Genetically isolated stocks of orange roughy (Hoplostethus atlanticus), but not of hoki (Macruronus novaezelandiae), in the Tasman Sea and Southwest Pacific Ocean around New Zealand

Restriction fragment-length polymorphisms of mitochondrial (mt) DNA, generated by six-base restriction enzymes, were used to examine the stock structure of the two major commercial species in New Zealand fisheries, orange roughy (Hoplostethus atlanticus Collett) and hoki (Macruronus novaezelandiae Hector). Samples of orange roughy from six spawning sites around New Zealand and one site off Tasmania show significant genetic heterogeneity. Samples from two sites around the south of New Zealand were genetically similar to each other, but dissimilar to samples from all other sites. The common haplotype observed in northern sites was absent from the two southern sites. Low numbers of unique haplotypes were restricted to the Challenger Plateau in the Tasman Sea. There was no significant genetic heterogeneity in five samples of hoki from two spawning sites off New Zealand and one site off Tasmania.     

Population variation in the mitochondrial cytochrome b gene of the orange roughy Hoplostethus atlanticus and the hoki Macruronus novaezelandiae

To describe the genetic relationship among regional populations of two commercially valuable species of marine fish, the orange roughy Hoplostethus atlanticus and the hoki Macruronus novaezelandiae, the mitochondrial (mt) DNA haplotypes of 59 individuals were defined by direct sequencing of the cytochrome b gene. Samples of orange roughy were collected on four fishing grounds around New Zealand, one off the west coast of Tasmania and one near South Africa from 1990–1991. Samples from hoki were collected on three fishing grounds around New Zealand and one off Tasmania during the same period. An average of 252 nucleotides were sequenced from each of 32 orange roughy and an average of 372 nucleotides from each of 27 hoki. Sequence variation allowed the definition of 9 unique orange roughy haplotypes and 5 hoki haplotypes. Genetic variation, as measured by both average sequence divergence and haplotype diversity, was high in the orange roughy (nucleotide diversity=0.590%, haplotype diversity=0.782) and low in the hoki (nucleotide diversity=0.076%, haplotype diversity=0.279) relative to a similar survey of the Atlantic cod, Gadus morhua. Differences in haplotype frequencies of orange roughy from New Zealand, Tasmania and South Africa were not significant, and the most common haplotype was found in similar frequencies in these three geographically distant regions. Differences in haplotype frequencies between the New Zealand and Tasmanian samples of hoki were significant, suggesting restricted gene flow between these two regions. The contrasting patterns of low but regionally subdivided genetic variation in the hoki versus high but geographically undifferentiated genetic variation in the orange roughy may be attributed to the low fecundity, slow maturation and long lifespan of the orange roughy relative to the hoki.     

Fine-scale genetic structure in short-beaked common dolphins (<Emphasis Type="Italic">Delphinus</Emphasis><Emphasis Type="Italic">delphis</Emphasis>) along the East Australian Current

Oceanographic processes play a significant role in shaping the genetic structure of marine populations, but it is less clear whether they affect genetic differentiation of highly mobile vertebrates. We used microsatellite markers and mtDNA control region sequences to investigate the spatial genetic structure of short-beaked common dolphins (Delphinus delphis) in southeastern Australia, a region characterised by complex oceanographic conditions associated with the East Australian Current (EAC). A total of 115 biopsy samples of dolphins were collected from six localities spanning approximately 1,000 km of the New South Wales (NSW) coastline. We found evidence for contrasting genetic diversity and fine-scale genetic structure, characterised by three genetically differentiated populations with varying levels of admixture. Spatial genetic structure was not explained by a model of isolation by distance, instead it coincides with main patterns of oceanographic variation along the EAC. We propose that common dolphins along the EAC may be adapted to three water masses recently characterised in this region.     

