77,994 results

Direct age determination with validation for commercially important Australian lobster and crab species (western, eastern, southern and ornate rock lobsters, and crystal, Tasmanian giant and mud crabs)

Project number: 2014-011
Project Status:
Completed
Budget expenditure: $279,927.16
Principal Investigator: Jesse Leland
Organisation: Southern Cross University (SCU) Lismore Campus
Project start/end date: 30 Jun 2014 - 22 Jul 2016
Contact:
FRDC

Need

Australia’s crustacean fisheries generate over a billion dollars annually. Age information is necessary for calculating growth, mortality, recruitment and productivity, and is a critical component for any sustainable fisheries management plan. Until recently, direct age determination was considered impossible for crustaceans and only indirect methods existed (e.g. size frequency distributions). However, recent publications (Leland et al., 2011; Kilada et al., 2012) have rejected this paradigm and demonstrated that direct age determination of crustaceans is possible. Clear growth marks have been identified in ossicles from several key Australian species – e.g. western rock lobster (de Lestang, unpublished data), redclaw crayfish and mud crab (Leland et al., 2011; Leland et al., in prep). This project is needed to produce validated ages for mostly long-lived slow-growing species, across their full size range and in climatic regions other than the cool temperate conditions assessed previously. Validated age information will facilitate the sustainable management of Australia’s crustacean fisheries.

This project aligns with three FRDC Strategic Priority Areas: Theme 4 (Ecologically sustainable development), Theme 13 (Innovation skills) and Theme 14 (Extension and Adoption). All FRDC stakeholders will benefit by: i) ensuring the sustainable management of Australia’s relevant crustacean fisheries (e.g. through improved growth modelling and age-based stock assessments), ii) improving knowledge of key biological attributes (i.e. age and growth), iii) developing a national network of Australian fisheries and academic scientists capable of applying innovative crustacean age validation methods, iv) achieving change in crustacean fisheries management, while v) improving social license and vi) reducing uncertainty.

Objectives

1. to validate growth mark periodicity for western and eastern rock lobsters and crystal crab by vital staining and long-term grow-out
2. to determine absolute age and longevity for western, southern, eastern and ornate rock lobsters, Tasmanian giant, crystal and mud crabs -- validated with laser ablation induction-coupled plasma mass spectroscopy (LA-ICPMS)
3. to assess the relationship between estimated age and size and the appropriateness of existing growth models for western and eastern rock lobster
4. to establish a network of Australian government and academic fisheries researchers who can consistently apply direct ageing methods to decapod crustaceans

Final report

ISBN: 978-0-646-95784-5
Author: Jesse Leland
Final Report • 2017-11-04 • 3.46 MB
2014-011-DLD.pdf

Summary

This research project was undertaken by a national collaboration of government and academic scientists representing key Australian crustacean fisheries.  The collaborating institutions were the: Marine Ecology Research Centre – Southern Cross University, Department of Fisheries Western Australia, Institute for Marine and Antarctic Studies – University of Tasmania, New South Wales Department of Primary Industries – Fisheries, Northern Territory Department of Primary Industry and Fisheries, South Australian Research and Development Institute and James Cook University.  The project was initiated in response to the need for validated age information for crustacean fisheries management.  We applied a novel direct age-determination method to seven commercially important Australian crustaceans sourced from tropical to temperate habitats, shallow to deep water and including both short- and long-lived species.  Similar to fish ageing, the direct ageing method applied here involves cross-sectioning gastric ossicles (i.e. semi-calcified structures within the stomach) to enable the extraction of a chronological record (i.e. by counting growth marks) for subsequent growth modelling.  For the first time, we have demonstrated the widespread applicability of direct ageing to Australian crustaceans and validated that ossicular growth marks in Western, Eastern and Ornate Rock Lobster and Crystal Crab ossicles are deposited annually.  Validation of the direct ageing method, allowed for the construction of the world’s first directly determined growth models for any Rock Lobster, with most comparisons to existing indirect estimates corroborating annual periodicity.

Background
The ability to procure accurate age information is important for any sustainable fisheries management plan.  Age information underpins growth and productivity estimates and also informs the selection of input control regulations (e.g. minimum legal size).  For many fin fish and invertebrate species, age determination is relatively straightforward and involves counting growth increments in calcified structures.  Because crustaceans grow via consecutive moult events, it was always presumed that their hard parts could not retain a chronological growth record and fisheries scientist have relied solely on less-accurate indirect methods (e.g. tag-and-recapture) that infer age.  However, recent studies have demonstrated that crustacean ossicles contain growth marks that can be used for direct age determination, but species-specific periodicity validation (i.e. proof of accuracy) is needed before widespread use of the method occurs.  The need for a validated direct ageing method for crustaceans was recognised throughout Australia and resulted in this project being strongly supported by relevant industry bodies, state government fisheries departments and academic institutions.  Although indirect techniques provide useful information, a validated direct ageing method is highly desirable and could substantially increase the resolution of age-related data for crustacean fisheries management in Australia.

The objectives of this research project were to:

  1. assess the relationship between estimated age and size, compared with existing growth models for Western and Eastern Rock Lobster,
  2. evaluate growth mark periodicity for Western and Eastern Rock Lobster and Crystal Crab by vital staining and long-term grow-out,
  3. investigate the applicability of direct ageing methods to other commercially important crustaceans (Western, Eastern, Southern and Ornate Rock Lobsters and Giant, Crystal and Mud Crabs) – validated with laser ablation induction-coupled plasma mass spectroscopy and known-age individuals and
  4. establish a network of Australian government and academic fisheries researchers that can consistently apply direct ageing methods to decapod crustaceans.

Key findings
For Western and Eastern Rock Lobster, sectioned ossicles contain regular primary growth marks that are positively correlated with body size.  Ossicular growth mark counts were converted to age estimates and used to generate von Bertalanffy growth models that were not significantly different to those from comparable tag-and-recapture studies.  For Western Rock Lobster, the directly determined ages closely agreed with indirect longevity estimates and the age at fishery-specific milestones (i.e. minimum legal size and size-at-sexual maturity), with the relationship between direct and indirect age (i.e. derived from both wild-caught and known-age individuals) being approximately 1:1 and providing strong corroborative support for annual periodicity.  For Eastern Rock Lobster, the directly determined putative ages broadly agreed with indirect maximum longevity estimates, but yielded consistently older ages at fishery-specific milestones (i.e. minimum legal size, size-at-sexual maturity and maximum legal size), with the relationship between direct and indirect age estimates for some locations being approximately 1:1 (i.e. providing support for annual periodicity), but for others it was markedly different (i.e. for Jervis Bay and some Coffs Harbour individuals). 

For Crystal Crab, there was ossicular extension during the 18 month grow-out, with primary growth mark formation occurring during the inter-moult.  Irrespective of the sampling period, most Crystal Crab deposited one new-formed primary growth mark (n = 12) during the grow-out.  For Western Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 18 month grow-out.  For Eastern Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 12 month grow-out.  For both rock lobster species, there were other ossicles that had material deposited beyond the calcein stain, but were without an identifiable growth mark.  For all species, the common outcome of the periodicity evaluation was that a single new growth mark was deposited during the grow-out, indicating that the primary marks are deposited annually.

The direct ageing method was readily applied to Ornate Rock Lobster, Southern Rock Lobster, Mud Crab and Crystal Crab ossicles.  Giant Crab (n = 3 individuals) ossicles contained some primary growth marks, but complete counts were not possible.  For Ornate Rock Lobster (n = 5) and Southern Rock Lobster (n = 5), the direct ageing method allowed for the rapid estimation of preliminary von Bertalanffy growth parameters that were not significantly different to those derived from tag-and-recapture studies at the same location.    Some LA-ICPMS results (e.g. for Mud Crab and Western and Eastern Rock Lobster) could be interpreted as supporting annual periodicity, but emerging uncertainties around ossicular decalcification and potential re-deposition of mineral features precluded a positive validation outcome.  The direct ageing method was also validated by the use of known-age Ornate Rock Lobster (n = 13) and Western Rock Lobster (n = 3).

Implications
The immediate impact from this project will be jurisdiction- and species-specific, because each state fisheries department has different needs, priorities and validation expectations.  However, the ability to directly determine (i.e. and validate) crustacean age provides another tool for fisheries scientists to enhance the resolution of current growth models, while decreasing research costs.  Validation of the ageing method for Western, Eastern and Ornate Rock Lobster and Crystal Crab also opens the way for preliminary trials using the technique in stock assessments.  Further, the validated technique will allow for rapid location-specific growth assessments and more accurate longevity estimates.  This will be particularly important for long-lived species that present difficulties for tagging studies (e.g. Crystal Crab and Tasmanian Southern Rock Lobster) and would be useful for securing fishery sustainability certifications (e.g. Marine Stewardship Council).  For shorter-lived species (e.g. Ornate Rock Lobster and Mud Crab), direct ageing could improve the assessment of population dynamics.  The financial gains are difficult to quantify, but even a 1% improvement in decision making, and/or decrease in research costs (i.e. across multiple valuable fisheries), would equate to a substantial return of investment from this project.  Such gains will translate into improved sustainability among Australia’s crustacean fisheries, with flow-on benefits to the relevant fishing industry and across other sectors.

Recommendations
The broad-ranging nature (i.e. in terms of species and fisheries jurisdictions) of this project made definitive recommendations difficult.  However, further species-specific research should: i) validate periodicity across the entire age range, ii) determine the age at first growth mark formation and iii) assess ageing accuracy.  Concurrent studies trialling the direct ageing method during ongoing stock monitoring programs would be beneficial.  This would allow for direct methodological comparison and growth model construction for the exact same location(s) and temporal period.  For some species (e.g. Eastern Rock Lobster), the direct ageing method should be used to assess the potential for location-specific differences in growth.  Application of the direct method to Crystal Crab is needed to provide the first solid (i.e. non-preliminary) assessment of growth and longevity for this species.  Such research should encompass the relevant priorities for further development, particularly the requirement for concurrent species-specific precision assessments.  The provision of this report to the relevant state fisheries departments is expected to initiate further jurisdiction- and stock-specific recommendations that will form the basis for further research and development applications.

