A guide to monitoring reef fish in the National Park Service's South Florida/Caribbean Network

Reef fishes are conspicuous and essential components of coral reef ecosystems and economies of southern Florida and the United States Virgin Islands (USVI). Throughout Florida and the USVI, reef fish are under threat from a variety of anthropogenic and natural stressors including overfishing, habitat loss, and environmental changes. The South Florida/Caribbean Network (SFCN), a unit of the National Park Service (NPS), is charged with monitoring reef fishes, among other natural and cultural resources, within six parks in the South Florida - Caribbean region (Biscayne National Park, BISC; Buck Island Reef National Monument, BUIS; Dry Tortugas National Park, DRTO; Everglades National Park, EVER; Salt River Bay National Historic Park and Ecological Preserve, SARI; Virgin Islands National Park, VIIS). Monitoring data is intended for park managers who are and will continue to be asked to make decisions to balance environmental protection, fishery sustainability and park use by visitors. The range and complexity of the issues outlined above, and the need for NPS to invest in a strategy of monitoring, modeling, and management to ensure the sustainability of its precious assets, will require strategic investment in long-term, high-precision, multispecies reef fish data that increases inherent system knowledge and reduces uncertainty. The goal of this guide is to provide the framework for park managers and researchers to create or enhance a reef fish monitoring program within areas monitored by the SFCN. The framework is expected to be applicable to other areas as well, including the Florida Keys National Marine Sanctuary and Virgin Islands Coral Reef National Monument. The favored approach is characterized by an iterative process of data collection, dataset integration, sampling design analysis, and population and community assessment that evaluates resource risks associated with management policies. Using this model, a monitoring program can adapt its survey methods to increase accuracy and precision of survey estimates as new information becomes available, and adapt to the evolving needs and broadening responsibilities of park management.

Integrated conceptual ecosystem model development for the Florida Keys/Dry Tortugas coastal marine ecosystem: MARine Estuarine goal Setting (MARES) for South Florida

The overall goal of the MARine and Estuarine goal Setting (MARES) project for South Florida is “to reach a science-based consensus about the defining characteristics and fundamental regulating processes of a South Florida coastal marine ecosystem that is both sustainable and capable of providing the diverse ecosystem services upon which our society depends.” Through participation in a systematic process of reaching such a consensus, science can contribute more directly and effectively to the critical decisions being made by both policy makers and by natural resource and environmental management agencies. The document that follows briefly describes the MARES project and this systematic process. It then describes in considerable detail the resulting output from the first two steps in the process, the development of conceptual diagrams and an Integrated Conceptual Ecosystem Model (ICEM) for the first subregion to be addressed by MARES, the Florida Keys/Dry Tortugas (FK/DT). What follows with regard to the FK/DT is the input received from more than 60 scientists, agency resource managers, and representatives of environmental organizations beginning with a workshop held December 9-10, 2009 at Florida International University in Miami, Florida.

Assessment of natural resource conditions in and adjacent to Dry Tortugas National Park

