Metadata Federation of PICES Member Countries

(Document pdf contains 193 pages) Executive Summary (pdf, < 0.1 Mb) 1. Introduction (pdf, 0.2 Mb) 1.1 Data sharing, international boundaries and large marine ecosystems 2. Objectives (pdf, 0.3 Mb) 3. Background (pdf, < 0.1 Mb) 3.1 North Pacific Ecosystem Metadatabase 3.2 First federation effort: NPEM and the Korea Oceanographic Data Center 3.2 Continuing effort: Adding Japan’s Marine Information Research Center 4. Metadata Standards (pdf, < 0.1 Mb) 4.1 Directory Interchange Format 4.2 Ecological Metadata Language 4.3 Dublin Core 4.3.1. Elements of DC 4.4 Federal Geographic Data Committee 4.5 The ISO 19115 Metadata Standard 4.6 Metadata stylesheets 4.7 Crosswalks 4.8 Tools for creating metadata 5. Communication Protocols (pdf, < 0.1 Mb) 5.1 Z39.50 5.1.1. What does Z39.50 do? 5.1.2. Isite 6. Clearinghouses (pdf, < 0.1 Mb) 7. Methodology (pdf, 0.2 Mb) 7.1 FGDC metadata 7.1.1. Main sections 7.1.2. Supporting sections 7.1.3. Metadata validation 7.2 Getting a copy of Isite 7.3 NSDI Clearinghouse 8. Server Configuration and Technical Issues (pdf, 0.4 Mb) 8.1 Hardware recommendations 8.2 Operating system – Red Hat Linux Fedora 8.3 Web services – Apache HTTP Server version 2.2.3 8.4 Create and validate FGDC-compliant Metadata in XML format 8.5 Obtaining, installing and configuring Isite for UNIX/Linux 8.5.1. Download the appropriate Isite software 8.5.2. Untar the file 8.5.3. Name your database 8.5.4. The zserver.ini file 8.5.5. The sapi.ini file 8.5.6. Indexing metadata 8.5.7. Start the Clearinghouse Server process 8.5.8. Testing the zserver installation 8.6 Registering with NSDI Clearinghouse 8.7 Security issues 9. Search Tutorial and Examples (pdf, 1 Mb) 9.1 Legacy NSDI Clearinghouse search interface 9.2 New GeoNetwork search interface 10. Challenges (pdf, < 0.1 Mb) 11. Emerging Standards (pdf, < 0.1 Mb) 12. Future Activity (pdf, < 0.1 Mb) 13. Acknowledgments (pdf, < 0.1 Mb) 14. References (pdf, < 0.1 Mb) 15. Acronyms (pdf, < 0.1 Mb) 16. Appendices 16.1. KODC-NPEM meeting agendas and minutes (pdf, < 0.1 Mb) 16.1.1. Seattle meeting agenda, August 22–23, 2005 16.1.2. Seattle meeting minutes, August 22–23, 2005 16.1.3. Busan meeting agenda, October 10–11, 2005 16.1.4. Busan meeting minutes, October 10–11, 2005 16.2. MIRC-NPEM meeting agendas and minutes (pdf, < 0.1 Mb) 16.2.1. Seattle Meeting agenda, August 14-15, 2006 16.2.2. Seattle meeting minutes, August 14–15, 2006 16.2.3. Tokyo meeting agenda, October 19–20, 2006 16.2.4. Tokyo, meeting minutes, October 19–20, 2006 16.3. XML stylesheet conversion crosswalks (pdf, < 0.1 Mb) 16.3.1. FGDCI to DIF stylesheet converter 16.3.2. DIF to FGDCI stylesheet converter 16.3.3. String-modified stylesheet 16.4. FGDC Metadata Standard (pdf, 0.1 Mb) 16.4.1. Overall structure 16.4.2. Section 1: Identification information 16.4.3. Section 2: Data quality information 16.4.4. Section 3: Spatial data organization information 16.4.5. Section 4: Spatial reference information 16.4.6. Section 5: Entity and attribute information 16.4.7. Section 6: Distribution information 16.4.8. Section 7: Metadata reference information 16.4.9. Sections 8, 9 and 10: Citation information, time period information, and contact information 16.5. Images of the Isite server directory structure and the files contained in each subdirectory after Isite installation (pdf, 0.2 Mb) 16.6 Listing of NPEM’s Isite configuration files (pdf, < 0.1 Mb) 16.6.1. zserver.ini 16.6.2. sapi.ini 16.7 Java program to extract records from the NPEM metadatabase and write one XML file for each record (pdf, < 0.1 Mb) 16.8 Java program to execute the metadata extraction program (pdf, < 0.1 Mb) A1 Addendum 1: Instructions for Isite for Windows (pdf, 0.6 Mb) A2 Addendum 2: Instructions for Isite for Windows ADHOST (pdf, 0.3 Mb)

