Molecular genetics and the management and conservation of marine organisms

Biochemical and molecular species identification techniques have a broad range of applications in the management and conservation of marine organisms. While species boundaries are not always clearly defined, phylogeneticists utilise autapomorphic characters to distinguish phylogenetic species. Genetic markers discriminate between marine taxa when traditional morphological distinctions are unclear. The applications of these techniques can be divided into four general categories. Firstly, compliance enforcement, which often depends on genetic identification techniques to enable officials to identify the species to which regulations pertain. Secondly, quality control applications, to allow for the testing of marine products to guard against fraudulent substitution with less valuable species, which is particularly pertinent since processing often obliterates identifiable features. Thirdly, a variety of applications to ecological and life-history studies and conservation management are reported. Here, the genetic identification techniques of species from cryptic life-cycle stages or of morphologically indistinct species are an indispensable tool for marine scientists, conservators and managers. Lastly, the application of genetic techniques for sourcing population origin is briefly discussed. The biochemical and molecular techniques applied to species identification all exploit phenotypic or genotypic polymorphisms that are sampled using either tertiary level protein based methods or primary level DNA based methods. In this review, examples of the applications along with the total protein, allozyme, serological, PCR and other DNA based methodologies are briefly described and some generalities with regard to their use are presented.     

Roles of experimental marine ecology in coastal management and conservation

The paper reviews the main findings of rocky shore and subtidal nearshore experimental marine ecology (EME) in cold and temperate marine ecosystems during the past four decades. It analyzes the role of EME in coastal management and conservation. The historical development of strategies for managing single or multispecies fisheries are reviewed. The published results show over-exploitation and depletion of more than 60% of the fish stocks and a lack of connection between the management of fisheries and results derived from experimental marine ecology. This is mainly due to: (a) the different temporal and spatial scale at which most marine ecologists and fishery managers operate; (b) the lack of long-term fishery monitoring and adaptive techniques for management; and (c) limitations in the design of experiments on fisheries. Large-scale oceanic perturbations, due to combinations of excessive resource exploitation and environmental variability coupled with present trends in management approaches are discussed. Modern approaches and tools for management of fisheries, such as Adaptive Management (AM), Territorial User Rights in Fisheries (TURFs), Individual Transferrable Quotas and Non-Transferrable Quotas (ITQs, INTQs) are discussed in the context of small-scale fisheries and EME. Published views on limits of applied ecological research with regards to management of fisheries are discussed. Linkages between EME, marine conservation and the establishment of Marine Protected Areas (MPAs) and experimental exclusions of humans are highlighted. Results derived from MPAs, such as: (a) species or community trophic cascades, and (b) the role of key-stone species and species interaction strengths, are discussed. It is concluded that the role of EME in conservation has been greater than has been the case in management of fisheries. The potential to link EME, conservation and the management of fisheries is exemplified through the proposed establishment in Chile of a connected network of Scientific Reserves, MPAs and TURFs sites. The final conclusion is that to cross-fertilize EME, conservation and management, there are three main challenges: (1) to end the traditional view of approaching the management of fisheries and marine conservation as contradictory/antagonizing issues; (2) to improve communications between experimental marine ecology and the management of fisheries through the implementation of experimentation and adaptive management; (3) to improve linkages between marine conservation, the management of fisheries and social sciences.     

Quantifying the spatial ecology of wide-ranging marine species in the Gulf of California: implications for marine conservation planning

