4 results

Next-generation Close-kin Mark Recapture: using SNPs to identify half-sibling pairs in Southern Bluefin Tuna and estimate abundance, mortality and selectivity

Project number: 2016-044
Project Status:
Completed
Budget expenditure: $328,743.00
Principal Investigator: Campbell Davies
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 2 Oct 2016 - 29 Apr 2018
:

Need

Annual estimates of SBT spawning stock abundance are required to assess the status and productivity of the stock. Prior to the original CKMR study, there was no direct index of abundance of the spawning population The majority of the difference in the estimates of spawning stock status between the 2011 and 2014 stock assessments was due to the influence of the CKMR data, in combination with the 1990’s conventional tagging data. This reduced the overall uncertainty in spawning biomass and natural mortality and, therefore, identified a number of unproductive (pessimistic) parameter combinations as implausible. These were removed from the reference set of OMs (Anon 2014)

The schedule of implementation of the CCSBT MP includes a full stock assessment is scheduled for 2017. As a result of decisions by CCSBT to discontinue the Aerial Survey and move to gene-tagging, the CCSBT will initiate development of a new MP in 2017. Candidate MPs will be tested (in 2018) and a final MP selected using the OMs reconditioned in 2017 as part of the full stock assessment. The aim of this FRDC project is to provide a time-series of absolute abundance estimates of spawning potential from 2002 to 2013 for direct use in the CCSBT OMs. This abundance trajectory of the spawning potential of the stock will be independent of CPUE and catch data from the main fisheries, and will be an important input to domestic and international consideration of the stock status and performance of the rebuilding plan.

If the CKMR information is not available for the 2017 assessment, it is highly unlikely to be incorporated for testing of Candidate MPs. This would mean the CCSBT MP used to recommend future global TACs would not be “calibrated” with the most recent information on the status and recent trend in the spawning stock.

Objectives

1. Process archived tissue samples, extract DNA and genotype (~16,000 individuals, 2006-2014)
2. Combine genotypes from 1 with those from related CCSBT project (2015-2016)
3. Estimate time series of total adult abundance, spawning potential and total mortality on the spawning population
4. Report outcomes to SBTMAC, AFMA and CCSBT Scientific Committee for incorporation into 2017 update of the CCSBT Operating Model.

Final report

ISBN: 978-1-925994-04-9
Author: Campbell Davies
Final Report • 2020-06-16 • 3.04 MB
2016-044-DLD.pdf

Summary

This report presents the results of the first application of Close-Kin Mark-Recapture (CKMR) using both Parent-Offspring Pairs (POP) and Half-sibling Pairs (HSP). This application to Southern Bluefin Tuna (SBT) has been successful, providing a decadal time series of absolute abundance, total mortality and selectivity of adults. The method and the results have been reviewed and accepted by the Scientific Committee of the Commission for the Conservation of

Project products

Film/Video • 2020-06-16

Summary

This research has provided the world’s first scientifically tested management procedure for Southern Blue Fin Tuna (SBT) using DNA sequencing and genetic tagging to manage stock levels and deliver significant economic benefits.
Resource list • 2020-06-16 • 82.79 KB
papers 2016-044.pdf

Summary

The following working papers from this project were submitted to the CCSBT

Catch-at-age, age at first spawning, historical changes in growth, and natural mortality of SBT: an integrated study of key uncertainties in population biology and dynamics of SBT, based on direct estimates of age from otoliths

Project number: 1997-111
Project Status:
Completed
Budget expenditure: $200,539.00
Principal Investigator: John Gunn
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 29 Dec 1997 - 21 Apr 2004
:

Need

The critical requirement for accurate assessment of SBT stocks is recognised internationally. In 1995-96, the SBT fishery was worth $100 million to Australia and $1 billion globally. However, in the same year the species received a CITES 2nd Appendix listing (a response to judgements that it is overexploited and endangered) and Japan proposed a large-scale experimental fishing program (EFP) based on an increase in quota/catch.

The diametrically opposed positions represented by CITES and the Japanese EFP result from fundamental problems in the stock assessment process. Uncertainties within the assessments - in the data on which they are based, in key biological parameters and in the interpretation of historical changes in catch, effort and population parameters - provide the scope for radically different interpretations of results from assessment models. It is likely that as long as these uncertainties remain, there will be the scope for interpreting the data “as it suits”.

At the 1996 CCSBT Scientific Committee meeting, the significant uncertainties within the assessment process were identified. The proposed project addresses four of the high priority areas:

1. Accurate and validated age-length keys based on direct age estimation data are required for improving the catch-at-age matrices that are used as the basis for VPA’s.
2. Accurate estimates of the age at first maturity are required for establishing the extent of the parental biomass.
3. Accurate estimates of the nature and extent of changes between the 1950’s and 1990’s in the growth of 1-4 year old SBT are required for understanding the effect of these on current and past assessments.
4. Estimates of the natural mortality of 8-40 year old SBT are required for tuning of the VPA’s and stock projections.

The project addresses a number of items in the Southern Tuna MAC 5-Year Research Plan and has been endorsed by the MAC as a high priority.

