User’s Guide to ADMB2R: A Set of AD Model Builder Output Routines Compatible with the R Statistics Language

ADMB2R is a collection of AD Model Builder routines for saving complex data structures into a file that can be read in the R statistics environment with a single command.1 ADMB2R provides both the means to transfer data structures significantly more complex than simple tables, and an archive mechanism to store data for future reference. We developed this software because we write and run computationally intensive numerical models in Fortran, C++, and AD Model Builder. We then analyse results with R. We desired to automate data transfer to speed diagnostics during working-group meetings. We thus developed the ADMB2R interface to write an R data object (of type list) to a plain-text file. The master list can contain any number of matrices, values, dataframes, vectors or lists, all of which can be read into R with a single call to the dget function. This allows easy transfer of structured data from compiled models to R. Having the capacity to transfer model data, metadata, and results has sharply reduced the time spent on diagnostics, and at the same time, our diagnostic capabilities have improved tremendously. The simplicity of this interface and the capabilities of R have enabled us to automate graph and table creation for formal reports. Finally, the persistent storage in files makes it easier to treat model results in analyses or meta-analyses devised months—or even years—later. We offer ADMB2R to others in the hope that they will find it useful. (PDF contains 30 pages)

User’s Guide to C2R: A Set of C Language Output Routines Compatible with the R Statistics Language

C2R is a collection of C routines for saving complex data structures into a file that can be read in the R statistics environment with a single command.1 C2R provides both the means to transfer data structures significantly more complex than simple tables, and an archive mechanism to store data for future reference. We developed this software because we write and run computationally intensive numerical models in Fortran, C++, and AD Model Builder. We then analyse results with R. We desired to automate data transfer to speed diagnostics during working-group meetings. We thus developed the C2R interface to write an R data object (of type list) to a plain-text file. The master list can contain any number of matrices, values, dataframes, vectors or lists, all of which can be read into R with a single call to the dget function. This allows easy transfer of structured data from compiled models to R. Having the capacity to transfer model data, metadata, and results has sharply reduced the time spent on diagnostics, and at the same time, our diagnostic capabilities have improved tremendously. The simplicity of this interface and the capabilities of R have enabled us to automate graph and table creation for formal reports. Finally, the persistent storage in files makes it easier to treat model results in analyses or meta-analyses devised months—or even years—later. We offer C2R to others in the hope that they will find it useful. (PDF contains 27 pages)

User’s Guide to For2R: A Module of Fortran 95 Output Routines Compatible with the R Statistics Language

For2R is a collection of Fortran routines for saving complex data structures into a file that can be read in the R statistics environment with a single command.1 For2R provides both the means to transfer data structures significantly more complex than simple tables, and an archive mechanism to store data for future reference. We developed this software because we write and run computationally intensive numerical models in Fortran, C++, and AD Model Builder. We then analyse results with R. We desired to automate data transfer to speed diagnostics during working-group meetings. We thus developed the For2R interface to write an R data object (of type list) to a plain-text file. The master list can contain any number of matrices, values, dataframes, vectors or lists, all of which can be read into R with a single call to the dget function. This allows easy transfer of structured data from compiled models to R. Having the capacity to transfer model data, metadata, and results has sharply reduced the time spent on diagnostics, and at the same time, our diagnostic capabilities have improved tremendously. The simplicity of this interface and the capabilities of R have enabled us to automate graph and table creation for formal reports. Finally, the persistent storage in files makes it easier to treat model results in analyses or meta-analyses devised months—or even years—later. We offer For2R to others in the hope that they will find it useful. (PDF contains 31 pages)

Rückwürfe in den Fischereien unter deutscher Flagge: Ergebnisse aus 6 Jahren Datenerhebungsprogramm am Institut für Seefischerei

Since 2002 Germany is obliged to collect fishery data to support the European Common Fishery Policy. Sampling of the com-mercial fishery under German flag is one duty within the EU fisheries data collection programme. During the past 6 years, 148 fishing trips were sampled by scientific observers onboard commercial fishing vessels to collect data on catch composi-tions with special emphasis on the proportions of landed and discarded fish. The results show that the proportion of discard is depending on the fishery. Highest discard rates were observed on beam trawl fishing trips. At the level of individual fishing trips, discard rates varied extremely within a fishery segment. Highest variations were found in the beam and bottom otter trawl fishery. In contrast, the discard rates in high-seas fisheries were low.