Between-area differences in age and length at first maturity of the orange roughy Hoplostethus atlanticus

Mean age and length at onset of maturity were estimated for orange roughy (Hoplostethus atlanticus) populations off New Zealand, Namibia, and Great Britain. Significant between-area differences were apparent in both these parameters. Implications of the between-area differences on stock structure of orange roughy in New Zealand waters are discussed. A proportional relationship between age at onset of maturity and modal size of fish in the mature population is demonstrated. This is consistent with later-maturing fish experiencing a longer period at a pre-maturity growth rate that is relatively faster than the rate of somatic growth after maturity. Received: 22 December 1997 / Accepted: 5 May 1998     

Age determination of orange roughy,Hoplostethus atlanticus (Pisces: Trachichthyidae) using210Pb:226Ra disequilibria

Natural levels of²¹⁰Pb:²²⁶Ra in otoliths of orange roughy,Hoplostethus atlanticus, from south-east Australian waters, were measured to determine fish ages radiometrically. Up to maturity, radiometric age estimates were consistent with a single constant otolith growth rate. Radiometric ages for juveniles were comparable with, but greater than, those obtained in a recent, validated New Zealand study which employed counts of annuli on the surface of otoliths. Beyond maturity, radiometric ages were obtained by modelling with an otolith growth rate set at 45% of the juvenile rate. Radiometric ageing confirms that orange roughy is very slow-growing, with an age at maturity (32 cm standard length, SL) of ~ 32 yr, and is very long-lived, with fish 38 to 40 cm being 77 to 149 yr old. These results have important implications for the management of the fishery.     

Allozyme and mitochondrial DNA variation in orange roughy,Hoplostethus atlanticus (Teleostei: Trachichthyidae): little differentiation between Australian and North Atlantic populations

Allozyme and mitochondrial DNA (mtDNA) genetic variation was compared in orange roughy (Hoplostethus atlanticus Collett) collected from waters off southern Australia and from waters about 22 000 km away in the North Atlantic west of Scotland. Samples were screened for 11 polymorphic allozyme loci and with 9 restriction enzymes. Significant heterogeneity between the two areas was detected for three allozyme loci (ADA ^*, CK ^* and GPI-1 ^*), and the overall G _ST (gene-diversity statistic) value of 1% was small but significant. Significant mtDNA haplotype heterogeneity was observed after ²- of haplotype frequencies but not after a G _ST analysis. Nucleotide sequence-diversity analysis showed very low net divergence (0.0023%) between the two samples. The Australian orange roughy had a lower allozyme heterozygosity and a lower mitochondrial DNA nucleon diversity than the North Atlantic sample. The very limited, although significant, allozyme and mitochondrial DNA heterogeneity between these areas suggests that there is some gene flow between these two populations. The species appears to be widespread, with its presence reported from the southern Pacific, southern Indian, and northern and southern Atlantic Oceans, and it is likely that gene flow between the antipodes is mediated by stepping-stone exchange between adjacent populations rather than by direct migration.     

Limited nucleotide divergence over large spatial scales in the asterinid sea star<Emphasis Type="Italic"> Patiriella exigua</Emphasis>

DNA sequence data were collected from two segments of the mitochondrial genome for four populations of the sea star Patiriella exigua, a potentially hermaphroditic species with occasional self-fertilisation, and with a benthic, apparently non-dispersive larval stage. The populations, covering nearly all the range of this species in Australia, included samples from the Yorke Peninsula (South Australia), Tasmania (Woodbridge) and two from the Sydney region, New South Wales (Gordons Bay, Edwards Beach). Six haplotypes were observed in the Yorke Peninsula sample, three in Woodbridge, nine in Edwards Beach and nine in Gordons Bay. The evolutionary relationships between the samples included in this study are close, with average Tamura-Nei nucleotide distances between populations being at most 0.006. Migration between the NSW, Tasmanian and South Australian regions is, however, extremely rare. All haplotypes are restricted to single samples except for four found in both Edwards Beach and Gordons Bay. Monophyly of the haplotypes in Yorke Peninsula and Woodbridge suggests that much of their evolution has occurred locally or regionally and that migration has been low for long periods. This pattern strongly contrasts with the absence of lineage assortment in Echinodermata with extensive planktonic larval stages.Communicated by M.S. Johnson, Crawley     

