Searching for common threads in threadfins: phylogeography of Australian polynemids in space and time

Proper management of marine fisheries requires an understanding of the spatial and temporal dynamics of marine populations, which can be obtained from genetic data. While numerous fisheries species have been surveyed for spatial genetic patterns, temporally sampled genetic data is not available for many species. We present a phylogeographic survey of the king threadfin Polydactylus macrochir across its species range in northern Australia and at a temporal scale of 1 and 10 yr. Spatially, the overall AMOVA fixation index was Omega(st) = 0.306 (F-st' = 0.838), p < 0.0001 and isolation by distance was strong and significant (r(2) = 0.45, p < 0.001). Temporally, genetic patterns were stable at a time scale of 10 yr. However, this did not hold true for samples from the eastern Gulf of Carpentaria, where populations showed a greater degree of temporal instability and lacked spatial genetic structure. Temporal but not spatial genetic structure in the Gulf indicates demographic interdependence but also indicates that fishing pressure may be high in this area. Generally, genetic patterns were similar to another co-distributed threadfin species Eleutheronema tetradactylum, which is ecologically similar. However, the historical demography of both species, evaluated herein, differed, with populations of P. macrochir being much younger. The data are consistent with an acute population bottleneck at the last glacio-eustatic low in sea level and indicate that the king threadfin may be sensitive to habitat disturbances.

New SNPs for population genetic analysis reveal possible cryptic speciation of eastern Australian sea mullet (Mugil cephalus)

Sustainable management of sea mullet (Mugil cephalus) fisheries needs to account for recent observations of regional-scale differentiation. Population genetic analysis is sought to assess the situation of this ecologically and economically important fish species in eastern Australian waters. Here, we report (i) new population genetic markers [single nucleotide polymorphisms (SNPs) and potential microsatellites], (ii) first estimates of spatial genetic differentiation and (iii) prospective power tests for designing more comprehensive studies. Six DNA samples from three sampling regions (North Queensland, South Queensland and central New South Wales) on the eastern coast of Australia were used to prepare restriction site associated DNA (RAD) tag libraries from genomic DNA digested with EcoRI and MseI. A pooled sample of regional RAD tag libraries was sequenced using the Roche GS-FLX Titanium platform. A total of 172837 raw reads (17.4Mbp) were retrieved, 95500 of which were used to discover 1267 SNPs and 1417 microsatellites. A subset of 161 SNPs was validated based on 63 additional DNA samples genotyped using the Sequenom MassArray (iPLEX Gold chemistry). Altogether 92 SNPs (57%) were confirmed, with 40% of these marking fixed variants between northern and southern sampling regions. Our preliminary findings indicate a multispecies fishery stock of M. cephalus in eastern Australian waters, but suggest that strong genetic differentiation occurs north of major fishing grounds. Low potential differentiation within major fishing grounds (e.g. FST=0.0025) can be resolved with a likely power 67% by using standard sample sizes of 50 and validated subsets of available markers.

Nineteenth century narratives reveal historic catch rates for Australian snapper (Pagrus auratus)

Snapper (Pagrus auratus) is widely distributed throughout subtropical and temperate southern oceans and forms a significant recreational and commercial fishery in Queensland, Australia. Using data from government reports, media sources, popular publications and a government fisheries survey carried out in 1910, we compiled information on individual snapper fishing trips that took place prior to the commencement of fisherywide organized data collection, from 1871 to 1939. In addition to extracting all available quantitative data, we translated qualitative information into bounded estimates and used multiple imputation to handle missing values, forming 287 records for which catch rate (snapper fisher−1 h−1) could be derived. Uncertainty was handled through a parametric maximum likelihood framework (a transformed trivariate Gaussian), which facilitated statistical comparisons between data sources. No statistically significant differences in catch rates were found among media sources and the government fisheries survey. Catch rates remained stable throughout the time series, averaging 3.75 snapper fisher−1 h−1 (95% confidence interval, 3.42–4.09) as the fishery expanded into new grounds. In comparison, a contemporary (1993–2002) south-east Queensland charter fishery produced an average catch rate of 0.4 snapper fisher−1 h−1 (95% confidence interval, 0.31–0.58). These data illustrate the productivity of a fishery during its earliest years of development and represent the earliest catch rate data globally for this species. By adopting a formalized approach to address issues common to many historical records – missing data, a lack of quantitative information and reporting bias – our analysis demonstrates the potential for historical narratives to contribute to contemporary fisheries management.