There is growing interest in systematic establishment of marine protected area (MPA) networks and representative conservation sites. This movement toward networks of no-take zones requires that reserves are deliberately and adequately spaced for connectivity. Here, we test the network functionality of an ecoregional assessment configuration of marine conservation areas by evaluating the habitat protection and connectivity offered to wide-ranging fauna in the Gulf of California (GOC, Mexico). We first use expert opinion to identify representative species of wide-ranging fauna of the GOC. These include leopard grouper, hammerhead sharks, California brown pelicans and green sea turtles. Analyzing habitat models with both structural and functional connectivity indexes, our results indicate that the configuration includes large proportions of biologically important habitat for the four species considered (25-40%), particularly, the best quality habitats (46-57%). Our results also show that connectivity levels offered by the conservation area design for these four species may be similar to connectivity levels offered by the entire Gulf of California, thus indicating that connectivity offered by the areas may resemble natural connectivity. The selected focal species comprise different life histories among marine or marine-related vertebrates and are associated with those habitats holding the most biodiversity values (i.e. coastal habitats); our results thus suggest that the proposed configuration may function as a network for connectivity and may adequately represent the marine megafauna in the GOC, including the potential connectivity among habitat patches. This work highlights the range of approaches that can be used to quantify habitat protection and connectivity for wide-ranging marine species in marine reserve networks.     

Phylogeography and spatial genetic structure of the Southern torrent salamander: implications for conservation and management

The Southern torrent salamander (Rhyacotriton variegatus) was recently found not warranted for listing under the US Endangered Species Act due to lack of information regarding population fragmentation and gene flow. Found in small-order streams associated with late-successional coniferous forests of the US Pacific Northwest, threats to their persistence include disturbance related to timber harvest activities. We conducted a study of genetic diversity throughout this species' range to 1) identify major phylogenetic lineages and phylogeographic barriers and 2) elucidate regional patterns of population genetic and spatial phylogeographic structure. Cytochrome b sequence variation was examined for 189 individuals from 72 localities. We identified 3 major lineages corresponding to nonoverlapping geographic regions: a northern California clade, a central Oregon clade, and a northern Oregon clade. The Yaquina River may be a phylogeographic barrier between the northern Oregon and central Oregon clades, whereas the Smith River in northern California appears to correspond to the discontinuity between the central Oregon and northern California clades. Spatial analyses of genetic variation within regions encompassing major clades indicated that the extent of genetic structure is comparable among regions. We discuss our results in the context of conservation efforts for Southern torrent salamanders.     

Integrating connectivity science and spatial conservation management of coral reefs in north-west Australia

The geographically isolated, environmentally unique and biologically diverse coral reefs of north-west Australia are under threat from climate change and other localised human impacts. Similar to many other regions around the world, effective mitigation of these threats through ecosystem-based marine spatial planning is currently constrained by a lack of knowledge of the extent and direction of dispersal of eggs, larvae, recruits, juveniles or adults among the coral reefs (termed population connectivity). Here, we present the outcomes of a series of consultations between Marine Protected Area planners, managers and scientists aimed at facilitating the integration of this connectivity knowledge into effective management guidelines and policy in north-west Australia. Through this process, we first synthesised current knowledge of population connectivity in the fields of oceanography, larval biology and population genetics, and then identified and answered to the best of our ability the most useful questions for the spatial planning of Marine Protected Area networks. Key findings indicate that these systems are likely ecologically independent for many coral reef organisms, with hard corals exhibiting the most localised dispersal of species studied so far. Thus, given that hard corals are also the habitat forming species, and that more widely dispersing species such as fish are likely less vulnerable to small scale disturbance, we propose that no-take areas that facilitate resilience of hard coral populations should maximise biodiversity more generally. This means no-take areas that are large enough to encompass routine dispersal distances of corals (10–20 km), and are spaced at similar distances, will not only maintain self-replenishment, but also aid recovery after disturbance through connectivity between no-take areas. The results can be applied in a regional and wider context, and provide a valuable template for transfer of scientific knowledge into effective policy.     

Regional management units for marine turtles: a novel framework for prioritizing conservation and research across multiple scales

Background

Resolving threats to widely distributed marine megafauna requires definition of the geographic distributions of both the threats as well as the population unit(s) of interest. In turn, because individual threats can operate on varying spatial scales, their impacts can affect different segments of a population of the same species. Therefore, integration of multiple tools and techniques — including site-based monitoring, genetic analyses, mark-recapture studies and telemetry — can facilitate robust definitions of population segments at multiple biological and spatial scales to address different management and research challenges.

