts and capture–mark–resight (CMR) estimates derived from RPA surveys compared with both traditionally used ground counts and CMR abundance estimates at two colonies in southeastern Australia. To manage the large volume of data, we implemented a citizen science portal SealSpotter to screen RPA imagery for animals of the target age classes. Capture–mark–resight estimates and direct counts using RPA imagery provided measurable improvement in monitoring precision when compared with traditional techniques. A key methodological assumption of CMR estimates is that there is uniform mixing of marked animals across the focal area. This was also validated using spatial data derived from images and linear models, a novel capability of the RPA technique. Our findings have the potential to improve wildlife monitoring techniques for fur seals and are broadly transferable to a wide range of other animal taxa where CMR techniques are employed. Furthermore, they add to the growing body of evidence that demonstrates the benefits of RPAs for wildlife monitoring exceed those of traditional techniques.

Adverse impacts of marine litter is documented on >1400 species, including marine megafauna (fish, birds, sea turtles and mammals). The primary impacts include ingestion and entanglement, and there is increasing concern about chemical contamination via ingestion. Numerous survey approaches and monitoring programs have been developed and implemented around the world. They may aim to provide data about parameters such as species distribution and interactions with anthropogenic activities. During the Sixth International Marine Debris Conference, a session was dedicated to the tools and constraints in monitoring interactions between litter and megafauna. In the present paper, we summarize 7 case studies which discuss entanglement and ingestion including macro- and micro-debris in several taxa and across multiple geographic regions. We then discusses the importance of tools and standardizing methods for assessment and management purposes, in the context of international environmental policies and marine litter strategies.

Amoebic gill disease (AGD) in farmed Atlantic salmon is caused by the amoeba Paramoeba perurans. The recent establishment of in vitro culture techniques for P. perurans has provided a valuable tool for studying the parasite in detail. In this study, flow cytometry was used to generate clonal cultures from single-sorted amoeba, and these were used to successfully establish AGD in experimental Atlantic salmon. The clonal cultures displayed differences in virulence, based on gill scores. The P. perurans load on gills, determined by qPCR analysis, showed a positive relationship with gill score, and with clonal virulence, indicating that the ability of amoebae to proliferate and/or remain attached on gills may play a role in virulence. Gill scores based on gross signs and histopathological analysis were in agreement. No association between level of gill score and specific gill arch was observed. It was found that for fish with lower gill scores based on histopathological examination, gross examination and qPCR analysis of gills from the same fish were less successful in detecting lesions and amoebae, respectively.

BackgroundAccurate time-energy budgets summarise an animal’s energy expenditure in a given environment, and are potentially a sensitive indicator of how an animal responds to changing resources. Deriving accurate time-energy budgets requires an estimate of time spent in different activities and of the energetic cost of that activity. Bio-loggers (e.g., accelerometers) may provide a solution for monitoring animals such as fur seals that make long-duration foraging trips. Using low resolution to record behaviour may aid in the transmission of data, negating the need to recover the device.MethodsThis study used controlled captive experiments and previous energetic research to derive time-energy budgets of juvenile Australian fur seals (Arctocephalus pusillus)equipped with tri-axial accelerometers. First, captive fur seals and sea lions were equipped with accelerometers recording at high (20 Hz) and low (1 Hz) resolutions, and their behaviour recorded. Using this data, machine learning models were trained to recognise four states—foraging, grooming, travelling and resting. Next, the energetic cost of each behaviour, as a function of location (land or water), season and digestive state (pre- or post-prandial) was estimated. Then, diving and movement data were collected from nine wild juvenile fur seals wearing accelerometers recording at high- and low- resolutions. Models developed from captive seals were applied to accelerometry data from wild juvenile Australian fur seals and, finally, their time-energy budgets were reconstructed.ResultsBehaviour classification models built with low resolution (1 Hz) data correctly classified captive seal behaviours with very high accuracy (up to 90%) and recorded without interruption. Therefore, time-energy budgets of wild fur seals were constructed with these data. The reconstructed time-energy budgets revealed that juvenile fur seals expended the same amount of energy as adults of similar species. No significant differences in daily energy expenditure (DEE) were found across sex or season (winter or summer), but fur seals rested more when their energy expenditure was expected to be higher. Juvenile fur seals used behavioural compensatory techniques to conserve energy during activities that were expected to have high energetic outputs (such as diving).DiscussionAs low resolution accelerometry (1 Hz) was able to classify behaviour with very high accuracy, future studies may be able to transmit more data at a lower rate, reducing the need for tag recovery. Reconstructed time-energy budgets demonstrated that juvenile fur seals appear to expend the same amount of energy as their adult counterparts. Through pairing estimates of energy expenditure with behaviour this study demonstrates the potential to understand how fur seals expend energy, and where and how behavioural compensations are made to retain constant energy expenditure over a short (dive) and long (season) period.