This project characterized and assessed the condition of coastal water resources in the Dry Tortugas National Park (DRTO) located in the Florida Keys. The goal of the assessment was to: (1) identify the state of knowledge of natural resources that exist within the DRTO, (2) summarize the state of knowledge about natural and anthropogenic stressors and threats that affected these resources, and (3) describe strategies being implemented by DRTO managers to meet their resource management goals. The park, located in the Straits of Florida 113 km (70 miles) west of Key West, is relatively small (269 square kilometers) with seven small islands and extensive shallow water coral reefs. Significant natural resources within DRTO include coastal and oceanic waters, coral reefs, reef fisheries, seagrass beds, and sea turtle and bird nesting habitats. This report focuses on marine natural resources identified by DRTO resource managers and researchers as being vitally important to the Tortugas region and the wider South Florida ecosystem. Selected marine resources included physical resources (geology, oceanography, and water quality) and biological resources (coral reef and hardbottom benthic assemblages, seagrass and algal communities, reef fishes and macro invertebrates, and wildlife [sea turtles and sea-birds]). In the past few decades, some of these resources have deteriorated because of natural and anthropogenic factors that are local and global in scale. To meet mandated goals (Chapter 1), resource managers need information on: (1) the types and condition of natural and cultural resources that occur within the park and (2) the stressors and threats that can affect those resources. This report synthesizes and summarizes information on: (1) the status of marine natural resources occurring at DRTO; and (2) types of stressors and threats currently affecting those resources at the DRTO. Based on published information, the assessment suggests that marine resources at DRTO and its surrounding region are affected by several stressors, many of which act synergistically. Of the nine resource components assessed, one resource category – water quality – received an ecological condition ranking of "Good"; two components – the nonliving portion of coral reef and hardbottom and reef fishes – received a rating of "Caution"; and two components – the biotic components of coral reef and hardbottom substrates and sea turtles – received a rating of "Significant concern" (Table E-1). Seagrass and algal communities and seabirds were unrated for ecological condition because the available information was inadequate. The stressor category of tropical storms was the dominant and most prevalent stressor in the Tortugas region; it affected all of the resource components assessed in this report. Commercial and recreational fishing were also dominant stressors and affected 78% of the resource components assessed. The most stressed resource was the biotic component of coral reef and hardbottom resources, which was affected by 76% of the stressors. Water quality was the least affected; it was negatively affected by 12% of stressors. The systematic assessment of marine natural resources and stressors in the Tortugas region pointed to several gaps in the information. For example, of the nine marine resource components reviewed in this report, the living component of coral reefs and hardbottom resources had the best rated information with 25% of stressor categories rated "Good" for information richness. In contrast, the there was a paucity of information for seagrass and algal communities and sea birds resource components.

Statistical analyses to support guidelines for marine avian sampling: Final report. [Digital Supplements A-G attached]

Interest in development of offshore renewable energy facilities has led to a need for high-quality, statistically robust information on marine wildlife distributions. A practical approach is described to estimate the amount of sampling effort required to have sufficient statistical power to identify species specific “hotspots” and “coldspots” of marine bird abundance and occurrence in an offshore environment divided into discrete spatial units (e.g., lease blocks), where “hotspots” and “coldspots” are defined relative to a reference (e.g., regional) mean abundance and/or occurrence probability for each species of interest. For example, a location with average abundance or occurrence that is three times larger the mean (3x effect size) could be defined as a “hotspot,” and a location that is three times smaller than the mean (1/3x effect size) as a “coldspot.” The choice of the effect size used to define hot and coldspots will generally depend on a combination of ecological and regulatory considerations. A method is also developed for testing the statistical significance of possible hotspots and coldspots. Both methods are illustrated with historical seabird survey data from the USGS Avian Compendium Database.

Lobster trap debris in the Florida Keys National Marine Sanctuary: distribution, abundance, density, and patterns of accumulation

The fishery for spiny lobster Panulirus argus in the Florida Keys National Marine Sanctuary is well chronicled, but little information is available on the prevalence of lost or abandoned lobster traps. In 2007, towed-diver surveys were used to identify and count pieces of trap debris and any other marine debris encountered. Trap debris density (debris incidences/ha) in historic trap-use zones and in representative benthic habitats was estimated. Trap debris was not proportionally distributed with fishing effort. Coral habitats had the greatest density of trap debris despite trap fishers’ reported avoidance of coral reefs while fishing. The accumulation of trap debris on coral emphasizes the role of wind in redistributing traps and trap debris in the sanctuary. We estimated that 85,548 ± 23,387 (mean ± SD) ghost traps and 1,056,127 ± 124,919 nonfishing traps or remnants of traps were present in the study area. Given the large numbers of traps in the fishery and the lack of effective measures for managing and controlling the loss of gear, the generation of trap debris will likely continue in proportion to the number of traps deployed in the fishery. Focused removal of submerged trap debris from especially vulnerable habitats such as reefs and hardbottom, where trap debris density is high, would mitigate key habitat issues but would not address ghost fishing or the cost of lost gear.