Natural habitat and population control mechanism of Crassula helmsii (Australian Swamp Stonecrop) in Australia

The plant Crassula helmsii (Kirk) Cochayne, was likely to become widely distributed and to dominate many damp and wet areas of nature reserves, recreational waters and agricultural drainage of Britain. The aim of this report was to study Australian Swamp Stonecrop in its natural habitat where it is in balance with its environment. This contrasts with its rapid and widespread distribution in the U.K. where its growth interferes with the use of fisheries and amenity lakes but also reduces the value of nature reserves and sites of special scientific interest by suppressing native flora. It was proposed to observe its growth at a variety of sites over its natural distribution and to include some environmental factors, e.g. water-level, water-chemistry (nutrients, acidity and alkalinity), frost-tolerance, salinity, with the help of portable sensors, locally-available services or data. 8 weeks of travel in Australia allowed time to study the plant in its natural habitat including the coastal areas of the southern half of the continent i.e . Western Australia, South Australia, New South Wales, Victoria, Tasmania and southern Queensland. The overall objective was to determine the environmental range by visits to selected sites of Crassula helmsii over its geographic range.

Larval development of estuary perch (Macquaria colonorum) and Australian bass (M. novemaculeata) (Perciformes: Percichthyidae), and comments on their life history

Morphological development of the larvae and small juveniles of estuary perch (Macquaria colonorum) (17 specimens, 4.8−13.5 mm body length) and Australian bass (M. novemaculeata) (38 specimens, 3.3−14.1 mm) (Family Percichthyidae) is described from channel-net and beach-seine collections of both species, and from reared larvae of M. novemaculeata. The larvae of both are characterized by having 24−25 myomeres, a large triangular gut (54−67% of BL) in postflexion larvae, small spines on the preopercle and interopercle, a smooth supraocular ridge, a small to moderate gap between the anus and the origin of the anal fin, and distinctive pigment patterns. The two species can be distinguished most easily by the different distribution of their melanophores. The adults spawn in estuaries and larvae are presumed to remain in estuaries before migrating to adult freshwater habitat. However, larvae of both species were collected as they entered a central New South Wales estuary from the ocean on flood tides; such transport may have consequences for the dispersal of larvae among estuaries. Larval morphology and published genetic evidence supports a reconsideration of the generic arrangement of the four species currently placed in the genus Macquaria.

Australian Vessel Performance in the East Coast Tuna Longline Fishery

A sample of daily observations on the activities of Australian vessels longlining for yellowfin tuna, Thunnus albacares, during 1987-90 was analyzed, using a production junction approach, to determine the effects of vessel characteristics and operational practices and conditions. Significant differences were found between the tuna fisheries in the northern and southern regions of the inshore yellowfin tuna fishery in the east Australian Exclusive Economic Zone. The type of vessel used, and fishing practices such as soaktime, patrolling the longline, and choice of surface water temperature were found to have significant effects on yellowfin tuna catch rates.

Maori octopus (Octopus maorum) bycatch and southern rock lobster (Jasus edwardsii) mortality in the South Australian lobster fishery

Octopuses are commonly taken as bycatch in many trap fisheries for spiny lobsters (Decapoda: Palinuridae) and can cause significant levels of within-trap lobster mortality. This article describes spatiotemporal patterns for Maori octopus (Octopus maorum) catch rates and rock lobster (Jasus edwardsii) mortality rates and examines factors that are associated with within-trap lobster mortality in the South Australian rock lobster fishery (SARLF). Since 1983, between 38,000 and 119,000 octopuses per annum have been taken in SARLF traps. Catch rates have fluctuated between 2.2 and 6.2 octopus/100 trap-lifts each day. There is no evidence to suggest that catch rates have declined or that this level of bycatch is unsustainable. Over the last five years, approximately 240,000 lobsters per annum have been killed in traps, representing ~4% of the total catch. Field studies show that over 98% of within-trap lobster mortality is attributable to octopus predation. Lobster mortality rates are positively correlated with the catch rates of octopus. The highest octopus catch rates and lobster mortality rates are recorded during summer and in the more productive southern zone of the fishery. In the southern zone, within-trap lobster mortality rates have increased in recent years, apparently in response to the increase in the number of lobsters in traps and the resultant increase in the probability of octopus encountering traps containing one or more lobsters. Lobster mortality rates are also positively correlated with soak-times in the southern zone fishery and with lobster size. Minimizing trap soak-times is one method currently available for reducing lobster mortality rates. More significant reductions in the rates of within-trap lobster mortality may require a change in the design of lobster traps.

