16 results

A novel method for obtaining age compositions from ancillary biological data and it’s potential for cost reductions in stock assessments

Project number: 2005-023
Project Status:
Completed
Budget expenditure: $99,882.65
Principal Investigator: Simon Robertson
Organisation: Agriculture Victoria
Project start/end date: 30 Aug 2005 - 30 Jun 2009
Contact:
FRDC

Need

Age composition data provides the key information necessary to effectively manage fisheries. The proposal provides a mechanism where age composition data can be gained using length frequency data and age composition data from different years and sampling events, which has previously been impossible. The benefits will be a reduced need for production ageing, more timely age composition data and the ability to construct age composition data from historical length frequency data where no samples were collected for ageing.

Currently the Age-Length Key (ALK) is the most widely used numerical method for assessing the age composition in a large sample of length-frequency data. However, the application of ageing data in this approach is restricted to the original sample of length distribution (ageing data from the same year the length-frequency sample is taken). Due to this severe limitation, the ageing information must be regenerated for each new data sample. Using the Fredholm First Kind equations, previous years ageing data can be used to generate the underlying age composition from the current length-frequency data. Furthermore, the ageing data may be added to include many years, improving the robustness of the statistic which can then be used to decompose the underlying age distribution from the given length frequency.

As noted by a number of referees, the major problem with the current methods is variable recruitment. We have demonstrated that the technique is tolerant to the most extreme changes in age frequency (see accompanying text). These extreme changes in age frequency are greater than any changes that could occur naturally through recruitment. The issue of variable growth may affect the efficacy of the approach, but to our knowledge, has only been observed in two species. These are black bream and blue grenadier. It is proposed that the technique be demonstrated on blue grenadier in the first year.

The cost of collecting ageing data is high, with approximately $150,000 spent each year on ageing samples from commercially important species within the South East Fishery. Due to the cost, the number of species aged is not optimal and species are prioritised on a scientific and social-political basis. The cost-benefit of applying this approach is intuitively a large reduction in cost of ageing to industry and more timely information on the age structure of the population. A formal cost benefit analyses will need to be conducted on a species by species basis. This is a function of different cost structures for ageing different species, different numbers of samples that need to aged for each species. These different numbers of estimates that need to be made for each species is primarily due to longevity and stock structuring.

The age-structured data obtained from this project will benefit the South East Trawl Fishery, the Great Australian Bight Trawl Fishery and the Gillnet, Hook and Trap Fishery which are supported by The Integrated Scientific Monitoring Program (ISMP) and various other stock assessment programs that rely on age-structured data.

Further, age composition data will be able to be reconstructed historically from species where samples were not aged but length-frequency data were collected. This will enable age-structured population analysis where the lack of ageing data prevented these stock assessment techniques from being previously used. The net effect of this approach is to greatly improve the knowledge base from which species are managed. One of key advantages of this approach is, if successful, will at the very least compliment current methods and provide temporal and spatial coverage of age composition information which is currently cost prohibitive and only collected for a few, high value species.

The implication of a technique that can provide age-composition data free from the restriction of those associated with the ALK is more cost-effective resource management.

The proposal has been developed in two parts, the first component is a 'Proof of Concept Study' where the use of the Fredholm First Kind Equations to provide age compositions from length frequency data will be further examined. If this is not assessed as successful in a workshop environment, the project will be terminated at the end of the first year. The second and third year will examine a broad range of species.

Objectives

1. During first 12 months provide a Proof of Concept Study on two species. One of the species with a short longevity and stable age composition over time and the second, with variable recruitment and higher longevity. The proposed species for this objective will be school whiting and blue grenadier.
2. Using Central Ageing Facility data, determine which commercially important fish stocks and associated data provide sufficient information for estimation of the age composition from length frequencies
3. Apply limited length-at-age data with extensive length-frequency data to improve time series of age compositions for fish stock assessment.
4. Determine the appropriate sample size for collection of age data.
5. Examine robustness of the numerical methods to length-specific selectivity.
6. Compare the new techniques with existing numerical methods.
7. Develop user friendly software and data environment for numerical reconstruction of cohorts and age groups.
8. Disseminate method to a broad audience of end-users
9. Provide cost-benefit analysis for each species undertaken comparing the financial benefit of using the new technique to the cost associated using traditional techniques. The objective will be delivered as species are examined.

Final report

ISBN: 978‐1‐74264‐135‐5
Author: Simon Robertson

Understanding shelf-break habitat for sustainable management of fisheries with spatial overlap.