Final Report • 2017-11-04 • 3.46 MB
2014-011-DLD.pdf

Summary

This research project was undertaken by a national collaboration of government and academic scientists representing key Australian crustacean fisheries.  The collaborating institutions were the: Marine Ecology Research Centre – Southern Cross University, Department of Fisheries Western Australia, Institute for Marine and Antarctic Studies – University of Tasmania, New South Wales Department of Primary Industries – Fisheries, Northern Territory Department of Primary Industry and Fisheries, South Australian Research and Development Institute and James Cook University.  The project was initiated in response to the need for validated age information for crustacean fisheries management.  We applied a novel direct age-determination method to seven commercially important Australian crustaceans sourced from tropical to temperate habitats, shallow to deep water and including both short- and long-lived species.  Similar to fish ageing, the direct ageing method applied here involves cross-sectioning gastric ossicles (i.e. semi-calcified structures within the stomach) to enable the extraction of a chronological record (i.e. by counting growth marks) for subsequent growth modelling.  For the first time, we have demonstrated the widespread applicability of direct ageing to Australian crustaceans and validated that ossicular growth marks in Western, Eastern and Ornate Rock Lobster and Crystal Crab ossicles are deposited annually.  Validation of the direct ageing method, allowed for the construction of the world’s first directly determined growth models for any Rock Lobster, with most comparisons to existing indirect estimates corroborating annual periodicity.

Background
The ability to procure accurate age information is important for any sustainable fisheries management plan.  Age information underpins growth and productivity estimates and also informs the selection of input control regulations (e.g. minimum legal size).  For many fin fish and invertebrate species, age determination is relatively straightforward and involves counting growth increments in calcified structures.  Because crustaceans grow via consecutive moult events, it was always presumed that their hard parts could not retain a chronological growth record and fisheries scientist have relied solely on less-accurate indirect methods (e.g. tag-and-recapture) that infer age.  However, recent studies have demonstrated that crustacean ossicles contain growth marks that can be used for direct age determination, but species-specific periodicity validation (i.e. proof of accuracy) is needed before widespread use of the method occurs.  The need for a validated direct ageing method for crustaceans was recognised throughout Australia and resulted in this project being strongly supported by relevant industry bodies, state government fisheries departments and academic institutions.  Although indirect techniques provide useful information, a validated direct ageing method is highly desirable and could substantially increase the resolution of age-related data for crustacean fisheries management in Australia.

The objectives of this research project were to:

  1. assess the relationship between estimated age and size, compared with existing growth models for Western and Eastern Rock Lobster,
  2. evaluate growth mark periodicity for Western and Eastern Rock Lobster and Crystal Crab by vital staining and long-term grow-out,
  3. investigate the applicability of direct ageing methods to other commercially important crustaceans (Western, Eastern, Southern and Ornate Rock Lobsters and Giant, Crystal and Mud Crabs) – validated with laser ablation induction-coupled plasma mass spectroscopy and known-age individuals and
  4. establish a network of Australian government and academic fisheries researchers that can consistently apply direct ageing methods to decapod crustaceans.

Key findings
For Western and Eastern Rock Lobster, sectioned ossicles contain regular primary growth marks that are positively correlated with body size.  Ossicular growth mark counts were converted to age estimates and used to generate von Bertalanffy growth models that were not significantly different to those from comparable tag-and-recapture studies.  For Western Rock Lobster, the directly determined ages closely agreed with indirect longevity estimates and the age at fishery-specific milestones (i.e. minimum legal size and size-at-sexual maturity), with the relationship between direct and indirect age (i.e. derived from both wild-caught and known-age individuals) being approximately 1:1 and providing strong corroborative support for annual periodicity.  For Eastern Rock Lobster, the directly determined putative ages broadly agreed with indirect maximum longevity estimates, but yielded consistently older ages at fishery-specific milestones (i.e. minimum legal size, size-at-sexual maturity and maximum legal size), with the relationship between direct and indirect age estimates for some locations being approximately 1:1 (i.e. providing support for annual periodicity), but for others it was markedly different (i.e. for Jervis Bay and some Coffs Harbour individuals). 

For Crystal Crab, there was ossicular extension during the 18 month grow-out, with primary growth mark formation occurring during the inter-moult.  Irrespective of the sampling period, most Crystal Crab deposited one new-formed primary growth mark (n = 12) during the grow-out.  For Western Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 18 month grow-out.  For Eastern Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 12 month grow-out.  For both rock lobster species, there were other ossicles that had material deposited beyond the calcein stain, but were without an identifiable growth mark.  For all species, the common outcome of the periodicity evaluation was that a single new growth mark was deposited during the grow-out, indicating that the primary marks are deposited annually.

The direct ageing method was readily applied to Ornate Rock Lobster, Southern Rock Lobster, Mud Crab and Crystal Crab ossicles.  Giant Crab (n = 3 individuals) ossicles contained some primary growth marks, but complete counts were not possible.  For Ornate Rock Lobster (n = 5) and Southern Rock Lobster (n = 5), the direct ageing method allowed for the rapid estimation of preliminary von Bertalanffy growth parameters that were not significantly different to those derived from tag-and-recapture studies at the same location.    Some LA-ICPMS results (e.g. for Mud Crab and Western and Eastern Rock Lobster) could be interpreted as supporting annual periodicity, but emerging uncertainties around ossicular decalcification and potential re-deposition of mineral features precluded a positive validation outcome.  The direct ageing method was also validated by the use of known-age Ornate Rock Lobster (n = 13) and Western Rock Lobster (n = 3).

Implications
The immediate impact from this project will be jurisdiction- and species-specific, because each state fisheries department has different needs, priorities and validation expectations.  However, the ability to directly determine (i.e. and validate) crustacean age provides another tool for fisheries scientists to enhance the resolution of current growth models, while decreasing research costs.  Validation of the ageing method for Western, Eastern and Ornate Rock Lobster and Crystal Crab also opens the way for preliminary trials using the technique in stock assessments.  Further, the validated technique will allow for rapid location-specific growth assessments and more accurate longevity estimates.  This will be particularly important for long-lived species that present difficulties for tagging studies (e.g. Crystal Crab and Tasmanian Southern Rock Lobster) and would be useful for securing fishery sustainability certifications (e.g. Marine Stewardship Council).  For shorter-lived species (e.g. Ornate Rock Lobster and Mud Crab), direct ageing could improve the assessment of population dynamics.  The financial gains are difficult to quantify, but even a 1% improvement in decision making, and/or decrease in research costs (i.e. across multiple valuable fisheries), would equate to a substantial return of investment from this project.  Such gains will translate into improved sustainability among Australia’s crustacean fisheries, with flow-on benefits to the relevant fishing industry and across other sectors.

Recommendations
The broad-ranging nature (i.e. in terms of species and fisheries jurisdictions) of this project made definitive recommendations difficult.  However, further species-specific research should: i) validate periodicity across the entire age range, ii) determine the age at first growth mark formation and iii) assess ageing accuracy.  Concurrent studies trialling the direct ageing method during ongoing stock monitoring programs would be beneficial.  This would allow for direct methodological comparison and growth model construction for the exact same location(s) and temporal period.  For some species (e.g. Eastern Rock Lobster), the direct ageing method should be used to assess the potential for location-specific differences in growth.  Application of the direct method to Crystal Crab is needed to provide the first solid (i.e. non-preliminary) assessment of growth and longevity for this species.  Such research should encompass the relevant priorities for further development, particularly the requirement for concurrent species-specific precision assessments.  The provision of this report to the relevant state fisheries departments is expected to initiate further jurisdiction- and stock-specific recommendations that will form the basis for further research and development applications.

Final Report • 2017-11-04 • 3.46 MB
2014-011-DLD.pdf

Summary

This research project was undertaken by a national collaboration of government and academic scientists representing key Australian crustacean fisheries.  The collaborating institutions were the: Marine Ecology Research Centre – Southern Cross University, Department of Fisheries Western Australia, Institute for Marine and Antarctic Studies – University of Tasmania, New South Wales Department of Primary Industries – Fisheries, Northern Territory Department of Primary Industry and Fisheries, South Australian Research and Development Institute and James Cook University.  The project was initiated in response to the need for validated age information for crustacean fisheries management.  We applied a novel direct age-determination method to seven commercially important Australian crustaceans sourced from tropical to temperate habitats, shallow to deep water and including both short- and long-lived species.  Similar to fish ageing, the direct ageing method applied here involves cross-sectioning gastric ossicles (i.e. semi-calcified structures within the stomach) to enable the extraction of a chronological record (i.e. by counting growth marks) for subsequent growth modelling.  For the first time, we have demonstrated the widespread applicability of direct ageing to Australian crustaceans and validated that ossicular growth marks in Western, Eastern and Ornate Rock Lobster and Crystal Crab ossicles are deposited annually.  Validation of the direct ageing method, allowed for the construction of the world’s first directly determined growth models for any Rock Lobster, with most comparisons to existing indirect estimates corroborating annual periodicity.

Background
The ability to procure accurate age information is important for any sustainable fisheries management plan.  Age information underpins growth and productivity estimates and also informs the selection of input control regulations (e.g. minimum legal size).  For many fin fish and invertebrate species, age determination is relatively straightforward and involves counting growth increments in calcified structures.  Because crustaceans grow via consecutive moult events, it was always presumed that their hard parts could not retain a chronological growth record and fisheries scientist have relied solely on less-accurate indirect methods (e.g. tag-and-recapture) that infer age.  However, recent studies have demonstrated that crustacean ossicles contain growth marks that can be used for direct age determination, but species-specific periodicity validation (i.e. proof of accuracy) is needed before widespread use of the method occurs.  The need for a validated direct ageing method for crustaceans was recognised throughout Australia and resulted in this project being strongly supported by relevant industry bodies, state government fisheries departments and academic institutions.  Although indirect techniques provide useful information, a validated direct ageing method is highly desirable and could substantially increase the resolution of age-related data for crustacean fisheries management in Australia.