Vertebrates Removed by Mechanical Weed Harvesting in Lake Keesus, Wisconsin

Mechanical weed harvesting has been used to control nuisance vegetation in Lake Keesus since 1979. Fish, turtles, and amphibians often become entangled in the vegetation and are incidentally removed from the lake while harvesting weeds. Mechanical harvesting removed 2 to 8% of the standing crop of juvenile fish in harvested areas in Saratoga Lake, New York (Mikol 1985) and 32% of the fish population in harvested areas in Orange Lake, Florida, representing an estimated replacement value of $6000 per ha (Haller et al. 19890). Engle (1990) found mechanical harvesting removed 21,000 to 31,000 fish per year from Lake Halverson, Wisconsin, representing 25% of the fry in the lake. Little other current information has been published concerning aquatic vertebrate removal by mechanical weed harvesting in Wisconsin, though it is a commonly used management tool. Additionally, only Engle (1990) reported information on the removal of turtles relative to weed harvesting, but none on amphibians. The objective of this study was to document the number, species, and size of vertebrates removed by mechanically harvesting weeds in Lake Keesus.

A chemical survey of standing waters in south-east England, with reference to acidification and eutrophication

This study looks at the distribution and magnitude of acidification and eutrophication in south-east England where there are no natural lakes but a large number of shallow artificial ponds. The study area is defined as the region lying within a 100 km radius of central London but excluding the area within the M25 motorway. Water samples were taken from 120 sites between mid-January and the end of February 1990, with a subsequent monthly survey of a subset of 31 of these waters. Twelve chemical variables were measured in the laboratory using standard techniques. PH values for the full dataset ranged from 3.2 to 8.4, although the majority of sites had pH values in the range 7.0 to 8.5; only five sites had a pH of less than 6.0. The five low pH sites expectedly had low alkalinities and are the only sites with values below 0.1 meq per litre. Concentrations of calcium, sodium, potassium, magnesium, chloride, sulphate and nitrate had normal distributions. The majority of sites had total phosphorus concentrations in the range 25 to 200 mu g per litre, although 10 sites had concentrations above 400 mu g per litre. The low number of acid sites suggests that surface water acidity is not a widespread regional problem in south-east England. However the survey shows that a large number of standing waters in the region have high total phosphorus and nitrate concentrations, and 89% may be considered moderately to considerably eutrophic.

Premiers résultats sur l'excrétion et la production du zooplancton de la Lagune Ebrié (Côte d'Ivoire)

Biomass and metabolic rates (total nitrogen and phosphorus excretion and respiration) were measured at 4 stations, representative of the lagoon environment, during high-water (Oct-Nov), dry (Dec-Jan) and rainy (July) seasons. In low-salinity waters (4o/oo) Acartia clausi is almost the only species, whereas a marine and diversified fauna is brought in from the ocean during the dry season. O/NT and O/PT atomic ratios between respiration (O) and total nitrogen (NT) and phosphorus (PT) excretions are high (15.1 and 111, respectively) and show a marked hydrocarbon feeding of zooplankton. Production was assessed from excretion via the net growth efficiency coefficient, K2 , calculated from N/P ratios for particles (a1), zooplankton excretion (a2) and constitution (a3). Daily productivity indices (i.e. daily production/biomass ratio) are high and equivalent to 1.2-3.8 day turn-over times. These high values may be ascribed to high temperatures (26.5-30 C) and phytoplankton richness (surface chlorophyll 'a' concentrations are always greater than 4 mg/m-3). Finally, the paper deals with trophic relationships between phyto- and zooplankton (ingestion /primary production ratio and transfer coefficient) and the question of relationships between zooplankton and predators.