Technical advances in monitoring devices, specifically drones, are allowing managers and scientists to obtain quality information on ecosystem health with minimal disturbance to ecosystems and the wildlife they support. Temporal and spatial indicators of ecosystem health, such as population size and/or abundance estimates of marine mammals are the basis for our understanding and prediction of ecosystem change. This is critical for the achievement of conservation goals and sustainable natural resources use. Performing surveys to obtain abundance estimates can be logistically demanding and expensive particularly in offshore marine environments, and can cause significant disturbance to wildlife. These constraints may lead to sub-optimal monitoring programs that reduce the frequency and/or precision of surveys at the cost of data quality and confidence in the resulting analyses. Using Remote Piloted Aircraft (RPA) can be a solution to this challenge. With appropriate testing and ethical consideration; for many situations, RPAs can perform surveys with increased frequency, higher data resolution and less disturbance than typical methods that involve people being present on the ground, thereby enabling more robust programs for monitoring. We demonstrate the process of testing images from RPAs for estimating the abundance of Australian fur seals (Arctocephalus pusillus doriferus) at one of their largest colonies on Seal Rocks, Australia. Two sizes of multirotor (1,400 and 350 mm) with different imaging equipment were tested at 40, 60, and 80 m altitude above sea level. We assessed wildlife disturbance levels and optimized a methodology for effective and economical monitoring of this site. We employed commercially available and open-source software for programming survey flights (Drone Deploy), image processing (Agisoft Photoscan and Autopano Giga), data collation and analyses (R and Python). An online portal “SealSpotter” was developed to facilitate data collection, with the ultimate goal being the engagement of the public as citizen scientists in fur seal counts from RPA images. Preliminary comparisons show that a small RPA at 40 m altitude can produce pup counts 20–32% higher than corresponding ground counts without observable disturbance. The benefits and disadvantages of the RPA trials are discussed, as well as important considerations for those looking to incorporate similar methodologies in their research.

Background. Accurate time-energy budgets summarise an animal’s energy expenditure in a given environment and are potentially a sensitive indicator of how an animal responds to changing resources. Deriving accurate time-energy budgets requires a precise measure of time spent in different activities, and an estimate of the energetic cost of that activity. Bio-loggers such as accelerometers may provide a solution for monitoring animals such as fur seals that make long-duration foraging trips over multiple days or weeks. Monitoring such behaviour may require low resolution recording due to the memory constraints of bio-loggers. The aim of this study was to evaluate if accelerometers recording at a low resolution could accurately classify and determine the cost of fur seal activity. Methods. Diving and movement data were collected from nine wild juvenile Australian fur seals equipped with tri-axial accelerometers. To validate time-energy budgets for the fur seals, energy consumption during a range of behaviours was determined from twelve captive surrogates. The time wild fur seals spent in four behavioural states - foraging, grooming, travelling and resting - was quantified with low- and high-resolution data from accelerometers using gradient boosting models (GBM). The daily energy expenditure (DEE) from these four activities was estimated using a relatively simple energetics model developed using their location (land, surface or underwater) and estimates of the energetic cost of each behaviour. Models developed from captive seals were applied to accelerometry data collected from wild juvenile Australian fur seals and their time-energy budgets were reconstructed. Results. Low resolution accelerometery was better at classifying fur seal behaviour over long durations than high resolution accelerometry in captive surrogates. The low resolution model was therefore applied to wild data. This revealed that Juvenile fur seals expended more energy than adults of similar species, but there was no significant difference in DEE across sex or season (winter or summer). Juvenile fur seals used behavioural compensatory techniques to conserve energy during activities that were expected to have high energetic outputs (such as diving). Discussion. Behaviours that are displayed over a long duration can be captured accurately by low-resolution accelerometry and these models can be used to develop time-energy budgets of wild animals. In this study we were able to use such models to monitor juvenile fur seals over multiple foraging trips. This revealed that juvenile fur seals appear to be working energetically harder than their adult counterparts, likely due to the relative novelty of diving and foraging, their smaller body size and the additional cost of growth they sustain. Developing time-energy budgets from accelerometers is an efficient method of estimating energy expenditure from individuals over time.