The objectives of this research project were to:

  1. assess the relationship between estimated age and size, compared with existing growth models for Western and Eastern Rock Lobster,
  2. evaluate growth mark periodicity for Western and Eastern Rock Lobster and Crystal Crab by vital staining and long-term grow-out,
  3. investigate the applicability of direct ageing methods to other commercially important crustaceans (Western, Eastern, Southern and Ornate Rock Lobsters and Giant, Crystal and Mud Crabs) – validated with laser ablation induction-coupled plasma mass spectroscopy and known-age individuals and
  4. establish a network of Australian government and academic fisheries researchers that can consistently apply direct ageing methods to decapod crustaceans.

Key findings
For Western and Eastern Rock Lobster, sectioned ossicles contain regular primary growth marks that are positively correlated with body size.  Ossicular growth mark counts were converted to age estimates and used to generate von Bertalanffy growth models that were not significantly different to those from comparable tag-and-recapture studies.  For Western Rock Lobster, the directly determined ages closely agreed with indirect longevity estimates and the age at fishery-specific milestones (i.e. minimum legal size and size-at-sexual maturity), with the relationship between direct and indirect age (i.e. derived from both wild-caught and known-age individuals) being approximately 1:1 and providing strong corroborative support for annual periodicity.  For Eastern Rock Lobster, the directly determined putative ages broadly agreed with indirect maximum longevity estimates, but yielded consistently older ages at fishery-specific milestones (i.e. minimum legal size, size-at-sexual maturity and maximum legal size), with the relationship between direct and indirect age estimates for some locations being approximately 1:1 (i.e. providing support for annual periodicity), but for others it was markedly different (i.e. for Jervis Bay and some Coffs Harbour individuals). 

For Crystal Crab, there was ossicular extension during the 18 month grow-out, with primary growth mark formation occurring during the inter-moult.  Irrespective of the sampling period, most Crystal Crab deposited one new-formed primary growth mark (n = 12) during the grow-out.  For Western Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 18 month grow-out.  For Eastern Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 12 month grow-out.  For both rock lobster species, there were other ossicles that had material deposited beyond the calcein stain, but were without an identifiable growth mark.  For all species, the common outcome of the periodicity evaluation was that a single new growth mark was deposited during the grow-out, indicating that the primary marks are deposited annually.

The direct ageing method was readily applied to Ornate Rock Lobster, Southern Rock Lobster, Mud Crab and Crystal Crab ossicles.  Giant Crab (n = 3 individuals) ossicles contained some primary growth marks, but complete counts were not possible.  For Ornate Rock Lobster (n = 5) and Southern Rock Lobster (n = 5), the direct ageing method allowed for the rapid estimation of preliminary von Bertalanffy growth parameters that were not significantly different to those derived from tag-and-recapture studies at the same location.    Some LA-ICPMS results (e.g. for Mud Crab and Western and Eastern Rock Lobster) could be interpreted as supporting annual periodicity, but emerging uncertainties around ossicular decalcification and potential re-deposition of mineral features precluded a positive validation outcome.  The direct ageing method was also validated by the use of known-age Ornate Rock Lobster (n = 13) and Western Rock Lobster (n = 3).

Implications
The immediate impact from this project will be jurisdiction- and species-specific, because each state fisheries department has different needs, priorities and validation expectations.  However, the ability to directly determine (i.e. and validate) crustacean age provides another tool for fisheries scientists to enhance the resolution of current growth models, while decreasing research costs.  Validation of the ageing method for Western, Eastern and Ornate Rock Lobster and Crystal Crab also opens the way for preliminary trials using the technique in stock assessments.  Further, the validated technique will allow for rapid location-specific growth assessments and more accurate longevity estimates.  This will be particularly important for long-lived species that present difficulties for tagging studies (e.g. Crystal Crab and Tasmanian Southern Rock Lobster) and would be useful for securing fishery sustainability certifications (e.g. Marine Stewardship Council).  For shorter-lived species (e.g. Ornate Rock Lobster and Mud Crab), direct ageing could improve the assessment of population dynamics.  The financial gains are difficult to quantify, but even a 1% improvement in decision making, and/or decrease in research costs (i.e. across multiple valuable fisheries), would equate to a substantial return of investment from this project.  Such gains will translate into improved sustainability among Australia’s crustacean fisheries, with flow-on benefits to the relevant fishing industry and across other sectors.

Recommendations
The broad-ranging nature (i.e. in terms of species and fisheries jurisdictions) of this project made definitive recommendations difficult.  However, further species-specific research should: i) validate periodicity across the entire age range, ii) determine the age at first growth mark formation and iii) assess ageing accuracy.  Concurrent studies trialling the direct ageing method during ongoing stock monitoring programs would be beneficial.  This would allow for direct methodological comparison and growth model construction for the exact same location(s) and temporal period.  For some species (e.g. Eastern Rock Lobster), the direct ageing method should be used to assess the potential for location-specific differences in growth.  Application of the direct method to Crystal Crab is needed to provide the first solid (i.e. non-preliminary) assessment of growth and longevity for this species.  Such research should encompass the relevant priorities for further development, particularly the requirement for concurrent species-specific precision assessments.  The provision of this report to the relevant state fisheries departments is expected to initiate further jurisdiction- and stock-specific recommendations that will form the basis for further research and development applications.

Final Report • 2017-11-04 • 3.46 MB
2014-011-DLD.pdf

Summary

This research project was undertaken by a national collaboration of government and academic scientists representing key Australian crustacean fisheries.  The collaborating institutions were the: Marine Ecology Research Centre – Southern Cross University, Department of Fisheries Western Australia, Institute for Marine and Antarctic Studies – University of Tasmania, New South Wales Department of Primary Industries – Fisheries, Northern Territory Department of Primary Industry and Fisheries, South Australian Research and Development Institute and James Cook University.  The project was initiated in response to the need for validated age information for crustacean fisheries management.  We applied a novel direct age-determination method to seven commercially important Australian crustaceans sourced from tropical to temperate habitats, shallow to deep water and including both short- and long-lived species.  Similar to fish ageing, the direct ageing method applied here involves cross-sectioning gastric ossicles (i.e. semi-calcified structures within the stomach) to enable the extraction of a chronological record (i.e. by counting growth marks) for subsequent growth modelling.  For the first time, we have demonstrated the widespread applicability of direct ageing to Australian crustaceans and validated that ossicular growth marks in Western, Eastern and Ornate Rock Lobster and Crystal Crab ossicles are deposited annually.  Validation of the direct ageing method, allowed for the construction of the world’s first directly determined growth models for any Rock Lobster, with most comparisons to existing indirect estimates corroborating annual periodicity.

Background
The ability to procure accurate age information is important for any sustainable fisheries management plan.  Age information underpins growth and productivity estimates and also informs the selection of input control regulations (e.g. minimum legal size).  For many fin fish and invertebrate species, age determination is relatively straightforward and involves counting growth increments in calcified structures.  Because crustaceans grow via consecutive moult events, it was always presumed that their hard parts could not retain a chronological growth record and fisheries scientist have relied solely on less-accurate indirect methods (e.g. tag-and-recapture) that infer age.  However, recent studies have demonstrated that crustacean ossicles contain growth marks that can be used for direct age determination, but species-specific periodicity validation (i.e. proof of accuracy) is needed before widespread use of the method occurs.  The need for a validated direct ageing method for crustaceans was recognised throughout Australia and resulted in this project being strongly supported by relevant industry bodies, state government fisheries departments and academic institutions.  Although indirect techniques provide useful information, a validated direct ageing method is highly desirable and could substantially increase the resolution of age-related data for crustacean fisheries management in Australia.

The objectives of this research project were to:

  1. assess the relationship between estimated age and size, compared with existing growth models for Western and Eastern Rock Lobster,
  2. evaluate growth mark periodicity for Western and Eastern Rock Lobster and Crystal Crab by vital staining and long-term grow-out,
  3. investigate the applicability of direct ageing methods to other commercially important crustaceans (Western, Eastern, Southern and Ornate Rock Lobsters and Giant, Crystal and Mud Crabs) – validated with laser ablation induction-coupled plasma mass spectroscopy and known-age individuals and
  4. establish a network of Australian government and academic fisheries researchers that can consistently apply direct ageing methods to decapod crustaceans.

Key findings
For Western and Eastern Rock Lobster, sectioned ossicles contain regular primary growth marks that are positively correlated with body size.  Ossicular growth mark counts were converted to age estimates and used to generate von Bertalanffy growth models that were not significantly different to those from comparable tag-and-recapture studies.  For Western Rock Lobster, the directly determined ages closely agreed with indirect longevity estimates and the age at fishery-specific milestones (i.e. minimum legal size and size-at-sexual maturity), with the relationship between direct and indirect age (i.e. derived from both wild-caught and known-age individuals) being approximately 1:1 and providing strong corroborative support for annual periodicity.  For Eastern Rock Lobster, the directly determined putative ages broadly agreed with indirect maximum longevity estimates, but yielded consistently older ages at fishery-specific milestones (i.e. minimum legal size, size-at-sexual maturity and maximum legal size), with the relationship between direct and indirect age estimates for some locations being approximately 1:1 (i.e. providing support for annual periodicity), but for others it was markedly different (i.e. for Jervis Bay and some Coffs Harbour individuals). 

For Crystal Crab, there was ossicular extension during the 18 month grow-out, with primary growth mark formation occurring during the inter-moult.  Irrespective of the sampling period, most Crystal Crab deposited one new-formed primary growth mark (n = 12) during the grow-out.  For Western Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 18 month grow-out.  For Eastern Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 12 month grow-out.  For both rock lobster species, there were other ossicles that had material deposited beyond the calcein stain, but were without an identifiable growth mark.  For all species, the common outcome of the periodicity evaluation was that a single new growth mark was deposited during the grow-out, indicating that the primary marks are deposited annually.