Microsatellite DNA markers and morphometrics reveal a complex population structure in a merobenthic octopus species (<Emphasis Type="Italic">Octopus maorum</Emphasis>) in south-east Australia and New Zealand

Five polymorphic microsatellite loci were developed and then used to assess the population genetic structure of a commercially harvested merobenthic octopus species (Octopus maorum) in south-east Australian and New Zealand (NZ) waters. Beak and stylet morphometrics were also used to assess population differentiation in conjunction with the genetic data. Genetic variation across all loci and all sampled populations was very high (mean number alleles = 15, mean expected heterozygosity = 0.85). Microsatellites revealed significant genetic structuring (overall F _ST = 0.024, p < 0.001), which did not fit an isolation-by-distance model of population differentiation. Divergence was observed between Australian and NZ populations, between South Australia and north-east Tasmania, and between two relatively proximate Tasmanian sites. South Australian and southern Tasmanian populations were genetically homogeneous, indicating a level of connectivity on a scale of 1,500 km. Morphometric data also indicated significant differences between Australian and NZ populations. The patterns of population structuring identified can be explained largely in relation to regional oceanographic features.     

Genetic relationships of pilchards (genus: Sardinops) with anti-tropical distributions

The pilchards (genus Sardinops), one of the major components of the world's harvest of fishes, is distributed sporadically in the temperate zone on a global scale. Mitochondrial DNA variation in 95 pilchards from nine worldwide localities in five current systems was examined using ten restriction enzymes. Although several opinions have been proposed on the global population structure of the genus Sardinops, our results clearly rejected the hypothesis of gene flow among geographically distant populations on a global scale. Results indicate that the Japanese pilchards and the Australian and South African pilchards were derived from the eastern Pacific populations, following the speciation of Sardinops in the Pacific, after the formation of the Isthmus of Panama. An intermixing of the northeastern and southeastern Pacific populations during the Pleistocene glacial maxima is suggested from their genetic affinities.     

Spatio-temporal Analysis of Acute Admissions for Ischemic Heart Disease in NSW,Australia

The recently funded Spatial Environmental Epidemiology in New South Wales (SEE NSW) project aims to use routinely collected data in NSW Australia to investigate risk factors for various chronic diseases. In this paper, we present a case study focused on the relationship between social disadvantage and ischemic heart disease to highlight some of the methodological challenges that are likely to arise.     

Soil landscape constraint mapping for coastal land use planning using geographic information system

The aim of the study was to delineate soil landscape constraints to various land uses for urban and regional planning in the coastal areas of New South Wales (NSW), Australia. Soil landscape units mapped at 1:100,000 or coarser were sub-divided into component facets using advanced terrain modelling techniques in a geographic information system (GIS). The output facet grids were further overlain and linked with relevant GIS layers and soil databases to derive soil landscape constraint ratings for various land use purposes such as residential development, cropping and grazing. The constraint ratings for a specific land use were calculated based on objective and rule-based assessments of soil and landscape features such as engineering hazards, intrinsic fertility, drainage and other parameters. A series of soil landscape constraint maps which portray specific land use capability have been produced for the NSW coast. The methodology developed in this study has been demonstrated to be efficient in delineating soil landscape constraints and there is over 90% agreement between the model outputs and the assessment by soil surveyors with local knowledge. The output maps show levels of unprecedented detail of soil and landscape constraint for the coast of NSW and can be readily interpreted by land use planners and land managers for sustainable land use decision making practices.     