Methods of calculating wildlife entanglement rates are not standardised between studies and often ignore the influence of observer effort, confounding comparisons. From 1997-2013 we identified 359 entangled Australian fur seals at Seal Rocks, south-eastern Australia. Most entanglement materials originated from commercial fisheries; most frequently entangling pups and juveniles. Using Generalized Additive Mixed Models, which incorporated observer effort and survey frequency, we identified that entanglements were observed more frequently amongst pups from July to October as they approached weaning. Neither the decline in regional fishing intensity nor changing seal population size influenced the incidence of entanglements. Using the models, we estimated that 302 (95% CI. =. 182-510) entangled seals were at Seal Rocks each year, equivalent to 1.0% (CI. =. 0.6-1.7%) of the site population. This study highlights the influence of observer effort and the value of long-term datasets for determining the drivers of marine debris entanglements.

Effective ecosystem-based management requires estimates of abundance and population trends of species of interest. Trend analyses are often limited due to sparse or short-term abundance estimates for populations that can be logistically difficult to monitor over time. Therefore it is critical to assess regularly the quality of the metrics in long-term monitoring programs. For a monitoring program to provide meaningful data and remain relevant, it needs to incorporate technological improvements and the changing requirements of stakeholders, while maintaining the integrity of the data. In this paper we critically examine the monitoring program for the Australian fur seal (AFS) Arctocephalus pusillus doriferus as an example of an ad-hoc monitoring program that was co-ordinated across multiple stakeholders as a range-wide census of live pups in the Austral summers of 2002, 2007 and 2013. This 5-yearly census, combined with historic counts at individual sites, successfully tracked increasing population trends as signs of population recovery up to 2007. The 2013 census identified the first reduction in AFS pup numbers (14,248 live pups, -4.2% change per annum since 2007), however we have limited information to understand this change. We analyse the trends at breeding colonies and perform a power analysis to critically examine the reliability of those trends. We then assess the gaps in the monitoring program and discuss how we may transition this surveillance style program to an adaptive monitoring program than can evolve over time and achieve its goals. The census results are used for ecosystem-based modelling for fisheries management and emergency response planning. The ultimate goal for this program is to obtain the data we need with minimal cost, effort and impact on the fur seals. In conclusion we identify the importance of power analyses for interpreting trends, the value of regularly assessing long-term monitoring programs and proper design so that adaptive monitoring principles can be applied.

An experimental design and statistical analysis providing information on the reliability of pooled test procedures is described. It involves estimating the relationship between the probability of a positive pooled test result (dependent variable) and the expected number of infected individuals in a pool (explanatory variable). The intercept is an estimate of the proportion of false positives (1-pooled specificity) and pooled sensitivities can be estimated for indicative prevalences of infected individuals. Simulations for a theoretical infection are used to investigate the advantages and limitations of the approach. The approach is used to evaluate the reliability of a virus isolation and qRT-PCR test procedure detecting Salmonid alphavirus the pathogenic agent necessary for the development of Pancreas Disease in Atlantic salmon (Salmo salar).

