4 results

What data how? Empowering and engaging industry to ensure the needs of contemporary fisheries data are achieved

Project number: 2014-200
Project Status:
Completed
Budget expenditure: $121,785.00
Principal Investigator: Andrew & Renae Tobin
Organisation: James Cook University (JCU)
Project start/end date: 4 Jun 2014 - 29 Jan 2016
Contact:
FRDC

Need

The proposed project responds to QFRAB Research Priority IV – Improve the relevance and quality of the data collected to underpin effective science based management of Queensland fisheries.

Traditionally fisheries data moved in a single direction, with fishers collecting data that are used by researchers and managers to manage fishers’ activities within sustainable long-term goals. Historically this was a sound system that informed the management of fisheries and enabled the development of suitable management objectives and tools (input and output controls).

A paradigm shift has occurred with contemporary fisheries data being utilised for multiple purposes other than QDAFF core business management and includes conservation objectives (EPBC Act), marine spatial planning, third party accreditation's, impact assessments and resource allocation. Not surprisingly, the quality and relevance of data collected is increasingly being questioned by all stakeholders. Given this notable shift in the interest and demands on fisheries data, it is timely that new and novel data and data collection methods are investigated, and existing systems are reviewed and improved to better meet contemporary needs. Further, increasing distrust of fisheries data by stakeholders is a significant hurdle in monitoring, assessing and managing fisheries. Concerns about the accuracy of commercial logbook data and catch estimates derived from recreational diary and phone surveys persist. Options for empowering all fishery stakeholders in the design of collection methods, data ownership and utility of data beyond core business requirements need to be explored to improve data quality and stewardship, and confidence in assessments/analyses that utilise these data.

Objectives

1. Complete an expertise-based critique of historical fisheries data collection methods evaluating data robustness, identifying data gaps and improvement areas.
2. Identify contemporary and future data needs and develop novel candidate collection methods using the Queensland line and crab fisheries as case studies.
3. From Obj 2 highlight generic data improvements transferable to other fisheries.
4. Complete a cost-benefit review of data collection options.

Final report

ISBN: 978-0-9954470-2-8
Author: Andrew Tobin

Developing a rapid molecular identification technique to improve egg production based fish biomass assessments

Project number: 2014-022
Project Status:
Completed
Budget expenditure: $175,121.21
Principal Investigator: Richard J. Saunders
Organisation: James Cook University (JCU)
Project start/end date: 8 May 2014 - 14 Aug 2017
Contact:
FRDC

Need

Our ability to assess the status of many important fish species is restricted by the inability to accurately estimate their biomass. In addition, the high costs of such surveys mean that they are not conducted for many species within Australia's Fisheries. Ichthyoplankton surveys to determine egg production and biomass (such as through the daily egg production method (DEPM)) offer an effective means to get this information. However, current techniques cannot be applied broadly because many fish have morphologically identical eggs and molecular sequencing is prohibitively expensive and time consuming. These issues were highlighted in the DEPM assessments for blue mackerel and red bait (FRDC 2002/061 & 2004/39) where there was poor success in morphological identification of fish eggs collected in plankton tows. These projects identified the need to develop an accurate, rapid and inexpensive technique for fish eggs identification. This project will assess the suitability of developing this technique with the ultimate aim of conducting icthyoplankton surveys to inform a DEPM for mackerel species (Qld, NT and WA), pilchard and herring species in the developing tropical small pelagics fishery(NT) and black jewfish (NT, WA, Qld). While the development is focused on tropical species the technique will have application in many southern fisheries.
This project was developed under the steerage of the Northern Research Partnership (NRP) and addresses northern Australia priorities around developing better biomass estimation methods for Spanish/grey mackerel and for the new multi-species small pelagic and Coastal Line Fisheries in the NT.

Objectives

1. To develop a novel high-throughput, low cost DNA-based egg identification method for important fish species in northern Australia.
2. To assess the application of the technology developed for use in the daily egg production method (DEPM) for biomass estimation.

Final report

ISBN: 978-0-6485037-0-5
Authors: Richard J. Saunders Shannon Kjeldsen Roger Huerlimann Thor Saunders Shane Penny Andrew Tobin and Dean Jerry
Final Report • 2019-12-01 • 2.27 MB
2014-022-DLD.pdf

Summary

This project aimed to develop a rapid and affordable molecular method to identify fish eggs from plankton samples. The method selected was a multiplex bead array method where species-specific probes are developed and bound to beads which fluoresce when passed through a flow cytometer if bound to the target species DNA. This allows for identification of multiple species at one time as different probe-bead combinations can be used to identify different fish species. Furthermore, as molecular methods usually require preservation in ethanol which causes problems of egg staging, a critical component in modelling egg mortality and thus initial egg abundance, we also considered the impact of preservation method on egg staging and on DNA amplification.
 