The direct ageing method was readily applied to Ornate Rock Lobster, Southern Rock Lobster, Mud Crab and Crystal Crab ossicles.  Giant Crab (n = 3 individuals) ossicles contained some primary growth marks, but complete counts were not possible.  For Ornate Rock Lobster (n = 5) and Southern Rock Lobster (n = 5), the direct ageing method allowed for the rapid estimation of preliminary von Bertalanffy growth parameters that were not significantly different to those derived from tag-and-recapture studies at the same location.    Some LA-ICPMS results (e.g. for Mud Crab and Western and Eastern Rock Lobster) could be interpreted as supporting annual periodicity, but emerging uncertainties around ossicular decalcification and potential re-deposition of mineral features precluded a positive validation outcome.  The direct ageing method was also validated by the use of known-age Ornate Rock Lobster (n = 13) and Western Rock Lobster (n = 3).

Implications
The immediate impact from this project will be jurisdiction- and species-specific, because each state fisheries department has different needs, priorities and validation expectations.  However, the ability to directly determine (i.e. and validate) crustacean age provides another tool for fisheries scientists to enhance the resolution of current growth models, while decreasing research costs.  Validation of the ageing method for Western, Eastern and Ornate Rock Lobster and Crystal Crab also opens the way for preliminary trials using the technique in stock assessments.  Further, the validated technique will allow for rapid location-specific growth assessments and more accurate longevity estimates.  This will be particularly important for long-lived species that present difficulties for tagging studies (e.g. Crystal Crab and Tasmanian Southern Rock Lobster) and would be useful for securing fishery sustainability certifications (e.g. Marine Stewardship Council).  For shorter-lived species (e.g. Ornate Rock Lobster and Mud Crab), direct ageing could improve the assessment of population dynamics.  The financial gains are difficult to quantify, but even a 1% improvement in decision making, and/or decrease in research costs (i.e. across multiple valuable fisheries), would equate to a substantial return of investment from this project.  Such gains will translate into improved sustainability among Australia’s crustacean fisheries, with flow-on benefits to the relevant fishing industry and across other sectors.

Recommendations
The broad-ranging nature (i.e. in terms of species and fisheries jurisdictions) of this project made definitive recommendations difficult.  However, further species-specific research should: i) validate periodicity across the entire age range, ii) determine the age at first growth mark formation and iii) assess ageing accuracy.  Concurrent studies trialling the direct ageing method during ongoing stock monitoring programs would be beneficial.  This would allow for direct methodological comparison and growth model construction for the exact same location(s) and temporal period.  For some species (e.g. Eastern Rock Lobster), the direct ageing method should be used to assess the potential for location-specific differences in growth.  Application of the direct method to Crystal Crab is needed to provide the first solid (i.e. non-preliminary) assessment of growth and longevity for this species.  Such research should encompass the relevant priorities for further development, particularly the requirement for concurrent species-specific precision assessments.  The provision of this report to the relevant state fisheries departments is expected to initiate further jurisdiction- and stock-specific recommendations that will form the basis for further research and development applications.

Final Report • 2017-11-04 • 3.46 MB
2014-011-DLD.pdf

Summary

This research project was undertaken by a national collaboration of government and academic scientists representing key Australian crustacean fisheries.  The collaborating institutions were the: Marine Ecology Research Centre – Southern Cross University, Department of Fisheries Western Australia, Institute for Marine and Antarctic Studies – University of Tasmania, New South Wales Department of Primary Industries – Fisheries, Northern Territory Department of Primary Industry and Fisheries, South Australian Research and Development Institute and James Cook University.  The project was initiated in response to the need for validated age information for crustacean fisheries management.  We applied a novel direct age-determination method to seven commercially important Australian crustaceans sourced from tropical to temperate habitats, shallow to deep water and including both short- and long-lived species.  Similar to fish ageing, the direct ageing method applied here involves cross-sectioning gastric ossicles (i.e. semi-calcified structures within the stomach) to enable the extraction of a chronological record (i.e. by counting growth marks) for subsequent growth modelling.  For the first time, we have demonstrated the widespread applicability of direct ageing to Australian crustaceans and validated that ossicular growth marks in Western, Eastern and Ornate Rock Lobster and Crystal Crab ossicles are deposited annually.  Validation of the direct ageing method, allowed for the construction of the world’s first directly determined growth models for any Rock Lobster, with most comparisons to existing indirect estimates corroborating annual periodicity.

Background
The ability to procure accurate age information is important for any sustainable fisheries management plan.  Age information underpins growth and productivity estimates and also informs the selection of input control regulations (e.g. minimum legal size).  For many fin fish and invertebrate species, age determination is relatively straightforward and involves counting growth increments in calcified structures.  Because crustaceans grow via consecutive moult events, it was always presumed that their hard parts could not retain a chronological growth record and fisheries scientist have relied solely on less-accurate indirect methods (e.g. tag-and-recapture) that infer age.  However, recent studies have demonstrated that crustacean ossicles contain growth marks that can be used for direct age determination, but species-specific periodicity validation (i.e. proof of accuracy) is needed before widespread use of the method occurs.  The need for a validated direct ageing method for crustaceans was recognised throughout Australia and resulted in this project being strongly supported by relevant industry bodies, state government fisheries departments and academic institutions.  Although indirect techniques provide useful information, a validated direct ageing method is highly desirable and could substantially increase the resolution of age-related data for crustacean fisheries management in Australia.

The objectives of this research project were to:

  1. assess the relationship between estimated age and size, compared with existing growth models for Western and Eastern Rock Lobster,
  2. evaluate growth mark periodicity for Western and Eastern Rock Lobster and Crystal Crab by vital staining and long-term grow-out,
  3. investigate the applicability of direct ageing methods to other commercially important crustaceans (Western, Eastern, Southern and Ornate Rock Lobsters and Giant, Crystal and Mud Crabs) – validated with laser ablation induction-coupled plasma mass spectroscopy and known-age individuals and
  4. establish a network of Australian government and academic fisheries researchers that can consistently apply direct ageing methods to decapod crustaceans.

Key findings
For Western and Eastern Rock Lobster, sectioned ossicles contain regular primary growth marks that are positively correlated with body size.  Ossicular growth mark counts were converted to age estimates and used to generate von Bertalanffy growth models that were not significantly different to those from comparable tag-and-recapture studies.  For Western Rock Lobster, the directly determined ages closely agreed with indirect longevity estimates and the age at fishery-specific milestones (i.e. minimum legal size and size-at-sexual maturity), with the relationship between direct and indirect age (i.e. derived from both wild-caught and known-age individuals) being approximately 1:1 and providing strong corroborative support for annual periodicity.  For Eastern Rock Lobster, the directly determined putative ages broadly agreed with indirect maximum longevity estimates, but yielded consistently older ages at fishery-specific milestones (i.e. minimum legal size, size-at-sexual maturity and maximum legal size), with the relationship between direct and indirect age estimates for some locations being approximately 1:1 (i.e. providing support for annual periodicity), but for others it was markedly different (i.e. for Jervis Bay and some Coffs Harbour individuals). 

For Crystal Crab, there was ossicular extension during the 18 month grow-out, with primary growth mark formation occurring during the inter-moult.  Irrespective of the sampling period, most Crystal Crab deposited one new-formed primary growth mark (n = 12) during the grow-out.  For Western Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 18 month grow-out.  For Eastern Rock Lobster (n = 1), the periodicity evaluation indicated that a single primary growth mark was deposited during the 12 month grow-out.  For both rock lobster species, there were other ossicles that had material deposited beyond the calcein stain, but were without an identifiable growth mark.  For all species, the common outcome of the periodicity evaluation was that a single new growth mark was deposited during the grow-out, indicating that the primary marks are deposited annually.

The direct ageing method was readily applied to Ornate Rock Lobster, Southern Rock Lobster, Mud Crab and Crystal Crab ossicles.  Giant Crab (n = 3 individuals) ossicles contained some primary growth marks, but complete counts were not possible.  For Ornate Rock Lobster (n = 5) and Southern Rock Lobster (n = 5), the direct ageing method allowed for the rapid estimation of preliminary von Bertalanffy growth parameters that were not significantly different to those derived from tag-and-recapture studies at the same location.    Some LA-ICPMS results (e.g. for Mud Crab and Western and Eastern Rock Lobster) could be interpreted as supporting annual periodicity, but emerging uncertainties around ossicular decalcification and potential re-deposition of mineral features precluded a positive validation outcome.  The direct ageing method was also validated by the use of known-age Ornate Rock Lobster (n = 13) and Western Rock Lobster (n = 3).

Implications
The immediate impact from this project will be jurisdiction- and species-specific, because each state fisheries department has different needs, priorities and validation expectations.  However, the ability to directly determine (i.e. and validate) crustacean age provides another tool for fisheries scientists to enhance the resolution of current growth models, while decreasing research costs.  Validation of the ageing method for Western, Eastern and Ornate Rock Lobster and Crystal Crab also opens the way for preliminary trials using the technique in stock assessments.  Further, the validated technique will allow for rapid location-specific growth assessments and more accurate longevity estimates.  This will be particularly important for long-lived species that present difficulties for tagging studies (e.g. Crystal Crab and Tasmanian Southern Rock Lobster) and would be useful for securing fishery sustainability certifications (e.g. Marine Stewardship Council).  For shorter-lived species (e.g. Ornate Rock Lobster and Mud Crab), direct ageing could improve the assessment of population dynamics.  The financial gains are difficult to quantify, but even a 1% improvement in decision making, and/or decrease in research costs (i.e. across multiple valuable fisheries), would equate to a substantial return of investment from this project.  Such gains will translate into improved sustainability among Australia’s crustacean fisheries, with flow-on benefits to the relevant fishing industry and across other sectors.