Rebecca R. McIntosh, Anthony D. Arthur, Terry Dennis, Mel Berris, Simon D. Goldsworthy, Peter D. Shaughnessy, Carlos E. P. Teixeira

The use of Taqman real-time PCR-based technology has recently become more frequent in the detection of pathogens in the aquaculture industry. This interest has necessitated the development of robust and reliable pathogen-detection assays. The development of a range of endogenous control assays to be run alongside these diagnostic assays works to further increase confidence in the latter. This study describes the design of a range of endogenous control assays based on the elongation factor 1-α (EF1-α) gene specific to a range of fish species including Atlantic salmon, Salmo salar; rainbow trout, Oncorhynchus mykiss; brown trout, Salmo trutta; cod, Gadus morhua; haddock, Melanogrammus aeglefinus; saithe, Pollachius virens; whiting, Merlangius merlangus; Norway pout, Trisopterus esmarkii; carp (family Cyprinidae), roach, Rutilus rutilus; European eel, Anguilla anguilla; and herring, Clupea harengus, as well as a number of fish cell lines. Evidence is provided of the validation of these assays for specific species, a range of tissue types and cell lines as well as an example of the potential uses of these assays.

NestproductivityamongtheWhite-belliedSea-Eagle(Haliaeetusleucogaster)populationonKangarooIsland (South Australia) was monitored over 11 breeding seasons between 1985 and 1999. Territories were assessed against standardised measures of relative isolation from human disturbance and assigned to Low-, Moderate- or High-disturbance categories. When productivity data were compared between categories, the level of disturbance was found to significantly affect fledging outcomes, with high-disturbance territories having significantly lower fledging success. Of 164 occupied territory-years, 119 (72.6%) were active and fledged 0.8 (mean) young per year. Territories with high-disturbance levels producedeggslessoften(65%ofterritoriesactivecf.79%activeinmoreisolatedlocations), fledgedfeweryoung(0.5young peryearcf.1.1),andhadhigherratesofnestingfailure(46%cf.13%).TheseresultsindicatethattomitigatefurtherSea-Eagle population decline in South Australia, site-specific habitat management prescriptions, which include buffer-zone refuge provisions,arerequiredtominimisetheeffectsofhumanactivityonbreedingoutcomes.Suchprescriptionsneedtotakeinto account that, unique to South Australia, most nests are on cliffs in open coastal landscapes with little visual screening over long distance, thus refuge dimensions should be double those prescribed elsewhere for nests in tall forest habitat.

Salmonid alphaviruses (SAVs), which include the aetiological agents of salmon pancreas disease (SPD) in farmed Atlantic salmon Salmo salar L. and sleeping disease (SD) in rainbow trout Oncorhynchus mykiss (Walbaum), are significant viral pathogens of European salmonid aquaculture. SAV is horizontally transmitted and the virus can survive for extended periods in seawater. A lack of convincing evidence for vertical transmission coupled to the fact that the SPD virus (SPDV) occurs in historically infected sites irrespective of fallow period duration suggests that a substantial reservoir of infection exists in the marine environment. We used a highly sensitive real-time PCR (qPCR) assay targeting a region of the SAV nsP1 gene to screen wild marine fish species for the presence of SAV in an attempt to identify such a potential reservoir. Screened fish species were caught in the vicinity of aquaculture activity in an area with a previous history of SAV infection (Shetland Isles, Scotland). SAV RNA was detected in internal organs (kidney and heart) from the flatfish species common dab Limanda limanda, long rough dab Hippoglossoides platessoides, and plaice Pleuronectes platessa. Based on these findings, sampling was extended to an area remote from aquaculture activity (Stonehaven Bay, NE coast of Scotland) from where heart tissues obtained from common dab also tested positive. While no virus could be cultivated from these samples, qPCR detections were shown to be SAV-specific by sequencing of an alternative gene region (E2) to that targeted by the qPCR assay. Analysis of these nucleotide sequences revealed minor differences to those previously obtained from farmed salmon, and subsequent phylogenetic analysis of an E2 dataset demonstrated a subtype V-like sequence.