The method was able to identify eggs of several target species from wild collected plankton samples (confirmed by sequencing) with success rates varying between species from 50 to 100% identification success. We identified a series of issues that potentially limit the application of this method in the context of DEPM and egg identification. The principal issues were reliability of the chemistry and identified false negative results resultant from preservation of DNA. DNA amplification and egg staging were both impacted by preservation method with the best preservation method for egg staging being 5% formalin, however, this was the worst performer for DNA amplification. An ethanol based preservation method is essential for DNA based identification and this also allows for some egg staging, although egg staging prior to the presence of an embryo is very challenging, even for an experienced technician.

Utilising innovative technology to better understand Spanish mackerel spawning aggregations and the protection offered by marine protected areas

Project number: 2010-007
Project Status:
Completed
Budget expenditure: $307,132.15
Principal Investigator: Andrew & Renae Tobin
Organisation: James Cook University (JCU)
Project start/end date: 30 Jun 2010 - 29 Jun 2013
Contact:
FRDC

Need

Though Queensland east coast Spanish mackerel spawning aggregations are highly predictable in both space and time, little is known about the impacts of the sustained fishing pressure these aggregations receive annually. Common anecdote from long-term commercial fishers reports a steady contraction of both the spatial and temporal extent of aggregations over the last decade. Further, in response to these concerns, DEWHA recommended that QPI&F consider protecting spawning aggregations of Spanish mackerel through spatial and/or temporal closures. The need to better understand Spanish mackerel spawning aggregations, and the potential effects of sustained fishing pressure has another two important bases. Firstly, the most recent 2008 fishery assessment reports the fishery is fully exploited at current harvest rates and steps should be taken to re-build stocks; and secondly, the commercial fishing sector (and to a lesser extent the recreational fishing sector) currently incorporates a large component of potential effort and harvest in the form of under utilized quota.

The potential conservation benefits of the recently expanded Marine Protected Area network within Queensland waters to Spanish mackerel spawning aggregations has yet to be quantified. Given the precarious status of this fishery, it is now mandatory to quantitatively assess the efficacy of the current reef zoning that overlay the primary spawning reefs northeast of Townsville in offering protection to vulnerable spawning aggregations. This project will address the need to better understand movement and residency behaviours by providing modeling outputs to measure and predict the benefits that may be derived by the current MPA network. The project will further expand this need by advising on the potential abilities of expanded spatial and / or temporal closures for additional Spanish mackerel protection that may be required for effective management.

Objectives

1. Document and describe temporal and spatial trends of spawning aggregations throughout the recent history of the fishery.
2. Quantify the potential benefits of marine protected areas to spawning aggregations
3. Conduct an MSE to quantify the benefit(s) of spatial and / or temporal closures as management options for Spanish mackerel.

Exploitation dynamics and biological characteristics of east coast Spanish mackerel harvested by the recreational and commercial sectors

Project number: 2001-019
Project Status:
Completed
Budget expenditure: $163,634.00
Principal Investigator: Andrew & Renae Tobin
Organisation: James Cook University (JCU)
Project start/end date: 28 Aug 2001 - 30 Jan 2004
Contact:
FRDC

Need

Recent concern regarding the status of east coast Spanish mackerel has been expressed by both commercial and recreational sectors and fisheries biologists. Further, an assessment of the stock status of east coast Spanish mackerel is a very high priority of resource managers. A recent preliminary assessment of the east coast mackerel stock conducted by QDPI suggested high fishing pressure maybe at a limit reference point for the stock. To refine the current assessment and allow for greater certainty of future stock assessment, more fish age data combined with an extensive description of the exploitation dynamics (the methods and gears used by fishers) of the east coast stock are urgently required. A critical need exists for the documentation of the exploitation dynamics and biological characteristics (catch-at-age, catch-at-length and sex ratios) of both the recreational and commercial sectors for the major catch regions of the entire east coast where no data are currently available.

Stock assessment of Queensland Spanish mackerel is core business of the QDPI long-term monitoring program. The opportunity to collaborate and build upon this initiative of QDPI is now available. The data collected by this project collaborated with that of the long-term monitoring project would allow the age data required for stock assessment to be provided with greater certainty. Further, this project will provide data that will expand the current understanding of the exploitation dynamics of the east coast stock. Combining these project outputs with the current knowledge base will allow resource managers to proceed with changes to the current management regime, where they are required, with greater confidence than is currently available.

Objectives

1. Identify the biological characteristics (catch-at-age, catch-at-length and sex ratios) of both recreational and commercial sectors harvesting Spanish mackerel from six distinct regions on Queensland east coast.
2. Compare the biological characteristics of harvested mackerel between sectors and regions.
3. Assess effectiveness of current minimum legal size and level of latent effort present in current recreational bag limits. Advice will be issued to management where applicable.

Final report

ISBN: 1-876054-83-2
Author: Andrew Tobin