Fish recolonization in temperate Australian rockpools: a quantitative experimental approach

Understanding recolonization processes of intertidal fish assemblages is integral for predicting the consequences of significant natural or anthropogenic impacts on the intertidal zone. Recolonization of experimentally defaunated intertidal rockpools by fishes at Bass Point, New South Wales (NSW), Australia, was assessed quantitatively by using one long-term and two short-term studies. Rockpools of similar size and position at four sites within the intertidal zone were repeatedly defaunated of their fish fauna after one week, one month, and three months during two shortterm studies in spring and autumn (5 months each), and every six months for the long-term study (12 months). Fish assemblages were highly resilient to experimental perturbations—recolonizing to initial fish assemblage structure within 1−3 months. This recolonization was primarily due to subadults (30−40 mm TL) and adults (>40 mm TL) moving in from adjacent rockpools and presumably to abundant species competing for access to vacant habitat. The main recolonizers were those species found in highest numbers in initial samples, such as Bathygobius cocosensis, Enneapterygius rufopileus, and Girella elevata. Defaunation did not affect the size composition of fishes, except during autumn and winter when juveniles (<30 mm TL) recruited to rockpools. It appears that Bass Point rockpool fish assemblages are largely controlled by postrecruitment density-dependent mechanisms that indicate that recolonization may be driven by deterministic mechanisms.

Larval development of the southern sea garfish (Hyporhamphus melanochir) and the river garfish (H. regularis) (Beloniformes: Hemiramphidae) from South Australian waters

Larval development of the southern sea garfish (Hyporhamphus melanochir) and the river garfish (H. regularis) is described from specimens from South Australian waters. Larvae of H. melanochir and H. regularis have completed notochord flexion at hatching and are characterized by an elongate body with distinct rows of melanophores along the dorsal, lateral, and ventral surfaces; a small to moderate head; a heavily pigmented and long straight gut; a persistent pre-anal finfold; and an extended lower jaw. Fin formation occurs in the following sequence: caudal, dorsal and anal (almost simultaneously), pectoral, and pelvic. Despite the similarities between both species and among hemiramphid larvae in general, H. melanochir larvae are distinguishable from H. regularis by 1) having 58–61 vertebrae (vs. 51–54 for H. regularis); 2) having 12–15 melanophore pairs in longitudinal rows along the dorsal margin between the head and origin of the dorsal fin (vs. 19–22 for H. regularis); and 3) the absence of a large ventral pigment blotch anteriorly on the gut and isthmus (present in H. regularis). Both species can be distinguished from similar larvae of southern Australia (other hemiramphids and a scomberosocid) by differences in meristic counts and pigmentation.

Age and size composition, growth rate, reproductive biology, and habitats of the West Australian dhufish (Glaucosoma hebraicum) and their relevance to the management of this species

Samples of the commercially and recreationally important West Australian dhufish (Glaucosoma hebraicum) were obtained from the lower west coast of Australia by a variety of methods. Fish <300 mm TL were caught over flat, hard substrata and low-lying limestone reefs, whereas larger fish were caught over larger limestone and coral reef formations. Maximum total lengths, weights, and ages were 981 mm, 15.3 kg, and 39 years, respectively, for females and 1120 mm, 23.2 kg, and 41 years, respectively, for males. The von Bertalanffy growth curves for females and males were significantly different. The values for L∞, k, and t0 in the von Bertalanffy growth equations were 929 mm, 0.111/year, and –0.141 years, respectively, for females, and 1025 mm, 0.111/year, and –0.052 years, respectively, for males. Preliminary estimates of total mortality indicated that G. hebraicum is now subjected to a level of fishing pressure that must be of concern to fishery managers. Glaucosoma hebraicum, which spawns between November and April and predominantly between December and March, breeds at a wide range of depths and is a multiple spawner. The L50’s for females and males at first maturity, i.e. 301 and 320 mm, respectively, were attained by about the end of the third year of life and are well below the minimum legal length (MLL) of 500 mm. Because females and males did not reach the MLL until the end of their seventh and sixth years of life, respectively, they would have had, on average, the opportunity of spawning during four and three spawning seasons, respectively, before they reached the MLL. However, because G. hebraicum caught in water depths >40 m typically die upon release, a MLL is of limited use for conserving this species. Alternative approaches, such as restricting fishing activity in highly fished areas, reducing daily bag limits for recreational fishermen, introducing quotas or revising specific details of certain commercial hand-line licences (or doing both) are more likely to provide effective conservation measures.