Alternative Fangmethoden aus der Sicht der Fischereiforschung

Fischfanggeräte werden in der kommerziellen Fischerei und in der Fischereiforschung eingesetzt. In beiden Fällen werden hauptsächlich Schleppnetze verwendet. Schleppnetze sind jedoch nicht für alle Aufgabenstellungen der Fischereiforschung geeignet. Alternative in der Forschung verwendbare Untersuchungsgeräte und Methoden wurden bisher ohne überzeugenden Erfolg getestet. Schleppnetzen – insbesondere den Grundschleppnetzen der Berufsfischerei – werden sowohl die Meeresumwelt schädigende Einflüsse als auch unzureichende selektive Eigenschaften hinsichtlich Ziel- und Beifangarten nachgesagt. Die in der kommerziellen Fischerei der Ostsee verwendeten Schleppnetze üben aber nur einen geringen schädlichen Einfluss auf Bodenorganismen aus. Alternative ökosystemgerechte Fanggeräte wie Fischfallen können Schleppnetze bisher nicht ersetzen. Es werden Möglichkeiten aufgezeigt, die negativen Einflüsse auf die Meeresumwelt noch weiter zu verringern. Durch konstruktive Gestaltung der Schleppnetze (großmaschige Unterblätter im Vornetz, im Oberblatt reduzierte Grundschleppnetze) können Beifänge reduziert werden. Durch weitere Verbesserungen der Beschwerungs- und Spreizelemente an Grundschleppnetzen lassen sich die negativen Einflüsse auf den Meeresboden weiter reduzieren.

Raumordnung in der AWZ: Mittlere Anlandungen der deutschen und internationalen Fischereiflotten aus deutschen Nordseegewässern im Zeitraum von 2000 bis 2004

The pressure of users other than shipping and fishery on the national EEZs for territorial claims has increased in recent years. So it becomes necessary to carry out a spatial planning for which all users have to indicate their recent and planned future activities. For the German waters in the North Sea a first attempt was made to calculate the mean international landings for the commercially important fish and crustacean species on the spatial scale of ICES-rectangles. The relationships between the German and international landings per species are listed in a table and the distribution of the landings for each species within the area are shown in 13 figures.

Untersuchungen zur chemischen Zusammensetzung und Nematodenbelastung von Stinten (Osmerus eperlanus L.)

Smelt (Osmerus eperlanus L.) from the river Elbe has a long tradition as local food speciality. It is offered baked or fried every year during spring in many restaurants along the river. Information about the composition of the edible part and its changes during fishing season are scarce. In earlier days the fish was mostly sold by local fisherman directly after catch. Today the fish is also offered as ungutted fresh fish in ice on the whole sale market. The freshness of this fish has not been studied. Smelt from the river Elbe is known to contain nematode larvae (Pseudoterranova decipiens) in the muscle meat. Actual quantitative data on the abundance and prevalence in the commercially offered ice stored fish are missing.

Eine zusätzliche Möglichkeit für die Ostseedorsch-Fischerei: Steerte aus 90° gedrehtem Netztuch

In 2004, comparative selectivity investigations were made with the now legal BACOMA codend of 110 mm mesh opening and alternative codends made of netting turned 90° of similar mesh openings on both commercial boats and on research vessels. The results show a certain variability of the BACOMA results – depending on ship type and season (L50 varying between 36,8 and 40,6) – and a general equal efficiency of codends made of netting turned 90° of the same mesh opening. Underwater observations and reduced performance of codends of equal circumference in meshes as the joining round at the end of the tapered part of the trawl indicate the need to reduce the relation of the cir-cumferences of codend and extension to 1 to 0.7 to achieve optimum fit and selectivity.

Fischereiökonomische Forschung in Deutschland – Ergebnisse zur deutschen Fischereiflotte aus einem EU-Verbundprojekt

The economic situation of the German fishing fleet, economic indicators and backgrounds have been analysed in the overall framework of the EU-Concerted Action ‘Economic Assessment of European fishing fleets’. Trends in number of vessels, employment on board and catches for main target species are decreasing. This development may clearly be related to bad fish stock conditions, missing investment op-portunities for vessels and the short-term fishing quota man-agement system. To facilitate fisheries economics research a better data collection system is needed. As a consequence economic advice may be given for the development of a long-term sustainable management system.

Der PAH-Metabolit 1-Hydroxypyren in der Galle von Klieschen (Limanda limanda) aus Nord- und Ostsee

Due to their carcinogenic properties, polycyclic aromatic hydrocarbons (PAH) are important environmental contaminants which may lead to increased levels of neoplastic aberrations in fish liver. To measure the PAH contamination of fish, concentrations of PAH metabolites were determined in the bile. The main metabolite 1-hydroxypyrene was determined in concentrations from < 0.8 to 189 ng/ml in bile of dab caught in the North Sea and the Baltic Sea re-spectively. The concentrations are comparable to levels of 1-hydroxypyrene measured in cod and herring from the Baltic Sea. The highest concentrations in dab bile were measured in fish from the inner German Bight and the Kiel Bight.