Recommendations
The broad-ranging nature (i.e. in terms of species and fisheries jurisdictions) of this project made definitive recommendations difficult.  However, further species-specific research should: i) validate periodicity across the entire age range, ii) determine the age at first growth mark formation and iii) assess ageing accuracy.  Concurrent studies trialling the direct ageing method during ongoing stock monitoring programs would be beneficial.  This would allow for direct methodological comparison and growth model construction for the exact same location(s) and temporal period.  For some species (e.g. Eastern Rock Lobster), the direct ageing method should be used to assess the potential for location-specific differences in growth.  Application of the direct method to Crystal Crab is needed to provide the first solid (i.e. non-preliminary) assessment of growth and longevity for this species.  Such research should encompass the relevant priorities for further development, particularly the requirement for concurrent species-specific precision assessments.  The provision of this report to the relevant state fisheries departments is expected to initiate further jurisdiction- and stock-specific recommendations that will form the basis for further research and development applications.

Understanding recruitment collapse of juvenile abalone in the Eastern Zone Abalone fishery – development of pre-recruitment monitoring, simulation of recruitment variation and predicting the impact of climate variation

Project number: 2014-010
Project Status:
Completed
Budget expenditure: $141,656.60
Principal Investigator: Craig Mundy
Organisation: University of Tasmania (UTAS)
Project start/end date: 9 Aug 2014 - 31 Jan 2017
Contact:
FRDC

Need

Large fluctuations between years in fishable biomass of abalone are thought to be driven by inter-annual variation in recruitment to the fishery. Over the last decade the changes in recruitment from year to year appear to have been especially extreme which suggests that this may be caused by climate change. Eastern Tasmania is one of the fastest warming parts of Australia as a result of greater extension of the EAC. This possible link between climate change and abalone recruitment can't be investigated in detail at present because of the lack of data / time series on abalone recruitment. This project will establish collection of that data to provide future capability.

When recruitment to the fishery fails, the fishery is reliant on existing older year-classes already in the fishery, leading to a rapid decrease in fishable biomass. The capacity to measure inter-annual variation in sub-legal year-class strength would provide valuable prior warning of decline. Data obtained from a pre-recruit monitoring program will provide fishery-independent data to inform TAC setting. Fishery independent pre-recruit abundance data is a valuable input to the Management Strategy evaluation (MSE) Harvest Strategy and Control Rule system being developed in Tasmania. Application of assessment and MSE (Management Strategy Evaluation) models are both limited due to the absence of data on early year class abundance patterns, and will be improved by access to pre-recruit data.

Objectives

1. Optimise collector module design for quantifying abundance of juvenile abalone across a range of habitat types
2. Determine links between juvenile abundance observed on modules and abalone in surrounding habitat
3. Estimate expected juvenile abundance on collectors in a ‘normal’ recruitment year using published natural mortality data and known abundance.

Final report

ISBN: 978-1-925646-32-0
Authors: Craig Mundy Sarah Pyke Jaime McAllister Hugh Jones
Final Report • 2018-06-25 • 2.80 MB
2014-010-DLD.pdf

Summary

Over the past three decades the Tasmanian Eastern Zone Abalone Fishery has experienced several fluctuations in catch and catch rates of Blacklip Abalone as well as environmental perturbations, which may be affecting productivity. The capacity to measure inter-annual variation in Blacklip Abalone juvenile year-class strength would provide valuable prior warning of decline. Artificial structures referred to as "Abalone Recruitment Modules" were trialled to monitor changes in the abundance of Blacklip Abalone to meet the conditions of the Eastern Zone Abalone Fishery in Tasmania. This requires testing designs in different habitats and improvements to the method of deployment on reef substrates. Work was also required to establish a network of these that is effective in terms of statistical power and operational feasibility.
Final Report • 2018-06-25 • 2.80 MB
2014-010-DLD.pdf

Summary

Over the past three decades the Tasmanian Eastern Zone Abalone Fishery has experienced several fluctuations in catch and catch rates of Blacklip Abalone as well as environmental perturbations, which may be affecting productivity. The capacity to measure inter-annual variation in Blacklip Abalone juvenile year-class strength would provide valuable prior warning of decline. Artificial structures referred to as "Abalone Recruitment Modules" were trialled to monitor changes in the abundance of Blacklip Abalone to meet the conditions of the Eastern Zone Abalone Fishery in Tasmania. This requires testing designs in different habitats and improvements to the method of deployment on reef substrates. Work was also required to establish a network of these that is effective in terms of statistical power and operational feasibility.
Final Report • 2018-06-25 • 2.80 MB
2014-010-DLD.pdf

Summary

Over the past three decades the Tasmanian Eastern Zone Abalone Fishery has experienced several fluctuations in catch and catch rates of Blacklip Abalone as well as environmental perturbations, which may be affecting productivity. The capacity to measure inter-annual variation in Blacklip Abalone juvenile year-class strength would provide valuable prior warning of decline. Artificial structures referred to as "Abalone Recruitment Modules" were trialled to monitor changes in the abundance of Blacklip Abalone to meet the conditions of the Eastern Zone Abalone Fishery in Tasmania. This requires testing designs in different habitats and improvements to the method of deployment on reef substrates. Work was also required to establish a network of these that is effective in terms of statistical power and operational feasibility.
Final Report • 2018-06-25 • 2.80 MB
2014-010-DLD.pdf

Summary

Over the past three decades the Tasmanian Eastern Zone Abalone Fishery has experienced several fluctuations in catch and catch rates of Blacklip Abalone as well as environmental perturbations, which may be affecting productivity. The capacity to measure inter-annual variation in Blacklip Abalone juvenile year-class strength would provide valuable prior warning of decline. Artificial structures referred to as "Abalone Recruitment Modules" were trialled to monitor changes in the abundance of Blacklip Abalone to meet the conditions of the Eastern Zone Abalone Fishery in Tasmania. This requires testing designs in different habitats and improvements to the method of deployment on reef substrates. Work was also required to establish a network of these that is effective in terms of statistical power and operational feasibility.
Final Report • 2018-06-25 • 2.80 MB
2014-010-DLD.pdf

Summary

Over the past three decades the Tasmanian Eastern Zone Abalone Fishery has experienced several fluctuations in catch and catch rates of Blacklip Abalone as well as environmental perturbations, which may be affecting productivity. The capacity to measure inter-annual variation in Blacklip Abalone juvenile year-class strength would provide valuable prior warning of decline. Artificial structures referred to as "Abalone Recruitment Modules" were trialled to monitor changes in the abundance of Blacklip Abalone to meet the conditions of the Eastern Zone Abalone Fishery in Tasmania. This requires testing designs in different habitats and improvements to the method of deployment on reef substrates. Work was also required to establish a network of these that is effective in terms of statistical power and operational feasibility.

Development of guidelines for quality assurance of Australian fisheries research and science information

Project number: 2014-009
Project Status:
Completed
Budget expenditure: $100,800.00
Principal Investigator: Andrew J. Penney
Organisation: Pisces Australis Pty Ltd
Project start/end date: 1 Oct 2014 - 21 Dec 2015
Contact:
FRDC

Need

Australia has experienced many of the crises of confidence relating to government decisions that have arisen internationally, such as those relating to pesticide use and human health concerns. In Australian fisheries, the most recent crisis of public confidence, and the direct impetus for this proposal, was the public and media debate in 2012 and 2013 on the reliability of scientific information used to support opposing views on the impacts of introducing a super-trawler into the Commonwealth Small Pelagic Fishery. This public debate criticised or questioned much of the scientific information used in support of recommendations and decisions relating to this fishery, as well as the processes whereby this information was obtained, analysed and provided in support of those decisions.

The need for some form of scientific quality assurance standard for Australian fisheries science arose initially from development of the Research and Science Information Standard for New Zealand Fisheries in 2010, and recognition that Australia did not have such a standard, despite facing many similar questions regarding quality and trustworthiness of science information. The events surrounding proposals to introduce a super-trawler into the SPF provided the final impetus for a proposal to develop a similar standard for Australian fisheries research and science information.

Objectives

1. Review recent national and international developments on science quality assurance principles, implementation guidelines and quality assurance processes relevant to Australian fisheries characteristics, management processes and requirements.
2. Prepare draft standard and guidelines for quality assurance of Australian research and science information intended or likely to inform fisheries policy and management decisions, including key principles for science quality, implementation guidelines and performance monitoring for science quality assurance processes.
3. Consult with fisheries agencies in other jurisdictions, as well as other relevant stakeholders, to ensure that the proposed science quality assurance guidelines are appropriate and implementable for all Australian fisheries, and potentially implementable for other science fields
4. Prepare an agency-specific plan for implementation of the science quality assurance key principles and quality assurance processes for AFMA, compatible with AFMA and Commonwealth fisheries requirements, capabilities and science procurement processes.

Final report

ISBN: 978-0-9577587-0-4
Author: Andrew J. Penney

RAC WA: The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia and cost effective monitoring methods

Project number: 2014-005
Project Status:
Completed
Budget expenditure: $330,000.00
Principal Investigator: Andrew Rowland
Organisation: Recfishwest
Project start/end date: 11 Jun 2014 - 30 Jun 2017
Contact:
FRDC

Need

A policy shift by the WA government towards facilitating Habitat Enhancement Structures (HES) has created the need for the community and fishing industry to gain a better understanding of what technology exists in this space and how it might be best applied in WA. There is a need to have a better set of tools to effectively assess this infrastructure and benefits to meet specific purposes in the most cost effective manner, as well as gain a better understand of the regulatory environment to facilitate cost effective and timely deployment.

This project will help the WA seafood sector and community to determine optimum reef structures, layouts and monitoring and will help with the approval process of future developments. This project will identify habitat designs suitable for enhancing fish production as well as determining applications to benefit the aquatic environment in general.

This project meets one of the W.A. FRAB 2014 priorities (Application of artificial habitats in WA – how is his technology applied to WA to ensure environmental benefits are achieved, offset effort provide amenities including social benefits, tourism opportunities and are designed to fit purposes.

This project aligns with the theme 2,3 and 4 of FRDC program 1 (Environment), theme 7 and 9 of program 2 (Industry) and theme 10 of program 3 (Communities).