Low to moderate levels of genetic differentiation detected across the distribution of the New Zealand abalone, Haliotis iris

Two regions of the mitochondrial genome (cytochrome oxidase I and ATPase 8–ATPase 6) were used to examine the population genetic structure of New Zealand’s endemic abalone (Haliotis iris). Samples were collected from 28 locations around New Zealand between January 2005 and February 2008. At least four phylogeographic breaks were present and occurred across the Chatham rise, in the western Cook Strait region, along the southeast coast of the South Island, and at East Cape in the North Island. Gene flow across the Chatham rise is probably limited due to infrequent dispersal across large geographic distances (~850 km), while factors limiting gene flow around the North and South Islands are less clear, and understanding these may require intense temporal and spatial sampling in complex hydrographic regions. High genetic diversity and weak genetic structure may be a general feature of abalone potentially reflecting large and/or ancient populations.     

Oceanic variability and coastal topography shape genetic structure in a long-dispersing sea urchin

Understanding the scale of marine population connectivity is critical for the conservation and sustainable management of marine resources. For many marine species adults are benthic and relatively immobile, so patterns of larval dispersal and recruitment provide the key to understanding marine population connectivity. Contrary to previous expectations, recent studies have often detected unexpectedly low dispersal and fine-scale population structure in the sea, leading to a paradigm shift in how marine systems are viewed. Nonetheless, the link between fine-scale marine population structure and the underlying physical and biological processes has not been made. Here we show that patterns of genetic structure and population connectivity in the broadcast-spawning and long-distance dispersing sea urchin Centrostephanus rodgersii are influenced by physical oceanographic and geographic variables. Despite weak genetic differentiation and no isolation-by-distance over thousands of kilometers among samples from eastern Australia and northern New Zealand, fine-scale genetic structure was associated with sea surface temperature (SST) variability and geography along the southeastern Australian coast. The zone of high SST variability is characterized by periodic shedding of eddies from the East Australian Current, and we suggest that ocean current circulation may, through its influence on larval transport and recruitment, interact with the genetic consequences of large variance in individual reproductive success to generate patterns of fine-scale patchy genetic structure. If proven consistent across species, our findings suggest that the optimal scale for fisheries management and reserve design should vary among localities in relation to regional oceanographic variability and coastal geography.     

Cover Caption

Cover : The Takahe (Porphyrio hochstetteri), once widespread throughout New Zealand, was thought to be extinct by the end of the 1800s. In 1948 a remnant population was rediscovered in a remote region of the country's South Island. As of 2007, 72 birds descended from 18 founders were distributed across 4 islands off the coast of New Zealand. Grueber et al. (pages 1617‐1625) evaluated the effect of inbreeding depression across all life‐history stages of the Takahe. Although levels at each stage were low, accumulated inbreeding depression ultimately reduced long‐term fitness. These results suggest that even species with high historical levels of inbreeding can lose fitness as a result of recent inbreeding.     

Complex genetic patterns and a phylogeographic disjunction among New Zealand mud snails Zeacumantus subcarinatus and Z. lutulentus

The comparative analysis of genetic structure and phylogeography of marine species can reveal the relative importance of common biogeographic barriers and species-specific evolutionary histories. In the present study, mitochondrial COI sequences from a total of 724 individuals collected from 38 localities throughout New Zealand during 2006 and 2007 were used to examine the genetic structure and demographic histories of the intertidal gastropods Zeacumantus subcarinatus and Zeacumantus lutulentus. For both species, results revealed isolation of populations located along the northern South Island and southern and western North Island, and extensive genetic structure throughout the remainder of their ranges. Despite this, long-distance dispersal and secondary admixture of divergent haplotypes was evident, especially for the widespread Z. subcarinatus. These findings reveal the importance of common barriers to gene flow and highlight how the interaction of inherent dispersal limitations of direct-developing marine organisms and periodic long-distance movements can produce complex genetic patterns.     