Project number: 2004-066
Project Status:
Completed
Budget expenditure: $514,126.61
Principal Investigator: Caleb Gardner
Organisation: University of Tasmania (UTAS)
Project start/end date: 28 Oct 2003 - 30 Aug 2007
Contact:
FRDC

Need

The need for this project was identified by fishery managers and industry and addresses high priority strategic research areas identified by both state and national fisheries organisations. It is research that targets a high priority need across Australian fisheries: understanding the effects of fishing activities on fish and their ecosystems. The need for research is compounded in shelf-break habitats due to: (a) scarcity of basic information about shelf break habitats, (b) slow growth of many species in this region implying less resilience to impacts, (c) interaction effects between different sectors that may compound impacts.

The research need on addressing interaction between different sectors will be specifically addressed here in relation to the interaction between trawl and crab trapping sectors. This interaction between different fishing sectors is not unusual and is likely to be repeated in the future – work conducted here will assist in providing a template for resolution.

Understanding shelf-break habitat for sustainable management of fisheries with spatial overlap was identified as the number 1 research priority for Tasmanian crustacean research by both DPIWE and representatives of the Tasmanian crustacean fishing industry at the Tasmanian Crustacean Research Advisory Group.

The project focus is also consistent with strategies developed by the Commonwealth agencies involved in management of industries based around the shelf-break: the Commonwealth Government and the Department of Agriculture, Fisheries and Forestry Australia (AFFA). It is targeted to the FRDC program of Natural Resource Sustainability through the strategies of “Interactions between fish and their ecosystems” and “Effects of fishing activities on fish and their ecosystems”.

Objectives

1. Define and map key habitats on the shelf edge (~80-180 fm) at key locations around Tasmania where fisheries using different gear types interact.
2. Evaluate their resistance and resilience to impact from fishing gears based using the semi-quantitative 'Ecological Risk Assessment' framework
3. Detail the distribution of exploited shelf-edge species in relation to habitat features
4. Evaluate ecosystem links within habitats based on trophic, temperature and current-flow data
5. Evaluate using video to obtain stock assessment information such as abundance, sex ratio, condition and size of target species, primarily the giant crab

Final report

Development of a sustainable industry-based observation system for blue grenadier at the primary spawning sites

Project number: 2003-044
Project Status:
Completed
Budget expenditure: $434,670.00
Principal Investigator: Rudy Kloser
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 30 May 2003 - 30 Aug 2007
Contact:
FRDC

Need

This revised proposal focuses our original whole of ecosystem approach for blue grenadier biomass and its variability to be targeted on the development of the acoustic methodology. This refocusing has necessarily required the reduction of data collection and analysis in the environmental area. It is the considered view of the proponents (CSIRO Marine and Industry partners) that the environment variables should be explored in a more exploratory fashion within this proposal at a reduced cost. Specifically we address the refocusing and the need to explain how data collection and biomass estimation may evolve over the long term.

This project proposes to develop a cost-effective acoustic observation system that covers the primary canyon spawning locations in each of three years, and which can be implemented as an ongoing method (Kloser et al, 2001; report 99/111). In the development phase it will be necessary to carry out critical research to develop the acoustic methods to move from relative to absolute measures by understanding dominant species target strengths and identification of species. Outside the dominant canyon regions the ability to accurately identify blue grenadier is difficult due to lower density and association with other fishes of similar reflectance. Our ability to estimate biomass in this regions will be limited by species identification issues. Environment variability interpreted from acoustic recordings within and between seasons will be developed to provide ecosystem based information associated with biological, physical and oceanographic data. This research should assist to develop an understanding of the relationship between Blue Grenadier stock size their dynamics and the environmental variability leading to better management advise and MSC certification.

In the first year we plan to carry out an extensive survey using industry vessels to obtain a biomass estimate of the spawning blue grenadier. Industry vessel based acoustic surveys when planned and designed to minimise sampling error and biases should provide an index of abundance. These industry observations will be converted to an absolute assessment based on the fishes target strength, species composition and an estimate of fish turn-over on the spawning grounds. Critical research will be undertaken in this project to estimate target strength and species recognition of dominant species groups and reduce uncertainties identified in the acoustic method using information gained from a national facility research voyage in the second year. The target strength of the dominate fishes will be estimated by modelling the dominant fish species acoustic target strength as well as in-situ target strength and species composition measurements using a deep towed multi-frequency acoustic system and a targeted depth stratified biological net capture systems for identification. To model the acoustic scattering of blue grenadier it will be necessary to characterise the reflective components in the body of swimbladder, flesh, bone and lipids. This will be achieved by dissection, CAT scans and lipid extraction. Estimations of swimbladder size will be supplemented with measurements of fish buoyancy required at depth using a specialised pressure chamber. These measurements will enable a detailed scattering model to be developed and associated with in situ target strengths provide a conversion of the acoustic data to an absolute estimate of spawning biomass.