Objectives

1. Estimate and compare the age composition of catches in each of the major SBT fisheries
the three major Japanese fisheries in the Southern Ocean, the Indonesian fishery on the spawning grounds, the Australian surface and longline fisheries in the AFZ, the New Zealand troll and longline fisheries and Taiwanese fishery in the Indian Ocean.
2. Compare growth rates of fish collected from each fishery.
3. Develop an age-length key for the population. Or, if there is an indication in the growth data of spatial heterogeneity in growth rates, develop age-length keys for discrete units within the population.
4. Estimate from otoliths collected on the spawning grounds the age at first spawning for SBT.
5. Using otoliths from fish spawned in each of the four decades in which the SBT fishery has operated, examine the hypothesis that growth rates have changed in response to population size and or environmental conditions.
6. Use otolith-based age data to estimate the natural mortality rate for mature age SBT.

Final report

ISBN: 1-876996-50-1
Author: John Gunn
Final Report • 2004-01-20 • 2.93 MB
1997-111-DLD.pdf

Summary

The CCSBT has recognized for a number of years that a better understanding of the population biology and demographics of southern bluefin tuna (SBT) is necessary for improved population modeling and stock assessments. In 1996, the CCSBT Scientific Committee identified three areas where our understanding of SBT biology was inadequate: catch-at-age, age-at-maturity and natural mortality. The Scientific Committee also highlighted the need to measure changes in the growth rates of juvenile SBT over the past 30-40 years. This project was developed in response to these concerns.

Determining the age structure of the SBT catch is a basic requirement for understanding the species population dynamics and undertaking age-based stock assessments. Validated ageing techniques have only recently been developed for SBT and a previous FRDC project (Gunn et al. 1996 - FRDC 92/42) estimated age for approximately 1,000 SBT, collected predominantly off Tasmania and in the Great Australian Bight (FRDC 92/42).  During the current study, we selected a further 2000 SBT otoliths for ageing, and use these data in conjunction with those from FRDC 92/42 to complete our objectives. 

To estimate and compare the age composition of catches in each of the major SBT fisheries (Objective 1), we developed several age-length-keys for SBT (Objective 3), and applied them to catch-at-length data to estimate the age composition of catches for each fishing ground/fleet. Two age-length-keys were developed based on samples collected from the Indonesian fishery on the spawning ground (separate key for each of two spawning seasons) and two for SBT caught south of the spawning ground (separate key for each sex). 

Our results show that the distribution of ages within the catches varies significantly among areas and fleets. The Australian summer surface fishery in the GAB was dominated by 2 to 4 year-old SBT, while the Taiwanese winter longline fishery across the central Indian Ocean was dominated by 3 and 4 year-olds. This is consistent with archival tagging work that has shown that juveniles tagged in the GAB in summer undertake annual feeding migrations into the Indian Ocean during winter before returning to the GAB in early spring (Gunn and Block, 2001). Data collected from Taiwanese longliners transhipping in Mauritius show that 3 and 4 year-old SBT are also caught off south-east Africa from November to February, indicating that not all juveniles spend summer in the GAB. Although a few SBT as old as 7 years are caught in the Taiwanese fishery (30-35°S), it appears that adult SBT do not generally forage this far north.

Keywords:  Southern bluefin tuna, age distribution, age-length keys, sexual dimorphism, age-at-first maturity, growth rates, natural mortality.

Fishery-independent estimate of spawning biomass of Southern Bluefin Tuna through identification of close-kin using genetic markers

Project number: 2007-034
Project Status:
Completed
Budget expenditure: $739,660.00
Principal Investigator: Mark Bravington
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 31 Mar 2009 - 29 Sep 2012
:

Need

Management of SBT is greatly complicated by large uncertainties in the stock assessment. One key parameter is absolute spawning stock size, for which the only available estimates are highly uncertain and are driven entirely by fishery-derived data (e.g. Japanese CPUE, catches on the spawning ground). Hence, the management procedures being developed for SBt use relative, rather than absolute, abundance indices. Current concerns about historical over-catch, of uncertain magnitude and duration make the conventional stock aseessment even less certain. A fishery independent estimate of standing stock biomass (SSB) provides both a stand alone benchmark to compare with current catches, and a fixed reference point around which to rebuild future assessments. This cannot be done with current fishery independent approaches, such as conventional tagging. However, recent advances in genetic and statistical methods now permit a fishery-independent estimate, using identification of parent-offspring pairs in random samples of juveniles and spawners. The same approach can also provide information on age-specific fecundity and thus on appropriate definition of SSB (spawning stock biomass). This is another area of significant uncertainty for management because, as noted above, the different definitions of SSB have considerably different implications for stock projections and rebuilding times.

An absolute estimate of spawning stock biomass is particularly valuable given the estimated level of depletion of the SBT stock, and the high uncertainty about the productivity of the stock (i.e. the relationship between the parent stock and recruitment). Although this project will initially aim to provide an estimate of average SSB over 2002-2005, it will ultimately provide the methods to enable a time-series of SSB to be estimated if sampling continues. Furthermore, the statistical methods developed and applied in this project will have general applicability to a range of species.

Objectives

1. To provide a fishery-independent estimate of the number of SBT spawners (preliminary estimate ready for CCSBT 2007
precise estimate ready for CCSBT 2008).
2. To provide direct estimates of age-specific fecundity and an improved definition of spawning stock biomass (estimate for CCSBT 2008)
Environment
PROJECT NUMBER • 2003-002
PROJECT STATUS:
COMPLETED

Spatial interactions among juvenile southern bluefin tuna at the global scale: a large scale archival tag experiment

Results have increased our confidence in the recruitment index based on the aerial survey in the Great Australian Bight (GAB) by confirming that the timing and duration are ideal, that the majority of juvenile SBT are likely to return to the GAB each summer, and that based on current evidence it is...
ORGANISATION:
CSIRO Oceans and Atmosphere Hobart