Mitochondrial DNA differentiation and population structure in red drum (Sciaenops ocellatus) from the Gulf of Mexico and Atlantic Ocean

Variation in mitochondrial (mt)DNA was examined among 473 red drum (Sciaenops ocellatus) sampled in 1988 and 1989 from nearshore localities in the northern Gulf of Mexico (Gulf) and the Atlantic coast of the southeastern United States (Atlantic). Data were combined with those from a previous study to generate a total of 871 individuals sampled from 11 localities in the Gulf and 5 localities in the Atlantic. Individuals assayed were from the 1986 and 1987 year-classes. A total of 118 composite mtDNA genotypes (haplotypes) was found. The percentage nucleotide sequence divergence among the 118 haplotypes ranged from 0.184 to 1.913, with a mean (±SE) of 0.878±0.004. MtDNA nucleon diversities and intrapopulational nucleotide-sequence divergence values were similar over all Gulf and Atlantic localities, and were high relative to most fish species surveyed to date. These data indicate that the perceived decline in red drum abundance appears not to have affected the genetic variability base of the species. Significant heterogeneity in the frequencies of at least four haplotypes was detected between pooled samples from the Gulf vs pooled samples from the Atlantic. No heterogeneity was found among localities from the Gulf or localities from the Atlantic. High levels of gene flow among all localities were inferred from F _ST values (a measure of the variance in mtDNA haplotype frequencies) and from Slatkin's qualitative and quantitative analyses. Parsimony and phenetic analyses revealed no strong evidence for phylogeographic cohesion of localities, although there was weak support for cohesion of four of five localities from the Atlantic. These data indicate that the red drum population is subdivided, with weakly differentiated subpopulations (stocks) occurring in the northern Gulf and along the Atlantic coast of southeastern USA. Spatial autocor-relation analysis and heterogeneity tests of haplotype frequencies among regions within the Gulf supported the hypothesis of increased gene flow among neighboring localities; i.e., migration of individuals within the Gulf may be inversely related to geographic distance from an estuary or bay of natal origin. Estimates of evolutionary effective female-population size indicate that the red drum subpopulations may be large.     

Influence of habitat on abundance and size structure of a large temperate-reef fish, Achoerodus viridis (Pisces: Labridae)

The relationship between densities of Achoerodus viridis (Pisces: Labridae) and reef habitats at various localities within New South Wales (NSW), Australia was examined. Types of habitats were quantified at inner, mid and outer estuarine locations in each of two estuaries (Botany Bay and Port Jackson) to determine whether purported patterns of movement from estuaries could be related to differences in habitat. Although the same types of habitat were generally found at all locations, differences in the proportion of habitat types were found between shallow and deep reefs and among inner, mid and outer estuarine locations for both estuaries. Shallow habitats were usually dominated by Ecklonia radiata, turf and/or fringe habitat in Botany Bay, whereas deep sites were generally dominated by urchin-grazed barrens habitat and, sometimes, sponge- and ascidian-dominated deep reef. Shallow sites in Port Jackson were dominated by a mixture of habitats, as were deep reefs at mid-estuarine locations. Other deep reefs in Port Jackson were dominated by E. radiata (inner estuarine) or barrens (outer estuarine) habitat. Thus, patterns of habitat cover were not consistent between estuaries and numbers of fish could not be related to proportional representation of habitat on reefs along estuarine gradients. Univariate and multivariate analyses showed that there was little evidence that any size class of fish was correlated with the proportional representation of a particular habitat or group of habitats. Counts of fish that focused on barrens and E. radiata forest habitats over a period of 10 yr showed that similar numbers and all sizes of fish were found in the two types of habitat. Greater numbers of small fish were, however, found in the E. radiata forest habitat than in the barrens habitat. Estimates of abundance along the coast of NSW (100s to 1000 km) in a range of habitats (e.g. ascidian-dominated reef, kelp forest, urchin-grazed barrens) showed that there was no indication that a particular habitat consistently had greater numbers of A. viridis than other habitats. Therefore, A. viridis of a range of sizes appears to be flexible in its use of habitats on reefs. Received: 24 December 1997 / Accepted: 23 June 1998     