This project would help to meet the Recfishwest business goal 2013-2014 of ‘Supporting sustainability in fisheries management and pursuing recreational fishing development and enhancement opportunities.’ It also aligns with WAFIC’s 2020 plan.

Objectives

1. Identify what HES are currently available throughout the world and what benefits each type may have for recreational and commercial fishing as well as identifying the benefits for aquaculture and the environment.
2. Identify how various HES design might provide benefit to the WA seafood sector and community and determine applications and locations for the most effective return on investments.
3. Determine cost effective methods to monitor HES developments using easily available materials and data collection by community and industry groups.
4. Investigate cost effective reef, site selection, approvals, construction, deployment and monitoring strategies for business, industry and community groups wanting invest in HES.

Final report

ISBN: 978-1-921877-23-0
Authors: Florisson J.H. Rowland A.J. Matthews A.C. Tweedley J.R. and Campbell L.L.
Final Report • 2018-12-01 • 9.76 MB
2014-005-DLD.pdf

Summary

Habitat Enhancement Structures (HES) developments are increasing in Australia and worldwide providing many benefits to the environment and different user groups. With this rapid growth there are still large knowledge gaps evident in relation to HES. This project investigated the application, needs, benefits and costs of HES as well as cost-effective monitoring methods. Post graduate students collated international literature on all aspects of HES and project managers consulted with industry and the community to identify potential applications to different sectors. Different monitoring methods were also tested on the South West Artificial Reef Trial in Geographe Bay, Western Australia. Information and data collected was analysed, reviewed and processed to create an easy-to-follow guide for groups aiming to invest in HES. This is one of the first guides to clearly outline the HES development process in Australia. The project also developed Reef Vision, a world first, cost-effective HES monitoring method that uses citizen science and Baited Remote Underwater Video systems
Final Report • 2018-12-01 • 25.23 MB
2014-005-DLD-Appendices.pdf

Summary

I. Can recreational fishers provide an effective means of monitoring artificial reefs?
II. Artificial Reefs: Types, applications, trends in deployment and the development of a costeffective method for monitoring their fish faunas
III. Characteristics of the fish faunas of artificial reefs in Geographe Bay determined from video footage collected by recreational fishers
IV. Habitat Enhancement Structures (HES) or Artificial Reefs: a Review of design, application and deployment for Australian Waters
V. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Trends in artificial reef construction, design and management in Australia
VI. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Bibliographic analyses of scientific literature on Habitat Enhancement Structures
VII. ASFB – Newsletter – 214 – 12 – 17
VIII. Artificial Reefs in Australia: A Guide to Aquatic Habitat Enhancement Structures
IX: Habitat Enhancement Structure Extension and Adoption Timeline 2015-2017
X: HES Pamphlet
XI: Reef vision: A citizen science program for monitoring the fish faunas of artificial reefs
Final Report • 2018-12-01 • 9.76 MB
2014-005-DLD.pdf

Summary

Habitat Enhancement Structures (HES) developments are increasing in Australia and worldwide providing many benefits to the environment and different user groups. With this rapid growth there are still large knowledge gaps evident in relation to HES. This project investigated the application, needs, benefits and costs of HES as well as cost-effective monitoring methods. Post graduate students collated international literature on all aspects of HES and project managers consulted with industry and the community to identify potential applications to different sectors. Different monitoring methods were also tested on the South West Artificial Reef Trial in Geographe Bay, Western Australia. Information and data collected was analysed, reviewed and processed to create an easy-to-follow guide for groups aiming to invest in HES. This is one of the first guides to clearly outline the HES development process in Australia. The project also developed Reef Vision, a world first, cost-effective HES monitoring method that uses citizen science and Baited Remote Underwater Video systems
Final Report • 2018-12-01 • 25.23 MB
2014-005-DLD-Appendices.pdf

Summary

I. Can recreational fishers provide an effective means of monitoring artificial reefs?
II. Artificial Reefs: Types, applications, trends in deployment and the development of a costeffective method for monitoring their fish faunas
III. Characteristics of the fish faunas of artificial reefs in Geographe Bay determined from video footage collected by recreational fishers
IV. Habitat Enhancement Structures (HES) or Artificial Reefs: a Review of design, application and deployment for Australian Waters
V. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Trends in artificial reef construction, design and management in Australia
VI. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Bibliographic analyses of scientific literature on Habitat Enhancement Structures
VII. ASFB – Newsletter – 214 – 12 – 17
VIII. Artificial Reefs in Australia: A Guide to Aquatic Habitat Enhancement Structures
IX: Habitat Enhancement Structure Extension and Adoption Timeline 2015-2017
X: HES Pamphlet
XI: Reef vision: A citizen science program for monitoring the fish faunas of artificial reefs
Final Report • 2018-12-01 • 9.76 MB
2014-005-DLD.pdf

Summary

Habitat Enhancement Structures (HES) developments are increasing in Australia and worldwide providing many benefits to the environment and different user groups. With this rapid growth there are still large knowledge gaps evident in relation to HES. This project investigated the application, needs, benefits and costs of HES as well as cost-effective monitoring methods. Post graduate students collated international literature on all aspects of HES and project managers consulted with industry and the community to identify potential applications to different sectors. Different monitoring methods were also tested on the South West Artificial Reef Trial in Geographe Bay, Western Australia. Information and data collected was analysed, reviewed and processed to create an easy-to-follow guide for groups aiming to invest in HES. This is one of the first guides to clearly outline the HES development process in Australia. The project also developed Reef Vision, a world first, cost-effective HES monitoring method that uses citizen science and Baited Remote Underwater Video systems
Final Report • 2018-12-01 • 25.23 MB
2014-005-DLD-Appendices.pdf

Summary

I. Can recreational fishers provide an effective means of monitoring artificial reefs?
II. Artificial Reefs: Types, applications, trends in deployment and the development of a costeffective method for monitoring their fish faunas
III. Characteristics of the fish faunas of artificial reefs in Geographe Bay determined from video footage collected by recreational fishers
IV. Habitat Enhancement Structures (HES) or Artificial Reefs: a Review of design, application and deployment for Australian Waters
V. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Trends in artificial reef construction, design and management in Australia
VI. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Bibliographic analyses of scientific literature on Habitat Enhancement Structures
VII. ASFB – Newsletter – 214 – 12 – 17
VIII. Artificial Reefs in Australia: A Guide to Aquatic Habitat Enhancement Structures
IX: Habitat Enhancement Structure Extension and Adoption Timeline 2015-2017
X: HES Pamphlet
XI: Reef vision: A citizen science program for monitoring the fish faunas of artificial reefs
Final Report • 2018-12-01 • 9.76 MB
2014-005-DLD.pdf

Summary

Habitat Enhancement Structures (HES) developments are increasing in Australia and worldwide providing many benefits to the environment and different user groups. With this rapid growth there are still large knowledge gaps evident in relation to HES. This project investigated the application, needs, benefits and costs of HES as well as cost-effective monitoring methods. Post graduate students collated international literature on all aspects of HES and project managers consulted with industry and the community to identify potential applications to different sectors. Different monitoring methods were also tested on the South West Artificial Reef Trial in Geographe Bay, Western Australia. Information and data collected was analysed, reviewed and processed to create an easy-to-follow guide for groups aiming to invest in HES. This is one of the first guides to clearly outline the HES development process in Australia. The project also developed Reef Vision, a world first, cost-effective HES monitoring method that uses citizen science and Baited Remote Underwater Video systems
Final Report • 2018-12-01 • 25.23 MB
2014-005-DLD-Appendices.pdf

Summary

I. Can recreational fishers provide an effective means of monitoring artificial reefs?
II. Artificial Reefs: Types, applications, trends in deployment and the development of a costeffective method for monitoring their fish faunas
III. Characteristics of the fish faunas of artificial reefs in Geographe Bay determined from video footage collected by recreational fishers
IV. Habitat Enhancement Structures (HES) or Artificial Reefs: a Review of design, application and deployment for Australian Waters
V. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Trends in artificial reef construction, design and management in Australia
VI. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Bibliographic analyses of scientific literature on Habitat Enhancement Structures
VII. ASFB – Newsletter – 214 – 12 – 17
VIII. Artificial Reefs in Australia: A Guide to Aquatic Habitat Enhancement Structures
IX: Habitat Enhancement Structure Extension and Adoption Timeline 2015-2017
X: HES Pamphlet
XI: Reef vision: A citizen science program for monitoring the fish faunas of artificial reefs
Final Report • 2018-12-01 • 9.76 MB
2014-005-DLD.pdf

Summary

Habitat Enhancement Structures (HES) developments are increasing in Australia and worldwide providing many benefits to the environment and different user groups. With this rapid growth there are still large knowledge gaps evident in relation to HES. This project investigated the application, needs, benefits and costs of HES as well as cost-effective monitoring methods. Post graduate students collated international literature on all aspects of HES and project managers consulted with industry and the community to identify potential applications to different sectors. Different monitoring methods were also tested on the South West Artificial Reef Trial in Geographe Bay, Western Australia. Information and data collected was analysed, reviewed and processed to create an easy-to-follow guide for groups aiming to invest in HES. This is one of the first guides to clearly outline the HES development process in Australia. The project also developed Reef Vision, a world first, cost-effective HES monitoring method that uses citizen science and Baited Remote Underwater Video systems
Final Report • 2018-12-01 • 25.23 MB
2014-005-DLD-Appendices.pdf

Summary

I. Can recreational fishers provide an effective means of monitoring artificial reefs?
II. Artificial Reefs: Types, applications, trends in deployment and the development of a costeffective method for monitoring their fish faunas
III. Characteristics of the fish faunas of artificial reefs in Geographe Bay determined from video footage collected by recreational fishers
IV. Habitat Enhancement Structures (HES) or Artificial Reefs: a Review of design, application and deployment for Australian Waters
V. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Trends in artificial reef construction, design and management in Australia
VI. The application, needs, costs and benefits of Habitat Enhancement Structures in Western Australia: Bibliographic analyses of scientific literature on Habitat Enhancement Structures
VII. ASFB – Newsletter – 214 – 12 – 17
VIII. Artificial Reefs in Australia: A Guide to Aquatic Habitat Enhancement Structures
IX: Habitat Enhancement Structure Extension and Adoption Timeline 2015-2017
X: HES Pamphlet
XI: Reef vision: A citizen science program for monitoring the fish faunas of artificial reefs