Commercial sealers exterminated the original fur seal population at Macquarie Island in the early 1800s. The first breeding record since the sealing era was not reported until March 1955. Three species of fur seal now occur at Macquarie Island, the Antarctic (Arctocephalus gazella), subantarctic (A. tropicalis) and New Zealand (A. forsteri) fur seal. Census data from 54 breeding seasons in the period 1954–2007 were used to estimate population status and growth for each species. Between the 1950s and 1970s, annual increases in pup production for the species aggregate were low. Between 1986 and 2007, pup production of Antarctic fur seals increased by about 8.8% per year and subantarctic fur seals by 6.8% per year. The New Zealand fur seal, although the most numerous fur seal species on Macquarie Island, has yet to establish a breeding population, due to the absence of reproductively mature females. Hybridisation among species is significant, but appears to be declining. The slow establishment and growth of fur seal populations on Macquarie Island appears to have been affected by its distance from major population centres and hence low immigration rates, asynchronous colonisation times of males and females of each species, and extensive hybridisation.

The status of the Australian sea lion Neophoca cinerea at eight sites on Kangaroo Island was assessed using criteria adopted by the National Seal Strategy Group based on numbers of pups counted between 1985 and 2005. Each site was allocated to one of three categories. At the Seal Slide, 1 to 11 pups were born over nine pupping seasons and it is classed as a breeding colony. At four sites (Black Point, Cave Point, Cape Bouguer and North Casuarina Island), small numbers of pups were recorded over two or more seasons, and each is classed as a haul-out site with occasional pupping. At three sites near Cape Bouguer, pups were recorded but each instance was several months after a pupping season began at the large breeding colony at Seal Bay, and pups born there are known to move to other sites. Therefore each of these three is classed as a haul-out site. Because N. cinerea is susceptible to mortality from fishery interactions, is strongly philopatric and that small colonies are especially susceptible to extinct...

This study investigated the development of diving in 21 New Zealand fur seal pups, Arctocephalus forsteri (Lesson, 1828), prior to weaning at Cape Gantheaume, Kangaroo Island. Diving behaviour was examined using time–depth recorders, which were deployed during two time periods, 5 months prior to weaning (n = 6) and 2 months prior to weaning (n = 15). Scats were also examined to assess whether fur seal pups foraged prior to weaning. The maximum dive depth attained was 44 m, while the maximum dive duration was 3.3 min. Immediately prior to weaning, fur seal pups spent a greater proportion of their time diving at night, and concomitantly several measures of diving performance also increased. In general, pups dived successively deeper (6–44 m between June and September), and the average number of dives per day, dive frequency, and vertical distance travelled increased. Prey remains were present in approximately 30% of scats and indicated that some pups were foraging as early as June (5–6 months of age, approximately 4–5 months prior to weaning). Of the scats that contained prey remains, fish (South American pilchard, Sardinops sagax (Jenyns, 1842); Australian anchovy, Engraulis australis (White, 1790); and redbait, Emmelichthys nitidus Richardson, 1845) accounted for 43% of the prey items found, crustaceans accounted for 36%, and cephalopods (Gould's squid, Nototodarus gouldi (McCoy, 1888)) accounted for 20%.

In recent years, Australian governments and fishing industry associations have developed guiding principles aimed at reducing the impact of fishing on non-target species and the benthos and increasing community awareness of their efforts. To determine whether they reduced seal entanglement in lost fishing gear and other marine debris, we analysed Australian sea lion and New Zealand fur seal entanglement data collected from Kangaroo Island, South Australia. Contrary to our expectations, we found that entanglement rates did not decrease in recent years. The Australian sea lion entanglement rate (1.3% in 2002) and the New Zealand fur seal entanglement rate (0.9% in 2002) are the third and fourth highest reported for any seal species. Australian sea lions were most frequently entangled in monofilament gillnet that most likely originated from the shark fishery, which operates in the region where sea lions forage––south and east of Kangaroo Island. In contrast, New Zealand fur seals were most commonly entangled in loops of packing tape and trawl net fragments suspected to be from regional rock lobster and trawl fisheries. Based on recent entanglement studies, we estimate that 1478 seals die from entanglement each year in Australia. We discuss remedies such as education programs and government incentives that may reduce entanglements.