Pawpaw seed as fertility control agent on male Nile tilapia

To find out if pawpaw (Carica papaya) seeds can induce sterility in male Nile tilapia (Oreochromis niloticus) and to determine if sterility so induced is reversible or otherwise, mature male tilapia of mean weight 40 g were treated for 30 days with a low dose (4.9 g/kg/day) and a high dose (9.8 g/kg/day) of ground pawpaw seeds incorporated into their feed. Fish of similar sizes in the control experiment were fed with feed that did not contain pawpaw seed. The pawpaw seeds induced permanent sterility in the fish that received the high dose, while sterility in the low dose treatment was reversible. Fish in the control experiment spawned two weeks into the experiment and again in the fifth week. Fish in the low dose treatment spawned three weeks after the treatment had been discontinued. Histological sections of the testes showed that pawpaw seeds produced swollen nuclei in the low dose treatment and disintegrated cells in the high dose treatment. The study showed that pawpaw seeds, which are easy to obtain, can be incorporated into fish feeds and used by farmers to control prolific breeding of Nile tilapia.

Zooplankton: its biochemistry and significance in aquaculture

Zooplankton are an important food source for many species of fish. They can provide an inexpensive alternative to other commercial feeds. Zooplankton have several advantages, among them a faster growth and greater feed efficiency for some species. The flavor and texture of fish are also improved with zooplankton as feed. Further research is needed on the chemical composition of zooplankton, the development of zooplankton-based dry diets and the effects of the replacement of fish meal with zooplankton meal for commercial aquaculture species.

Effect of diazinon 60 EC on Anabas testudineus, Channa punctatus and Barbodes gonionotus

Anabas testudineus, Channa punctatus and Barbodes gonionotus were exposed to 5.62, 6.25, 6.87, 7.50, 8.12 and 8.75 ppm; 1.13, 2.26, 3.39, 4.52, 5.65 and 6.78 ppm; and 2.00, 2.50, 3.00, 3.50, 4.00 and 4.50 ppm of Diazinon 60 EC, respectively. The median lethal concentration (LC50) values of Diazinon 60 EC on A. testudineus, C. punctatus and B. gonionotus were 6.55, 3.09 and 2.72 ppm for 96 hrs of exposure. The fish species showed several abnormal behaviors which included restlessness, arena movements, loss of equilibrium, increased opercular activities, strong spasm, paralysis and sudden quick movements during the exposure. For histopathological studies, A. testudineus, C. punctatus and B. gonionotus were exposed for 7 days to sublethal concentrations of 1.13 and 3.75 ppm; 1.13 and 2.26 ppm; and 1.13 and 2.26 ppm of Diazinon 60 EC, respectively. Hypertrophy, necrosis and pyknosis of hepatocytes, pyknosis and degenerative changes such as necrosis of tubular and haematopoietic cells of kidney were the major histopathological effects.

Escalation in shrimp production in the Sierra Leone industrial fishery

Applying Turkey's jackknife method on MSY estimates from the surplus production models of Schaefer and Fox showed that the optimum yield for shrimps in industrial fishery in Sierra Leone is estimated at 2,686.8 t with 15,822 fishing days. Annual catch for 1996 was 2,788 t, indicating an escalation in exploitation which, if prolonged, could bring reduced productivity as experienced in the fishery some years ago.

Catch and Bycatch in the Shark Drift Gillnet Fishery off Georgia and East Florida

An observer program of the shark drift gillnet fishery off the Atlantic coast of Florida and Georgia was begun in 1993 to define the fishery and estimate bycatch including bottlenose dolphin, Tursiops truncatus, and sea turtles. Boats in the fishery were 12.2-19.8 m long. Nets used were 275-1,800 m long and 3.2-4.1 m deep. Stretched-mesh sizes used were 12.7-29.9 cm. Fishing trips were usually <18 h and occurred within 30 n.mi. of port. Fishing with an observer aboard occurred between Savannah, Ga., and Jacksonville, Fla., and off Cape Canaveral, Fla. Nets were set at least 3 n.mi. offshore. Numbers of boats in the fishery increased from 5 in 1993 to 11 in 1995, but total trips decreased from 185 in 1994 to 149 in 1995. During 1993-95, 48 observer trips were completed and 52 net sets were observed. No marine mammals were caught and two loggerhead turtles, Caretta caretta, were caught and released alive. A total of 9,270 animals (12 shark, 21 teleost, 4 ray, and 1 sea turtle species) were captured. Blacknose, Carcharhinus acronotus; Atlantic sharpnose, Rhizoprionodon terraenovae; and blacktip shark, C. limbatus), were the dominant sharks caught. King mackerel, Scomberomorus cavalIa; little tunny, Euthynnus alleteratus; and cownose ray, Rhinoptera bonasus, were the dominant bycatch species. About 8.4% of the total catch was bycatch. Of the totals, 9.4% of the sharks and 37.3% ofthe bycatch were discarded.