Mitigation measures to reduce entanglements of migrating whales with commercial fishing gear

Project number: 2014-004
Project Status:
Completed
Budget expenditure: $499,999.00
Principal Investigator: Jason How
Organisation: Department of Primary Industries and Regional Development (DPIRD) WA
Project start/end date: 1 May 2014 - 7 Jul 2016
Contact:
FRDC

Need

Whale entanglements in the western rock lobster (WRL) fishery have increased dramatically with changes in fishing times from a move to a quota. The recent commonwealth Department for the Environment (DE) assessment removed the fishery from five-year export approval, granting a two-year Wildlife Trade Order (WTO) with conditions on whale entanglements. Subsequent correspondence from the Department of Fisheries (DoF) and DE requested information from industry as to what actions will undertaken for the 2014 and 2013 humpback migrations respectively. DoF correspondence indicated a seasonal closure may be implemented ‘in the absence of specific alternative action(s)’. A closure during the humpback migration (1 May-30 Nov) would concentrate fishing into the remaining 5 months resulting in a reduced beach price. Winter beach prices are ~$70/kg, with a move from this high value period into a condensed season reducing GVP by ~$50 million.
TRF project (2013-037) addresses the immediate aspects of the WTO conditions, required by 31 March 2014. Industry groups, while cognizant of the need to address the issue of whale
entanglements are reluctant to proceed with the introduction of gear modifications without a clear scientific rationale behind their testing.
Project 2013-037 is a preliminary study and with its initiations after the 2013 humpback migration has begun, detailed gear testing and migration information was not possible. However it is planned to identify a number of viable mitigation options that are worthy of detailed evaluation in 2014. This project extends on Project 2013-037 addresses the longer term (2014-2015) DE conditions, which would enable year-round market access.

Objectives

1. Determine and implement appropriate gear modifications and management changes to reduce entanglements with migrating humpback whales
2. Produce fine-spatial and temporal information on whale migrations along the west coast of Western Australia necessary for a tailored spatio-temporal closures and/or areas for gear modifications.
3. Provide clear scientific methods behind the testing of selected gear modifications to reduce whale entanglements
4. Incorporate any new practices that may reduce entanglements with migrating whales in the CoP for the fishery and ensure its extension and adoption

Final report

ISBN: 978-1-921258-43-5
Authors: J How D Coughran M Double K Rushworth B Hebiton J Smith J Harrison M. Taylor D Paton G McPherson C McPherson A Recalde Salas C Salgado-Kent and S de Lestang
Final Report • 2020-03-01 • 5.85 MB
2014-004-DLD.pdf

Summary

This project provided a robust assessment that gear modifications introduced into the WCRLMF and octopus fisheries have reduced the number of reported entanglements. The management arrangements around the implementation of these modifications are appropriate in light on the new spatial and temporal information on the migratory behaviours of humpback whales off the west Australian coast. Therefore, it is recommended that the current management arrangements that are in place to reduce whale entanglements remain. It should be noted however, that while gear modifications have been effective, the whale population off the west Australian coast is predicated to continue to increase. As a result, entanglements may increase in the future as a result of this population increase, and additional research may be required to assess possible additional gear modifications or management arrangements. 
Final Report • 2020-03-01 • 5.85 MB
2014-004-DLD.pdf

Summary

This project provided a robust assessment that gear modifications introduced into the WCRLMF and octopus fisheries have reduced the number of reported entanglements. The management arrangements around the implementation of these modifications are appropriate in light on the new spatial and temporal information on the migratory behaviours of humpback whales off the west Australian coast. Therefore, it is recommended that the current management arrangements that are in place to reduce whale entanglements remain. It should be noted however, that while gear modifications have been effective, the whale population off the west Australian coast is predicated to continue to increase. As a result, entanglements may increase in the future as a result of this population increase, and additional research may be required to assess possible additional gear modifications or management arrangements. 
Final Report • 2020-03-01 • 5.85 MB
2014-004-DLD.pdf

Summary

This project provided a robust assessment that gear modifications introduced into the WCRLMF and octopus fisheries have reduced the number of reported entanglements. The management arrangements around the implementation of these modifications are appropriate in light on the new spatial and temporal information on the migratory behaviours of humpback whales off the west Australian coast. Therefore, it is recommended that the current management arrangements that are in place to reduce whale entanglements remain. It should be noted however, that while gear modifications have been effective, the whale population off the west Australian coast is predicated to continue to increase. As a result, entanglements may increase in the future as a result of this population increase, and additional research may be required to assess possible additional gear modifications or management arrangements. 
Final Report • 2020-03-01 • 5.85 MB
2014-004-DLD.pdf

Summary

This project provided a robust assessment that gear modifications introduced into the WCRLMF and octopus fisheries have reduced the number of reported entanglements. The management arrangements around the implementation of these modifications are appropriate in light on the new spatial and temporal information on the migratory behaviours of humpback whales off the west Australian coast. Therefore, it is recommended that the current management arrangements that are in place to reduce whale entanglements remain. It should be noted however, that while gear modifications have been effective, the whale population off the west Australian coast is predicated to continue to increase. As a result, entanglements may increase in the future as a result of this population increase, and additional research may be required to assess possible additional gear modifications or management arrangements. 
Final Report • 2020-03-01 • 5.85 MB
2014-004-DLD.pdf

Summary

This project provided a robust assessment that gear modifications introduced into the WCRLMF and octopus fisheries have reduced the number of reported entanglements. The management arrangements around the implementation of these modifications are appropriate in light on the new spatial and temporal information on the migratory behaviours of humpback whales off the west Australian coast. Therefore, it is recommended that the current management arrangements that are in place to reduce whale entanglements remain. It should be noted however, that while gear modifications have been effective, the whale population off the west Australian coast is predicated to continue to increase. As a result, entanglements may increase in the future as a result of this population increase, and additional research may be required to assess possible additional gear modifications or management arrangements. 

Aquatic Animal Health Subprogram: Development of stable positive control material and development of internal controls for molecular tests for detection of important endemic and exotic pathogens

Project number: 2014-002
Project Status:
Completed
Budget expenditure: $172,185.00
Principal Investigator: Nicholas J. Moody
Organisation: CSIRO Oceans and Atmosphere Hobart
Project start/end date: 30 Jun 2014 - 29 Jun 2016
Contact:
FRDC

Need

Quality assured positive control material is critical to demonstrate an assay has performed as expected. Similarly, testing for internal control material ensures extraction procedures produced template of acceptable quality, free of test inhibitors. Both types of controls are particularly important where the samples are being tested to demonstrate freedom from disease (i.e. are negative).

One internal control target is the 18S ribosomal RNA gene. However, assays targeting 18S need to be optimised if multiplexed, 18S is ubiquitous (negative control reactions can test positive) and 18S is not applicable for crustacean samples. Other targets include genes of the host organism, which are often limited to a single species, and are an option that will be investigated for priority species. Plant viruses enable development of one internal control assay for RNA and one for DNA. Optimisation of each assay would still be required if multiplexed, one internal control and one set of primers/probe for any assay reduces costs, eliminates 18S contamination issues and is applicable for all hosts (i.e. finfish, mollusc, crustacean).

Synthetic RNA and plasmid DNA positive controls enable accurate quantification of targets, control over the level of positive template (i.e. added at levels approaching the limits of detection of the assay), are consistent and greatly aid troubleshooting when contamination occurs. They also eliminate the need to source infected animals for positive control material. AFDL implements OIE, EU and/or ANZSDPs for diagnostic assays, reducing the risk of test changes requiring redevelopment of positive controls, which are limitations of synthetic and plasmid controls.

Objectives

1. Produce quantified synthetic RNA positive control material for conventional and real-time RT-PCR assays, available on request.
2. Produce quantified plasmid DNA positive control material for conventional and real-time PCR assays, available on request.
3. Optimised universal internal control based on plant viral RNA and DNA and/or species-specific genes for use in molecular assays developed and implemented
4. Technology transferred and adopted by participating laboratories.

Final report

ISBN: 978-1-925994-19-3
Authors: Moody NJG Cummins DM Mohr PM Williams LM Hoad J Valdeter S Klein R Slater J and Crane MStJ
Final Report • 1.94 MB
2014-002-DLD.pdf

Summary

This project has resulted in the production of a bank of quality-assured, non-infectious, quantifiable, molecular test controls that can be provided to any diagnostic laboratory in a ready-to-use form to assist them with the implementation of specific aquatic animal disease diagnostic tests. In addition, these controls will be useful in the diagnostic laboratory quality systems to demonstrate laboratory competency.

Thirty-two positive control plasmids (22 for real-time assays and 10 for conventional assays) have been prepared and are in routine use. A further 10 plasmid positive controls (8 for real-time assays and 2 for conventional assays) are undergoing final quality checks prior to release for routine use. Therefore, a total of 42 plasmid positive controls for 25 different pathogens have been generated as a result of this project.

Their most important use is as positive controls during diagnostic testing. Because these controls are distinguishable from the pathogens’ genomic nucleic acid, they will assist in identification of cross-contamination between the positive control samples and the diagnostic samples and thus will mitigate against the reporting of false-positive results that occur due to contamination of test samples with positive controls.

In addition, T4 and QBeta phages have been evaluated as heterologous internal positive controls for DNA and RNA targets, respectively, for use in establishing that generic aspects of PCR testing (e.g. nucleic acid extraction and absence of PCR inhibitors) are performing as expected. Implementation of the use of the T4 and QBeta phages as internal positive controls has improved the quality of molecular testing, through more sensitive assessment of the effect of PCR inhibitors and confidence in results generated when testing atypical samples (i.e. plankton, dirt, feed).