Methodology/Principal Findings

To address these issues for marine turtles, we collated all available studies on marine turtle biogeography, including nesting sites, population abundances and trends, population genetics, and satellite telemetry. We georeferenced this information to generate separate layers for nesting sites, genetic stocks, and core distributions of population segments of all marine turtle species. We then spatially integrated this information from fine- to coarse-spatial scales to develop nested envelope models, or Regional Management Units (RMUs), for marine turtles globally.

Conclusions/Significance

The RMU framework is a solution to the challenge of how to organize marine turtles into units of protection above the level of nesting populations, but below the level of species, within regional entities that might be on independent evolutionary trajectories. Among many potential applications, RMUs provide a framework for identifying data gaps, assessing high diversity areas for multiple species and genetic stocks, and evaluating conservation status of marine turtles. Furthermore, RMUs allow for identification of geographic barriers to gene flow, and can provide valuable guidance to marine spatial planning initiatives that integrate spatial distributions of protected species and human activities. In addition, the RMU framework — including maps and supporting metadata — will be an iterative, user-driven tool made publicly available in an online application for comments, improvements, download and analysis.     

Rare British marine fishes-identification and conservation

Methods of recording and categorizing rare British marine fishes and their habitats are described. Information is stored on a database designed for maximum flexibility, cross-referencing, multiple word search and key word search facilities. Examples are given and discussed in relation to species and habitat protection.     

海洋生物多样性保护优先区域的确定

为了有效利用资源和资金,合理保护海洋生物多样性,海洋生物多样性保护优先区域的确定成为目前保护生物学领域的热点之一.本文首先探讨了生物多样性保护优先区域的定义和内涵,认为海洋生物多样性保护优先区域是指生物多样性丰富、物种特有化程度高、珍稀濒危物种分布集中、具有重要生态功能和过程的海洋区域.其次对保护优先区域确定的内容和方法进行了总结,主要包括单元区划、指标体系的构建及保护优先区域评估3个方面.继而根据我国海洋生物多样性现状提出保护优先区域确定的基本思路,即在海洋生物地理分区的基础上,根据物种和生境的生物多样性指标确定保护优先区域.最后针对存在问题提出建议,包括运用生物地理学方法进行单元区划、基于物种和生态系统的方法构建生物学指标以及信息网络数据库的构建等.     

Generating new marine cell lines and transgenic species--conference summary

Marine species offer a tremendous diversity of life histories, physiologies, genetics, behaviors, and biologies, reflecting myriad adaptations to the water environment. Historically, marine vertebrates, particularly fish, have played significant roles in a wide range of disciplines, including environmental toxicology, genetics, developmental biology, and physiology, among others. Much still remains to be learned from these animals, and there is a growing need for new marine models. Models for expression of marine animal genes have been limited to heterologous expression systems. While there is still a great deal to gain from heterologous expression systems, the interactions of genes with one another can best be determined in homologous expression systems where appropriate interactions are possible. This has become particularly important with the development of functional genomics in marine models. These homologous gene expression systems will be key to the use of functional genomics for marine animal molecular physiology and toxicology.     

Regression models for spatial prediction: their role for biodiversity and conservation

This paper is an introduction to a Special Issue on regression models for spatial predictions published in Biodiversity and Conservation following an international workshop held in Switzerland in 2001 (http://leba.unige.ch/workshop). This introduction describes how the exponential growth in computing power has improved our ability to reach spatially explicit assessment of biodiversity and to develop cost-effective conservation management. New questions arising from these modern approaches are listed, while papers presenting examples of applications are briefly introduced.     

Coastal–marine discontinuities, critical patch size and isolation: implications for marine otter conservation

The consequences of habitat fragmentation include reduced habitat availability, increased isolation and patch extinction. This study investigates the occupancy patterns of Lontra felina , a little known and endangered marine otter, on naturally discontinuous habitat and the relationship between otter occupancy and rocky seashore patches, patch size and isolation and human influences. Marine otter occupancy was determined through direct sightings and the presence/absence of spraints, and measured by logistic regression and general linear models. The study was conducted in Chile between 28°S and 40°S, and consisted of eight study sites. Within these sites, a total of 23 rocky seashore patches, 2.3–63.8 km long, were surveyed from January 2005 to March 2006. The strongest predictors of marine otter occurrence were rocky seashore patches larger than 5 km long and <6 km apart. These networks should be no farther than 20 km from contiguous (without sandy beaches) rocky seashore patches over 15 km long.     