Little grassbirds (Megalurus gramineus) are small, sexually monomorphic passerines that live in reed beds, lignum swamps and salt marshes in southern Australia. The breeding biology and patterns of sex allocation of the little grassbird were investigated over a single breeding season. Our observations of this species in the Edithvale Wetland Reserve revealed a highly male-biased population sex ratio, with some breeding territories containing several additional males. Nevertheless, there was little compelling evidence that little grassbirds breed cooperatively. The growth rates of male and female nestlings were similar and, as predicted by theory, there was no overall primary sex ratio bias. However, the primary sex ratio was female-biased early in the breeding season and became increasingly male-biased later in the breeding season.

Gyrodactylus salaris is a monogenean freshwater parasite that causes high mortality in wild Atlantic salmon, and a number of countries employ monitoring programmes for its presence. A TaqMan-MGB (minor groove binding) probe real-time multiplex assay targeting the internal transcribed spacer ribosomal DNA (ITS rDNA) was developed to simultaneously identify G. salaris/G. thymalli and 2 other commonly occurring Gyrodactylus species infecting salmonids in northern Europe: G. derjavinoides and G. truttae. In addition, a Gyrodactylus genus-level assay was developed to assess parasite DNA quality. The species-specific real-time PCR method correctly identified target species from a wide geographical range and from a number of salmonid hosts. It did not amplify G. lucii or G. teuchis. These species were successfully amplified using the Gyrodactylus genus real-time assay. The species-specific real-time assay proved to be significantly faster than the currently employed molecular screening method of ITS rDNA PCR amplification followed by restriction fragment length polymorphism analyses (RFLP). However, as with ITS RFLP, the real-time method did not distinguish between G. salaris and the non-pathogenic G. thymalli, its principle advantage being a significant reduction in time to achieve an initial diagnostic screen before the employment of more in-depth analyses for those specimens giving a positive G. salaris/G. thymalli real-time result.

Australian sea lion (Neophoca cinerea) pup counts have been conducted at monthly intervals at Seal Bay Conservation Park, South Australia, since 1983. The protracted breeding season of the Australian sea lion causes difficulties for estimating pup production as simple counts of pups are likely to underestimate pup abundance. Here we describe the use of a mark-recapture technique, the modified Petersen estimate, to estimate the total number of sea lion pups produced at Seal Bay by the end of the breeding season in late June 2003. Our aims were to compare the estimate of pup numbers from direct counting with that from mark-recapture, and evaluate methods used to estimate pup abundance at the end of the pupping season. Pups (n = 74) were marked over a four month period by clipping the hair on the rump. Pups were also given individually identify- ing microchips (23 mm TIRIS™ RFID) that were inserted subcutaneously. These identifying microchips were used to test for unequal catchability and estimate the number of marked pups in the population at the time

Pups of the Australian sea lion have been counted at Seal Bay for 20 pupping seasons, 1973-74 to 2002-03. Temporal changes in counts of live pups over the course of each pupping season were fitted to Gaussian (nor mal) curves to determine objectively the date when pup numbers reached their peak. The mean interval between pupping seasons was 532 ± 31 days (i.e., 17.5 months). Maximum counts of live pups for 13 pupping seasons averaged 144 (s.d. 14) from 1985 (from when data quality was

During a study of the demographics of the Australian sea lion (Neophoca cinerea), the sex ratio and morphology were obtained from 128 pups at Seal Bay Conservation Park over three breeding seasons (2002–03, 2004 and 2005–06). Gross necropsies were also performed. Dead pups were small and young, averaging 8.0 and 7.0 kg in weight, and 75.2 and 71.3 cm in length, for males and females respectively, only 1.8 kg heavier and 6.7 cm longer than newborn pups. There was no sex bias in the dead pups overall or in each cause of death classification. In 49% of mortalities, cause of death could not be inferred from gross necropsy and pups appeared in good condition. In pups in which cause of death was inferred, trauma inflicted by conspecifics was the primary result in both males and females (31.6%), followed by emaciation (10.4%), stillbirth or premature birth (7.6%) and possible shark attack (1.4%). Histopathological examination of tissues and other investigations would be required to determine whether other factors, such as disease or parasitic infection, and pollutant contamination contribute to pup mortality.