Molecular population structure of the kuruma shrimp <Emphasis Type="Italic">Penaeus</Emphasis><Emphasis Type="Italic"> japonicus</Emphasis> species complex in western Pacific

In a previous study on the kuruma shrimp Penaeus japonicus from the South China Sea, we detected high genetic divergence between two morphologically similar varieties (I and II) with distinct color banding patterns on the carapace, indicating the occurrence of cryptic species. In the present study, we clarify the geographical distribution of the two varieties in the western Pacific by investigating the genetic differentiation of the shrimp from ten localities. Two Mediterranean populations are also included for comparison. Based on the mitochondrial DNA sequence data, the shrimps are separated into two distinct clades representing the two varieties. Variety I comprises populations from Japan and China (including Taiwan), while variety II consists of populations from Southeast Asia (Vietnam, Singapore and the Philippines), Australia and the Mediterranean. Population differentiation is evident in variety II, as supported by restriction profiles of two mitochondrial markers and analysis of two microsatellite loci. The Australian population is genetically diverged from the others, whereas the Southeast Asian and Mediterranean populations show a close genetic relationship. Variety I does not occur in these three localities, while a small proportion of variety II is found along the northern coast of the South China Sea and Taiwan, which constitute the sympatric zone of the two varieties. The present study reveals high genetic diversity of P. japonicus. Further studies on the genetic structure of this species complex, particularly the populations in the Indian Ocean and Mediterranean, are needed not only to understand the evolutionary history of the shrimp, but also to improve the knowledge-based fishery management and aquaculture development programs of this important biological resource.     

Morphometric and meristic comparison of orange roughy (Hoplostethus atlanticus: Trachichthyidae) from the Puysegur Bank and Lord Howe Rise,New Zealand,and its implications for stock structure

Significant morphological differences were found between orange roughy, Hoplostethus atlanticus, caught in 1993 on the Puysegur Bank and those caught on the Lord Howe Rise, New Zealand. A total of 17 separate body measurements and counts were taken from each fish. Treating the sexes separately, significant differences were found between sites when linear relations between eight particular body measures and standard length were compared. The eight measures indicating differences in shape were head length, snout length, orbit diameter, maxilla width, premaxilla length, caudal peduncle, gill raker count, and anal fin count. Discriminant functions were used to compare sites and sexes, and these permitted a >90% success rate in distinguishing fish from the two sites. A discriminant function could not be found which successfully separated two separate tows made on the Puysegur Bank, indicating that phenotypic differences do not vary as much within a site as they do between sites. All analyses made suggested that fish from the two different areas had different body shapes. Morphological differences, such as those found in the current investigation, could only arise if the fish populations from the two areas were relatively discrete. There may be some movement of fish between areas, quite possibly enough to bring about relative genetic homogeneity, but clearly there is insufficient to prevent the two populations from differing phenotypically. These differences suggest that morphometric analysis may be a useful tool for distinguishing New Zealand orange roughy stocks.     

Examining the potential impacts of sea level rise on coastal wetlands in north-eastern NSW,Australia

The coastal wetlands of north-eastern New South Wales (NSW) Australia are increasingly being affected by anthropogenic factors such as urbanisation, residential development and agricultural development. However, little is known about their vulnerability to sea level rise as a result of climate change. The aim of this research is to predict the potential impact of sea level rise (SLR) on the coastal wetland communities. Sea Level Affecting Marshes Model (SLAMM) was used to predict the potential impacts of sea level rise. Geographic Information System (GIS) was used for mapping and analysis. It was found that a meter rise in sea level could decrease coastal wetlands such as Inland fresh marshes from about 225.67 km² in February 2009 to about 168.04 km² by the end of the century in north-eastern NSW, Australia. The outcomes from this research can contribute to enhancing wetland conservation and management in NSW.