The use of these controls in diagnostic testing will assist diagnostic laboratories to monitor the performance of current methods and assist with technology transfer of new methods. This will, in turn, provide laboratories, industry, regulators (managers and policy makers), the general public and trade partners with enhanced confidence in Australia’s diagnostic capability for important exotic and endemic aquatic pathogens.
Final Report • 1.94 MB
2014-002-DLD.pdf

Summary

This project has resulted in the production of a bank of quality-assured, non-infectious, quantifiable, molecular test controls that can be provided to any diagnostic laboratory in a ready-to-use form to assist them with the implementation of specific aquatic animal disease diagnostic tests. In addition, these controls will be useful in the diagnostic laboratory quality systems to demonstrate laboratory competency.

Thirty-two positive control plasmids (22 for real-time assays and 10 for conventional assays) have been prepared and are in routine use. A further 10 plasmid positive controls (8 for real-time assays and 2 for conventional assays) are undergoing final quality checks prior to release for routine use. Therefore, a total of 42 plasmid positive controls for 25 different pathogens have been generated as a result of this project.

Their most important use is as positive controls during diagnostic testing. Because these controls are distinguishable from the pathogens’ genomic nucleic acid, they will assist in identification of cross-contamination between the positive control samples and the diagnostic samples and thus will mitigate against the reporting of false-positive results that occur due to contamination of test samples with positive controls.

In addition, T4 and QBeta phages have been evaluated as heterologous internal positive controls for DNA and RNA targets, respectively, for use in establishing that generic aspects of PCR testing (e.g. nucleic acid extraction and absence of PCR inhibitors) are performing as expected. Implementation of the use of the T4 and QBeta phages as internal positive controls has improved the quality of molecular testing, through more sensitive assessment of the effect of PCR inhibitors and confidence in results generated when testing atypical samples (i.e. plankton, dirt, feed).

The use of these controls in diagnostic testing will assist diagnostic laboratories to monitor the performance of current methods and assist with technology transfer of new methods. This will, in turn, provide laboratories, industry, regulators (managers and policy makers), the general public and trade partners with enhanced confidence in Australia’s diagnostic capability for important exotic and endemic aquatic pathogens.
Final Report • 1.94 MB
2014-002-DLD.pdf

Summary

This project has resulted in the production of a bank of quality-assured, non-infectious, quantifiable, molecular test controls that can be provided to any diagnostic laboratory in a ready-to-use form to assist them with the implementation of specific aquatic animal disease diagnostic tests. In addition, these controls will be useful in the diagnostic laboratory quality systems to demonstrate laboratory competency.

Thirty-two positive control plasmids (22 for real-time assays and 10 for conventional assays) have been prepared and are in routine use. A further 10 plasmid positive controls (8 for real-time assays and 2 for conventional assays) are undergoing final quality checks prior to release for routine use. Therefore, a total of 42 plasmid positive controls for 25 different pathogens have been generated as a result of this project.

Their most important use is as positive controls during diagnostic testing. Because these controls are distinguishable from the pathogens’ genomic nucleic acid, they will assist in identification of cross-contamination between the positive control samples and the diagnostic samples and thus will mitigate against the reporting of false-positive results that occur due to contamination of test samples with positive controls.

In addition, T4 and QBeta phages have been evaluated as heterologous internal positive controls for DNA and RNA targets, respectively, for use in establishing that generic aspects of PCR testing (e.g. nucleic acid extraction and absence of PCR inhibitors) are performing as expected. Implementation of the use of the T4 and QBeta phages as internal positive controls has improved the quality of molecular testing, through more sensitive assessment of the effect of PCR inhibitors and confidence in results generated when testing atypical samples (i.e. plankton, dirt, feed).

The use of these controls in diagnostic testing will assist diagnostic laboratories to monitor the performance of current methods and assist with technology transfer of new methods. This will, in turn, provide laboratories, industry, regulators (managers and policy makers), the general public and trade partners with enhanced confidence in Australia’s diagnostic capability for important exotic and endemic aquatic pathogens.
Final Report • 1.94 MB
2014-002-DLD.pdf

Summary

This project has resulted in the production of a bank of quality-assured, non-infectious, quantifiable, molecular test controls that can be provided to any diagnostic laboratory in a ready-to-use form to assist them with the implementation of specific aquatic animal disease diagnostic tests. In addition, these controls will be useful in the diagnostic laboratory quality systems to demonstrate laboratory competency.

Thirty-two positive control plasmids (22 for real-time assays and 10 for conventional assays) have been prepared and are in routine use. A further 10 plasmid positive controls (8 for real-time assays and 2 for conventional assays) are undergoing final quality checks prior to release for routine use. Therefore, a total of 42 plasmid positive controls for 25 different pathogens have been generated as a result of this project.

Their most important use is as positive controls during diagnostic testing. Because these controls are distinguishable from the pathogens’ genomic nucleic acid, they will assist in identification of cross-contamination between the positive control samples and the diagnostic samples and thus will mitigate against the reporting of false-positive results that occur due to contamination of test samples with positive controls.

In addition, T4 and QBeta phages have been evaluated as heterologous internal positive controls for DNA and RNA targets, respectively, for use in establishing that generic aspects of PCR testing (e.g. nucleic acid extraction and absence of PCR inhibitors) are performing as expected. Implementation of the use of the T4 and QBeta phages as internal positive controls has improved the quality of molecular testing, through more sensitive assessment of the effect of PCR inhibitors and confidence in results generated when testing atypical samples (i.e. plankton, dirt, feed).

The use of these controls in diagnostic testing will assist diagnostic laboratories to monitor the performance of current methods and assist with technology transfer of new methods. This will, in turn, provide laboratories, industry, regulators (managers and policy makers), the general public and trade partners with enhanced confidence in Australia’s diagnostic capability for important exotic and endemic aquatic pathogens.
Final Report • 1.94 MB
2014-002-DLD.pdf

Summary

This project has resulted in the production of a bank of quality-assured, non-infectious, quantifiable, molecular test controls that can be provided to any diagnostic laboratory in a ready-to-use form to assist them with the implementation of specific aquatic animal disease diagnostic tests. In addition, these controls will be useful in the diagnostic laboratory quality systems to demonstrate laboratory competency.

Thirty-two positive control plasmids (22 for real-time assays and 10 for conventional assays) have been prepared and are in routine use. A further 10 plasmid positive controls (8 for real-time assays and 2 for conventional assays) are undergoing final quality checks prior to release for routine use. Therefore, a total of 42 plasmid positive controls for 25 different pathogens have been generated as a result of this project.

Their most important use is as positive controls during diagnostic testing. Because these controls are distinguishable from the pathogens’ genomic nucleic acid, they will assist in identification of cross-contamination between the positive control samples and the diagnostic samples and thus will mitigate against the reporting of false-positive results that occur due to contamination of test samples with positive controls.

In addition, T4 and QBeta phages have been evaluated as heterologous internal positive controls for DNA and RNA targets, respectively, for use in establishing that generic aspects of PCR testing (e.g. nucleic acid extraction and absence of PCR inhibitors) are performing as expected. Implementation of the use of the T4 and QBeta phages as internal positive controls has improved the quality of molecular testing, through more sensitive assessment of the effect of PCR inhibitors and confidence in results generated when testing atypical samples (i.e. plankton, dirt, feed).

The use of these controls in diagnostic testing will assist diagnostic laboratories to monitor the performance of current methods and assist with technology transfer of new methods. This will, in turn, provide laboratories, industry, regulators (managers and policy makers), the general public and trade partners with enhanced confidence in Australia’s diagnostic capability for important exotic and endemic aquatic pathogens.

Aquatic Animal Health Subprogram: Strategic approaches to identifying pathogens of quarantine concern associated with the importation of ornamental fish

Project number: 2014-001
Project Status:
Completed
Budget expenditure: $249,836.00
Principal Investigator: Joy Becker
Organisation: University of Sydney (USYD)
Project start/end date: 15 Jun 2014 - 30 Oct 2016
Contact:
FRDC

Need

Nearly 18 million ornamental fish are imported annually under a policy based on an Import Risk Analysis published in 1999. Despite the biosecurity measures in place since 2000, there have been several incidents of exotic pathogens from ornamental fish affecting wild and farmed fish populations. These include atypical Aeromonas salmonicida, cyprinid herpesvirus 2 (CyHV2) and dwarf gourami iridovirues (DGIV). There is a need to acquire new knowledge to support policy reform as the ornamental fish industry advances and new pathogens emerge.
Project FRDC 2009/044: AAH: surveys of ornamental fish for pathogens of quarantine significance determined that ornamental fish with subclinical infections of exotic viruses were passing through quarantine undetected. This project provided scientific evidence that led Biosecurity Australia to relax the import conditions for goldfish as CyHV2 is now considered endemic. Also, DGIV was detected in all consignments of imported gouramis at an average prevalence of 19%. DGIV was detected in domestic fish populations at wholesale and retail premises and at one ornamental aquaculture facility. The project outcomes indicated that pre-export biosecurity measures (and associated health certification provided by exporting country authorities) and post-arrival quarantining of fish in Australia were insufficient to detect and prevent fish with subclinical infections of exotic pathogens from entering Australia.

There is little information available on other viral, bacterial and parasitic disease agents carried by imported ornamental fish. Specifically, there is a paucity of information available on parasites of imported fish and their potential risk to Australian industries and ecosystems. There is a need to determine whether pathogens of biosecurity significance associated with ornamental fish are entering Australia despite the import conditions.

Objectives

1. Determine if pathogens of potential biosecurity concern on the national list are entering QAPs in Australia through the trade in ornamental fish
2. Determine if current import conditions for goldfish requiring freedom from specific pathogens are being met
3. Document parasites of potential biosecurity concern that are associated with imported ornamental fish
4. Develop efficient pooled sample strategies for testing imported fish

Final report

ISBN: 978-1-74210-399-0
Author: Joy Becker
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