Distribution and Apparent Abundance of the Basking Shark, Cetorhinus maximus, off the Central and Southern California Coast, 1962-85

Basking sharks, Cetorhinus maximus, are frequently observed along the central and northwestern southern California coast during the winter and spring months. These large plankton feeding elasmobranchs, second in size only to the whale shark, Rhineodon typus, had been the subject of a small commercial fishery off California in the late 1940's and early 1950's for their liver oil, rich in vitamin A, and in later years for reduction into fish meal and oil (Roedel and Ripley, 1950). These fisheries were sporadic and did not take basking sharks in large numbers.

Mersey & Weaver Fisheries Advisory Committee 20th June, 1979.

This is the report from the Mersey and Weaver Fisheries Advisory Committee meeting, which was held on the 20th June 1979. The report contains sections on the minutes of the last meeting along with the minutes of the meeting of the Regional Fisheries Advisory Committee, role and constitution of Local Advisory Committees, Leeds/Liverpool transfer of minewater from Bickershaw Colliery, income from sale of rod and line licences 1978, fishing offences and prosecutions for 1978/1979. The report by the area fisheries officer looks at river conditions and fishing, Hollingsworth and Great Sankey hatcheries, stocking by angling associations and authorities, pollution incidents and fish mortalities. The Fisheries Advisory Committee was part of the Regional Water Authorities, in this case the North West Water Authority. This preceded the Environment Agency which came into existence in 1996.

Derwent & West Cumbria Fisheries Advisory Committee 25th June, 1979.

This is the report from the Derwent and West Cumbria Fisheries Advisory Committee meeting, which was held on the 25th June 1979. The report contains sections on British Nuclear Fuels Limited abstraction from Wastwaters, Salmon Propagation in England and Wales, and its implications for regional hatchery policy, the incomes from sale of rod and line licences for 1978, and a progress report of the Opencast Coal Workings. It also covers the report by the area fisheries officer which looks at river conditions and fishing, fish distribution and general comments for Holmwrangle hatchery, re-stocking by angling associations, predators, fish disease, Yearl Weir fish counter, work at River Ehen, poaching and a summary of prosecutions. The Fisheries Advisory Committee was part of the Regional Water Authorities, in this case the North West Water Authority. This preceded the Environment Agency which came into existence in 1996.

North Cumbria Fisheries Advisory Committee 26th June, 1979.

This is the report from the North Cumbria Fisheries Advisory Committee meeting, which was held on the 26th June 1979. The report contains sections on rod and line regulations of Yorkshire Water Authority, incomes from sale of rod and line licences 1978, fishing offences and prosecutions for 1978/1979, and a draft of netting rights in River Ehen. Also covered is the report by the area fisheries officer which looks at conditions and fishing at Rivers Eden and Esk, fish distribution, stock and general comments for Holmwrangle hatchery, re-stocking by angling associations, predators, and research work carried out on the Eden. The Fisheries Advisory Committee was part of the Regional Water Authorities, in this case the North West Water Authority. This preceded the Environment Agency which came into existence in 1996.

South Lancashire Fisheries Advisory Committee 27th June, 1979.

This is the report from the South Lancashire Fisheries Advisory Committee meeting, which was held on the 27th June 1979. The report contains sections on the minutes of the last meeting along with the minutes of the meeting of the Regional Fisheries Advisory Committee held on 30th April 1979, Leeds/Liverpool transfer of minewater from Bickershaw Colliery, and incomes from sale of rod and line licences for 1978. The report by the area fisheries officer looks at river conditions and fishing in the Lower Ribble, migratory fish movement, Langcliffe hatchery, stocking by angling associations and fish mortalities. The Fisheries Advisory Committee was part of the Regional Water Authorities, in this case the North West Water Authority. This preceded the Environment Agency which came into existence in 1996.