Molluscs in the marine curio and souvenir trade in NE Brazil: species composition and implications for their conservation and management

Marine molluscs are sold all over the world as curios and souvenirs. This market encompasses about 5,000 species of molluscs (bivalves and gastropods) worldwide, but the mollusc species involved in this trade are undocumented in all but a very small number of countries. The present study provides a baseline assessment of the mollusc species used in the manufacture of crafts, marine curiosities and souvenirs in northeastern Brazil. A total of 126 species (41 bivalves and 85 gastropods) were found to be sold individually as decorative pieces or incorporated into utilitarian objects. Overall, the families most represented were Veneridae bivalves (9 species) and the gastropods Conidae and Strombidae (8 species each). Large gastropod shells were observed in all of the localities surveyed (mainly as part of table lamps). The main species used were the King helmet Cassis tuberosa, the Hebrew volute Voluta ebraea, and the Goliath conch Eustrombus goliath. The majority of the species involved are harvested from the Atlantic Ocean (68%), but many are imported from Indo-Pacific countries, such as cowries Monetaria moneta. Among the species harvested in the Atlantic Ocean, 11.2% are endemic to Brazil as, for example, the Brazilian chank (Turbinella laevigata). The majority of the species sold in northeastern Brazil tend to inhabit shallow habitats, which facilitates their capture. As there are no official statistics available concerning the marine curio and souvenir trade in Brazil, some species may be endangered. Harvesting regulations should include minimum capture sizes, capture quotas, specific periods for harvesting, and the use of non-destructive techniques.     

Insect conservation and pest management

The issue of insect conservation in pest management has many conflicting aspects. For instance, it is desirable to conserve a pest residue in order to maintain natural enemy population and it is imperative to conserve natural enemies. However, conservation of pest species is not relevant if the pest species is an exotic invader and a candidate for eradication, mainly because eradication, if successful, achieves only regional extinction. Conservation of native pests depends, to a large extent, on whether the species is a direct pest of a high value crop or an indirect pest with an acceptable economic injury level. In this paper, integrated pest management is defined in terms of sustainable agriculture and the conservation of biodiversity, and give five premises that stress the level of disturbance of agricultural communities and the dynamics of pest status for arthropod species in the community. The possible impacts of the main integrated pest management tactics on arthropod conservation are tabulated and the results reached stress that diversification of agricultural systems through maximum use of native plants should benefit both integrated pest management and regional arthropod conservation.     

Bryozoan biodiversity in the New Zealand region and implications for marine conservation

Marine biodiversity and its distribution in the New Zealand region were determined using historical data for an appropriate indicator taxon, the Bryozoa. Bryozoans were identified as belonging to three communities, termed Intertidal/Shelf/Slope (ISS) and Deep-Sea 1 and 2 (DS1 and DS2). Biodiversity was assessed using measures based on relatedness of species, average taxonomic distinctness and variation in taxonomic distinctness. High values of biodiversity for the ISS community are particularly concentrated at both ends of two main islands of New Zealand; the biogenic substratum of the Three Kings Plateau and Foveaux Strait. High values of biodiversity for the DS1 community were primarily located on the seamounts of the northern edge of the Chatham Rise. Values of biodiversity for stations comprising the DS2 community were generally low. The relationship between bryozoan community composition/biodiversity and depth suggested that habitat availability/heterogeneity, sedimentary perturbation and primary productivity could be evoked to explain the pattern of biodiversity observed. The results of the study indicate particular areas of the shelf and deep-sea environment that could be protected in order to conserve New Zealand's marine biodiversity.