Vertical and horizontal movements of southern bluefin tuna (Thunnus maccoyii) in the Great Australian Bight observed with ultrasonic telemetry

The vertical and horizontal movements of southern bluefin tuna (SBT), Thunnus maccoyii, in the Great Australian Bight were investigated by ultrasonic telemetry. Between 1992 and 1994, sixteen tuna were tracked for up to 49 h with depth or combined temperature-depth transmitting tags. The average swimming speeds (measured over the ground) over entire tracks ranged from 0.5 to 1.4 m/s or 0.5 to 1.4 body lengths/s. The highest sustained swimming speed recorded was 2.5 m/s for 18 hours. Horizontal movements were often associated with topographical features such as lumps, reefs, islands and the shelf break. They spent long periods of time at the surface during the day (nearly 30%), which would facilitate abundance estimation by aerial survey. At night, they tended to remain just below the surface, but many remained in the upper 10 m throughout the night. SBT were often observed at the thermocline interface or at the surface while travelling. A characteristic feature of many tracks was sudden dives before dawn and after sunset during twilight, followed by a gradual return to their original depth. It is suggested that this is a behavior evolved to locate the scattering layer and its associated prey when SBT are in waters of sufficient depth. SBT maintained a difference between stomach and ambient temperature of up to 9°C.

Development of lobster traps: preliminary experiments with three new designs of rectangular, Australian pot and ink-well traps

Result of experimental lobster fishing with three new designs, namely rectangular, Australian pot and ink-well traps at Muttam, Kadiapatnam, Colachal, Enayam and Vizhinjam, south-west coast of India during 1979-80 are reported. Preliminary studies show that Australian pot and rectangular traps as more efficient to the ink-well type.

Trophic shifts in three subtropical Australian halfbeaks (Teleostei : Hemiramphidae)

To elucidate the trophic status of hemiramphids, the diets of three species from subtropical south-east Queensland were investigated. All undergo a marked ontogenetic trophic shift from an animal to plant diet, which occurred between 50 and 70mm standard length (L-s) for Arrhamphus sclerolepis krefftii ( freshwater) and between 80 and 110mm L-s for both Hyporhamphus regularis ardelio and H. quoyi ( both marine). After the ontogenetic shift, the diet of A. sclerolepis krefftii is dominated by filamentous algae, whereas the diet of the two marine species is dominated by Zostera capricorni. The two marine species feed mainly during the day, with gut fullness dropping markedly after dusk. Neither showed evidence of a diel trophic shift between herbivory and carnivory that has been reported for other hemiramphids. The lack of diel trophic switching in these subtropical hemiramphids may suggest that latitudinal effects on daylength and/or water temperature may influence the extent to which hemiramphids switch periodically to animal prey from an otherwise essentially herbivorous diet in order to balance their nutrient requirements.

Stock structure of Spanish mackerel Scomberomorus commerson along the Australian east coast deduced from parasite data

The parasite fauna of Spanish mackerel Scomberomorus commerson from three regions off eastern Australia was examined for evidence of separate stocks. The abundance of five metacestodes was very similar in all areas suggesting that extensive mixing of the fish occurs along the coast, unlike the Situation across northern Australia where large differences have been found between regions. The similarity in abundances of two metacestodes from Townsville fish and south-east Queensland fish Suggests that these two regions have fish with very similar histories. The data lead to the conclusion that the seasonal fishery for Spanish mackerel off south-east Queensland is based on a random group of fish from the same origin as fish sampled off Townsville and is not a subpopulation that moves south each year. (c) 2006 The Fisheries Society of the British Isles.