The use of syntax and multiple alternatives in the VODIS voice operated database inquiry system

The paper describes the architecture of VODIS, a voice operated database inquiry system, and presents some experiments which investigate the effects on performance of varying the level of a priori syntactic constraints. The VODIS system includes a novel mechanism for incorporating context-free grammatical constraints directly into the word recognition algorithm. This allows the degree of a priori constraint to be smoothly varied and provides for the controlled generation of multiple alternatives. The results show that when the spoken input deviates from the predefined task grammar, a combination of weak a priori syntax rules in conjunction with full a posteriori parsing on a lattice of alternative word matches provides the most robust recognition performance. © 1991.

Continuous speech recognition for the TIMIT database using neural networks

Four types of neural networks which have previously been established for speech recognition and tested on a small, seven-speaker, 100-sentence database are applied to the TIMIT database. The networks are a recurrent network phoneme recognizer, a modified Kanerva model morph recognizer, a compositional representation phoneme-to-word recognizer, and a modified Kanerva model morph-to-word recognizer. The major result is for the recurrent net, giving a phoneme recognition accuracy of 57% from the si and sx sentences. The Kanerva morph recognizer achieves 66.2% accuracy for a small subset of the sa and sx sentences. The results for the word recognizers are incomplete.

A Guide to the freshwater fauna of Ceylon. Supplement 2

This is the second supplement to "A guide to the freshwater fauna of Ceylon" by A. S. Mendis and C. H. Fernando, Bull. Fish. Res. Stn., Ceylon, No. 12, 160 pp. (1962). In the present supplement additions and corrections are made in the sections on Protozoa, Annelida and Arthropoda. The sections on Platyhelrainthes and Nematoda have been expanded and the Acanthocephala added. A list of species recorded and the hosts of the parasitic forms are included. In the "Guide", the insects with only larval stages in aquatic habitats were mentioned only briefly and no species lists were included. In this supplement this gap is largely filled by added notes and inclusion of species lists of all these groups except the Neuroptera, Lepidoptera, Tabanidae, Syrphidae and Stratiomyidae. The orders Neuroptera and Lepidoptera have relatively few members in freshwater habitats and the families Tabanidae, Syrphidae and Stratiomyidae have forms with larvae in aquatic habitats and also in moist places which are not true freshwater habitats. At this time, it is not possible to separate those forms living in freshwater habitats. Short diagnoses of six additional families are given, namely, the ixidae, Psychodidae, Tabanidae Stratiomyidae, Rhagionidae and Sciomyzidae. Keys are provided for the Odonata and Ephermeroptera larvae down to the family level. An attempt has been made to make the references more comprehensive. Works dealing specifically with the Ceylonese fauna are of course included, but in addition those which are of use in diagnosis of local genera and species have been cited.

MMI training for continuous phoneme recognition on the TIMIT database

This paper reports our experiences with a phoneme recognition system for the TIMIT database which uses multiple mixture continuous density monophone HMMs trained using MMI. A comprehensive set of results are presented comparing the ML and MMI training criteria for both diagonal and full covariance models. These results using simple monophone HMMs show clear performance gains achieved by MMI training, and are comparable to the best reported by others including those which use context-dependent models. In addition, the paper discusses a number of performance and implementation issues which are crucial to successful MMI training.

The design and implementation of dialogue control in voice operated database inquiry systems

This paper describes work performed as part of the U.K. Alvey sponsored Voice Operated Database Inquiry System (VODIS) project in the area of intelligent dialogue control. The principal aims of the work were to develop a habitable interface for the untrained user; to investigate the degree to which dialogue control can be used to compensate for deficiencies in recognition performance; and to examine the requirements on dialogue control for generating natural speech output. A data-driven methodology is described based on the use of frames in which dialogue topics are organized hierarchically. The concept of a dynamically adjustable scope is introduced to permit adaptation to recognizer performance and the use of historical and hierarchical contexts are described to facilitate the construction of contextually relevant output messages. © 1989.