The industry and research vessel data collected at the canyon sites and on the upper slope need to be related to the larger-scale environment driving interannual variability. The high recruitment variability in this fishery is probably due to environmental factors and methods that can predict or indicate factors associated to recuitment variability are worth exploring. An earlier version of this proposal included developing low cost methods of measuring physical oceanographic, biological and biochemical metrics and comparing these to historical trends. The FRDC board and one reviewer were not supportive of this part of the proposal at this time. CSIRO Marine and Industry partners still consider that development of a balanced understanding of the biomass and the environment is worthwhile. During the project we will identify other environmental data that can be measured on an ongoing basis at low cost. In this proposal the field data collected will be related to available oceanographic information and form the basis of developing hypotheses on environmental connections. A separate proposal will follow to explore a more ecosystem based approach to the Blue Grenadier fishery management.

To advance low-cost, industry-based remote acoustic sensing methods in a strategic way requires scientific input. Once methodologies have been established and limitations identified, the stock assessment process can rely on industry acoustic data and the associated (optimized) physical and biological ground-truthing. Importantly, implementing industry-based observation systems will more formally integrate industry knowledge of fishery dynamics and variability within and between seasons into the stock assessment process. The ability to develop more integrated stakeholder based monitoring systems will provide greater ownership of the management process. In particular, the utility of industry acoustic data to provide a low-cost index of abundance for blue grenadier is an exciting prospect.

The success of this project will be determined by adoption of these results by management and industry and MSC certification. To ensure appropriate uptake of the research requires a close relationship between research providers and industry partners. To begin this relationships we have been working with the joint venture partners that hold 80% of the quota (Petuna Seafoods - Les Scott and Graham Patchel and Oceanfresh -Gerry Geen) in the industry and the associated vessels the Petuna Explorer, Ocean Dawn and Aoraki. Thus far we have trialed the acoustic monitoring method on all vessels that use the same Simrad ES60 38kHz acoustic equipment that is becoming an international standard. We successfully logged data from all the vessels during the previous winter and investigated capturing other biological and physical data with associated costs.

The industry joint venture partners have been very supportive in the pilot phase and in this proposal they will provide dedicated vessel time of two weeks in the first year as well as ongoing time for dedicated surveys in the second and third year. To ensure that the monitoring system is sustainable requires forward commitments by industry and researchers. Industry are committed to supporting the acoustic monitoring project and targeted environmental monitoring both in the short and if proved successful in the long term (see separate letter). During the project the best method of ensuring ongoing collection (at appropriate standards) and analysis of the data will be investigated under two main models. Firstly, that industry become the sole people responsible for data collection, analysis and reporting. Secondly, industry engage a suitable consultant (independent or government) to manage the continued data collection to agreed protocols and analysis of data. A necessary outcome of this research will be an appraisal of the most appropriate method to transfer the methodology. This objective will continue throughout the project and a close relationship with industry maintained through the co-principle investigator “Gerry Geen”.

Objectives

1. Develop and implement an industry-based acoustic monitoring system to provide an estimate of the absolute blue grenadier abundance and their dynamics at the primary spawning sites.
2. Develop the acoustic methodology to estimate target strength of the dominant species for absolute biomass assessment and investigate methods to determine species composition and reduce error.
3. Summarise the technical issues associated with the use of acoustic surveys to survey aggregated blue grenadier in the form of a how to guide and an estimation of error.
4. Evaluate the use of industry-based methods to monitor the ecological environment for sustainable fishing and sustainable ecosystems.
5. Evaluate the technology and best transfer of methodology for sustaining an industry-based optimised observation system its long-term use and incorporation into the management of the fishery.