Context The Australian sea lion population at Seal Bay Conservation Park, South Australia, was estimated to be declining at a rate of 1.14% per breeding season, on the basis of maximum counts of live pups in each of 13 breeding seasons (Shaughnessy et al. 2006). The reliability of the pup-production estimates used to identify this decline is uncertain. Aims Our aims were to obtain representative and repeatable estimates of pup production and to assess the current rate of decline. Methods We compared four estimates of pup abundance over five breeding seasons (2002–03, 2004, 2005–06, 2007, 2008–09), including the count of cumulative new births, the maximum live-pup count, the number of pups given passive integrated transponder (PIT) tags, and mark–recapture methods using the Petersen estimate. Key results A total of 90% of pup births occurred over a mean of 124 days (s.d. = 14). Final estimates of pup production (from the largest of the four estimation methods used) in the five seasons were 227 (CL 221–239), 288 (CL 273–302), 219 (NA), 260 (CL 254–272) and 268 (CL 268–269). The average estimate of pup mortality was 28.6% (s.d. = 6.3%). The decline in the population at Seal Bay over 17 breeding seasons on the basis of maximum counts of live pups was 0.51% per year or 0.76% per breeding season. However, this trend was not based on best estimates of pup production. On the basis of final estimates for the last five breeding seasons, there is no declining trend. Conclusions The count of cumulative new births was the most reliable measure of pup production; the Petersen mark–recapture estimate provided a check for accuracy and confidence limits about the estimate. Implications The actual rate of change and the expected trajectory of the Seal Bay population remain uncertain. Ongoing monitoring is a priority for this site, using the reliable methods of estimating pup production identified in the present study.

Sea lions (Neophoca cinerea) at several South Australian islands were infested with the anopluran louse Antarctophthirus microchir.

Dietary remains recovered from Australian sea lion (Neophoca cinerea) digestive tracts and regurgitate samples from Seal Bay (Kangaroo Island, South Australia) were used to identify prey species consumed. Four of eight digestive tracts collected (50%) contained prey items located only in the stomach. On the basis of biomass reconstruction of cephalopod prey remains, octopus contributed 40% of the biomass in the samples, giant cuttlefish (Sepia apama) contributed 30% and ommastrephid squids contributed 14% biomass. The remains of several fish species were found in the samples: leatherjacket (Monocanthidae), flathead (Platycephalus sp.), swallowtail (Centroberyx lineatus), common bullseye (Pempheris multiradiata), southern school whiting (Sillago flindersi) and yellowtail mackerel (Trachurus novaezelandiae). Southern rock lobster (Jasus edwardsii) and swimming crab (Ovalipes australiensis) carapace fragments, little penguin (Eudyptula minor) feathers and bones and shark egg cases (oviparous species and Scyliorhinidae sp.) were also identified.

The Hooded Plover Thinornis rubricollis is a threatened, sexually monomorphic wading bird that occurs in two allopatric populations in eastern and western Australia. We used a PCR-based molecular sexing technique to sex captured birds from both populations. We found 69% of adults captured at a salt-lake in Western Australia were male. We tested for a sex-bias in our trapping technique by examining the sex-ratio of eastern birds captured under circumstances analogous to the western capture operation. No sex-bias in the trapping technique was apparent although the sample size was low. This suggests that the male-bias at the lake was real. Any spatial or habitat-related segregation of the sexes must be investigated before we can conclude that the bias is a trait of the western population. If the bias occurs in the population as a whole, then the effective size of the breeding population will be less than that indicated by counts. If the sexes segregate to different sites or habitats, then spatially constrained threatening processes may lead to a skewed sex-ratio.