Entweicht Radioaktivität aus den Abfallfässern im nordostatlantischen Versenkungsgebiet?

Radioactivity measured in samples from the NEA-Dumping-Site not only emanated from dumped barrels. Just as everywhere on the world also fallout from former nuclear weapon tests can be found there. Radionuclides which can emanate from different sources do not tell anything about their origin. To assess the fractions from various sources activity ratios from radionuclides can be used. There are different activity ratios for fallout and for waste from peaceful nuclear power engeneering. The comparison of the ratios of the plutonium isotopes Pu-238 and the sum of Pu-239 and Pu-240 (Pu-238/Pu-239,240) in benthic samples from the dumping site and from reference sites without waste dumping gives a clear hint. In the sampling period from 1980 to 2000 for samples from the dumping site this ratio increases significantly from 1986 on. Radioactivity emanating from the dumped barrels is regarded as causing this.

Farbstoffgehalte in Lachsersatzprodukten aus Seelachs und Alaska-Seelachs und Veränderungen bei Lagerung im Kühlschrank

Heavy salted and brightly red coloured slices and cuttings of saithe and Alaska pollock (in German called: Lachsersatz) have a long tradition on the German market and a high consumer acceptability. The food colours E 110 and E 124 are used to produce the typical red colour of these products. An allowable limit of 500 mg/kg has been set for the sum of both colours but data on the actual concentrations are missing. In this study the results of colour measurements of various market samples are presented. Furthermore a study was undertaken to determine possiblechanges in colour concentrations during storage of typical products thereof in an house hold refrigerator.

Zusammenhang zwischen Schadstoffen aus der Elbe und missgebildeten Fischembryonen in der Deutschen Bucht.

The trends of malformation prevalence in embryos of dab, Limanda limanda, in the southern North Sea after the year 1990 mirrored the drop in major pollutants in the rivers draining into the German Bight. Despite this general decline we detected a pollution event in the southern North Sea in winter 1995/1996 employing the prevalence of malformations in dab embryos as an indicator. An abrupt rise in malformation prevalence in the embryos of dab, corresponded to a dramatic increase in DDT levels in parent fish from the same area, indicating a hitherto unnoticed introduction of considerable quantities of DDT into the system. This input could be traced back to discharges of unknown origen into the River Elbe.

Über Fischereiressourcen und ihre Nutzung

The reduction of discards will only be achieved, if more effective methods of catch selection will be developed and used. In principle, the unavoidable by catch of commercial fish should be used for human consumption, independent of the requirements for minimum length and existing catch quotas. The amount of such bycatch should be charged to the total catch quota and preferably be used for processing of fish portions with skin (carcasses with skin), because this kind of processing results in higher yields and nutrional advantages compared to fillet processing. Unfortunately, nowadays, in the German fishery and fish trade this traditional form of supply is only of minor importance because of the predominance of fillets and fillet products. However, cooperation between fishing industry and fish trade and a good advertising of processed fish portions with skin could overcome this problem. In the pelagic fishery of herring, mackerel and other similar pelagic species the bycatch of small sized specimen of these species can be a problem. These small sized fish can principally be processed to traditional fish products, but the processing costs for them are much higher. The prospects for processing of the bycatch into minced fish meat, fish protein concentrate or fish protein hydrolysate are very poor under the existing regime in the German fishing industry. A further way for processing of the bycatch, which can not be used for human consumption, is the production of fishmeal. However, only three German factory ships dispose of fish meal plants. Under the current economic conditions, i.e. because of limited storage capacity, the Ger-man trawler and cutter fleet is not able to transport the bycatch for fish meal production ashore.

Die Bedeutung biologischer Daten aus der deutschen Seelachsfischerei für Bestandsabschätzung und Management

Since 1999, the ICES Working Group on the Assessment of Demersal Stocks in the North Sea and Skagerrak assesses the saithe stock in the North Sea, Skagerrak and west of Scotland as a single stock unit. The sampling, evaluation and role of biological data from the German saithe fishery in the assessment are described. The German data showed similar trends as observed in French and Norwegian series. Based on these estimates, the spawning stock recovered to more than 200 000 t due to reductions in quotas and exploitation rates. Thus, the production of the stock increased also in combination with good recruitment and positive trends in spawning stock size and landings were projected for 2002. The biological data derived from the German saithe fishery dominated the assessment of stock size, structure and exploitation. This fact encourages a continuation of the described analyses based on sampling onboard fishing vessels and fish markets by the Institute for Sea Fisheries. The successful collaboration with the saithe fishing industry is judged as an important contribution to the sustainable management of fish stocks.