Analogical reasoning in case-based design

A computer can assist the process of design by analogy by recording past designs. The experience these represent could be much wider than that of designers using the system, who therefore need to identify potential cases of interest. If the computer assists with this lookup, the designers can concentrate on the more interesting aspect of extracting and using the ideas which are found. However, as the knowledge base grows it becomes ever harder to find relevant cases using a keyword indexing scheme without knowing precisely what to look for. Therefore a more flexible searching system is needed.

If a similarity measure can be defined for the features of the designs, then it is possible to match and cluster them. Using a simple measure like co-occurrence of features within a particular case would allow this to happen without human intervention, which is tedious and time- consuming. Any knowledge that is acquired about how features are related to each other will be very shallow: it is not intended as a cognitive model for how humans understand, learn, or retrieve information, but more an attempt to make effective, efficient use of the information available. The question remains of whether such shallow knowledge is sufficient for the task.

A system to retrieve information from a large database is described. It uses co-occurrences to relate keywords to each other, and then extends search queries with similar words. This seems to make relevant material more accessible, providing hope that this retrieval technique can be applied to a broader knowledge base.

Report of the MPA Atlas and the interactive online database portal of the Bay of Bengal Large Marine Ecosystem

This report describes the process and details of developing an interactive online database portal for the BOBLME region.The MPA (Marine Protected Area) Atlas website, created by WorldFish was designed to provide public access to the latest information relevant to marine scientists, managers and conservationists. The main features include; BOBLME MPA database;interactive geospatial maps;and information about important habitats such as coral reefs,BOBLME boundaries and bathymetry.

Key for the identification of the East African marine fishes to family level

The paper provides key for the identification of the East African marine fishes. Just like in most determination keys this one is based on the "either-or" principle, i.e. there is a single alternatIve at each point. A specimen either fits all the characters recorded, or fails to conform to one or more characters and you should then proceed to the next number, keeping this up until the fish to be identified does fit all the characters.

A key to the families and genera of freshwater fishes of Tanzania

The purpose of this key is to facilitate rapid and accurate identification, in the field, for fisheries workers. It is therefore based as much as possible on external characters only and an attempt has been made to keep it simple and straight forward. The only real difficulty arises in clearly demarcating the numerous cichlid genera of the great lakes, despite the fact that these have been treated in separate sections for each lake. Moreover, it hasn't been possible to revise the key to the lake Nyasa genera (taken from Jackson, 1961) to any significant extent, my experience with L. Nyasa fishes being limited; also, a few new genera have been or are still in the process of being published and I unfortunately haven't had access to these papers. A short bibliography is appended covering the major publications relevant to the systematics of Tanzania freshwater fishes and the sources from which these keys have been drawn up.

Stiffness of sands through a laboratory test database

Deformations of sandy soils around geotechnical structures generally involve strains in the range small (0·01%) to medium (0·5%). In this strain range the soil exhibits non-linear stress-strain behaviour, which should be incorporated in any deformation analysis. In order to capture the possible variability in the non-linear behaviour of various sands, a database was constructed including the secant shear modulus degradation curves of 454 tests from the literature. By obtaining a unique S-shaped curve of shear modulus degradation, a modified hyperbolic relationship was fitted. The three curve-fitting parameters are: an elastic threshold strain γe, up to which the elastic shear modulus is effectively constant at G0; a reference strain γr, defined as the shear strain at which the secant modulus has reduced to 0·5G0; and a curvature parameter a, which controls the rate of modulus reduction. The two characteristic strains γe and γr were found to vary with sand type (i.e. uniformity coefficient), soil state (i.e. void ratio, relative density) and mean effective stress. The new empirical expression for shear modulus reduction G/G0 is shown to make predictions that are accurate within a factor of 1·13 for one standard deviation of random error, as determined from 3860 data points. The initial elastic shear modulus, G0, should always be measured if possible, but a new empirical relation is shown to provide estimates within a factor of 1·6 for one standard deviation of random error, as determined from 379 tests. The new expressions for non-linear deformation are easy to apply in practice, and should be useful in the analysis of geotechnical structures under static loading.