Final report

ISBN: 9781921232602
Author: Rudy Kloser
Final Report • 2008-02-22
2003-044-DLD.pdf

Summary

Blue grenadier has the highest current TAC among SEF species and has two separate fisheries that target primarily either sub-adult fish year-round or mature adults in winter spawning aggregations. The sustainability of the fishery would be greatly enhanced with regular (sustained) monitoring of spawning stock size and an ability to predict annual recruitment strength. Monitoring the spawning stock size is problematic because data need to be taken for the duration of the spawning period which persists for several months. Sustained collection of the scientific information required to understand and predict the fishery biomass and dynamics in relation to the environment, particularly at this deep offshore location, would be very costly – in terms of both time and money if a dedicated scientific research vessel were to be used.  In this project we proposed to develop an acoustic method using fishing vessels suitably calibrated with appropriate protocols to survey blue grenadier schools and their prey throughout the spawning season.

This three year study has developed an industry-based acoustic observation system for blue grenadier at the primary spawning sites.

Development of an artificial neural network for automated age estimation

Project number: 1998-105
Project Status:
Completed
Budget expenditure: $132,072.00
Principal Investigator: Simon Robertson
Organisation: Agriculture Victoria
Project start/end date: 14 Jun 1998 - 31 Mar 2002
Contact:
FRDC

Need

Current age determination methods, even when aided by image analysis software still depend on interpretation by an experienced "reader". The process of ageing is also laborious, time consuming and hence, relatively expensive. For production ageing, where there is an ongoing requirement for age estimates, there is a problem of consistency of interpretation. At present, when readers change, there is a substantial training and verification period needed to ensure that the new reader is interpreting otolith structure in a consistent and correct manner. Automatic ageing would have the primary advantage of being a far more objective method than is possible with even the best training, reducing discrepancies both between readers and organisations. This factor will increase the precision of estimates and therefore provide greater confidence for the stock assessment process. Benefits associated with the development of this technique also include the reduced sample processing time which would increase the number of samples able to be processed and hence, reduce the cost.

The pilot project which has been completed has demonstrated the potential for artificial neural networks to objectively and consistently classify samples of some species. With refinements of the system, it should be applicable to any species for which production ageing is required.

Objectives

1. Compare the effect of different forms of data input on the performance of an ANN model for automatic ageing.
2. Compare the effect of different forms of ANN models on their performance.
3. Develop a protocol for the application of an ANN model to the process of automatic ageing.

Final report

ISBN: 0-7311-5038-4
Author: Simon Robertson

Modelling the population dynamics of high priority SEF species

Project number: 1997-115
Project Status:
Completed
Budget expenditure: $380,485.77
Principal Investigator: Robin Thomson
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 26 Jun 1997 - 30 Jul 2002
Contact:
FRDC

Need

The need for special research projects and individual stock assessments is detailed by the South East Fishery Assessment Group (SEFAG) and endorsed by SETMAC. The development of stock assessments for blue grenadier, and ling are high priority. Other species with high priority for quality stock assessment include blue warehou, redfish, blue-eye trevalla, and (following SETMAC 55) tiger flathead.

Blue grenadier is a species for which new data have become (or are becoming) available and for which there is a conflict between the relatively optimistic scientific advice (based primarily on an acoustic and an egg production estimate) and the more pessimistic view of several industry representatives. The stock assessment for this species will be accorded first priority. The other two species to be assessed wil be determined based on discussions with SETMAC, its research sub-committee and AFMA.

Objectives

1. Provide high quality population dynamics models and stock assessment advice for three SEF quota species for which there is immediate concern of stock status.
2. Work with industry and managers in developing population dynamics models in a manner that will improve the stock assessment in the SEF and its perception by industry.
3. Use the stock assessments to evaluate stock status against current management performance indicators and to provide advice on alternative performance indicators if necessary.
4. Evaluate the value (in terms of improved assessement) of future data collections and research studies for the assessed species.

Final report

ISBN: 1-876996-13-7
Author: Robin Thomson

Investigation of the potential for automatic ageing using image analysis: a pilot study

Project number: 1996-136
Project Status:
Completed
Budget expenditure: $43,294.00
Principal Investigator: Sandy Morison
Organisation: Agriculture Victoria
Project start/end date: 8 Aug 1996 - 6 May 1998
Contact:
FRDC

Objectives

1. Develop new methods for semi-automatic/automatic ageing of sectioned otoliths using image analysis software.
2. To validate automatic ageing using known age samples from species with clear otoliths.
3. To evaluate the potential of artificial neural networks for the process of objective age determination of fish.

Final report

ISBN: 0-7306-6276-4
Author: Alexander Morison
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