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Aquaculture & Fisheries Development Centre
Annual Report 2011
Aquaculture & Fisheries Development Centre Annual Report 2011
AFDC Strategic Vision “To support, stimulate and promote the development of aquaculture and
fisheries, thereby enabling these sectors to achieve their full socio-economic potential by utilising sustainable natural resources”
Aquaculture & Fisheries Development Centre Annual Report 2011
Contents
Page
Executive Summary 4
SECTION 1: Facilities & Specifications 5
SECTION 2: AFDC Research Update 7
SECTION 3: Funding - Grant capture 7
SECTION 4: Outreach Activities 8
SECTION 5: Degrees Awarded 8
SECTION 6: On-going and New Research Grants During 2011 9
SECTION 7: AFDC Publications 10
Aquaculture & Fisheries Development Centre Annual Report 2011
4
Executive Summary
2011 was another successful year for the Aquaculture & Fisheries Development Centre in the School of
Biological, Earth & Environmental Sciences at University College Cork. Research activity in the four
thematic areas has continued to advance and develop. The centre currently has a manager, 6 principal
investigators, 2 senior researchers, 6 postdoctoral researchers, 10 PhD students and 6 Research
Assistants. During the year, four PhD’s and three MSc’s were awarded to AFDC researchers. A total of
16 peer-reviewed publications were produced including articles in high ranking journals such as
Molecular Ecology, Journal of Heredity, Animal Conservation and Aquaculture Nutrition. Nine oral
presentations were given at international conferences and included one Keynote Speech given by Dr
Sarah Culloty at the 14th International Conference on Shellfish Restoration in Scotland and one Invited
Speech given by Dr Susie Brown at the meeting of the ICES Working Group of Fishing Technology and
Fish Behaviour in Iceland.
In 2011, the AFDC maintained the momentum established in previous years in securing funding for
research. The tally for funding has now exceeded €10m with over €600,000 of this funding awarded in
2011. The research capacity, diversity and strengths continue to grow through both national and
international collaborations. The AFDC also continues to play an important role in the education of
undergraduate and postgraduate students within the School of BEES.
Dr Sarah Culloty
Director AFDC
Aquaculture & Fisheries Development Centre Annual Report 2011
5
SECTION 1: Facilities & Specifications
The Aquaculture & Fisheries Development Centre is a
1200m2 research facility embedded within the School of
Biological, Earth & Environmental Sciences. The centre
consists of two tank rooms equipped with marine and
freshwater tropical marine system recirculation units,
broodstock conditioning units, shellfish on-growing units,
filter-feeder broodstock conditioning units, a larval culture
system and live food culture facilities. The AFDC is
authorised to operate under the European Communities
Health of Aquaculture Animals and Products Regulations
2008 (authorisation number: 006 / FHA).
Aquaculture & Fisheries Development Centre Annual Report 2011
6
SECTION 1: AFDC Research Update
Marine Mammals & Fisheries Research
Dr Susie Brown was the invited speaker at the ICES Working
Group of Fishing Technology and Fish Behaviour meeting in May
where she presented a talk entitled “Ecological Risk Assessment
for the Effects of Fishing”. During 2011, Dr Sarah Kraak took part
in the Joint STECF-ICES Evaluation of the EU Cod Recovery Plan
as a member of the Scientific, Technical & Economic Committee
for Fisheries, advising the European Commission (STECF). The
group evaluated the revised management plan for cod stocks
(Council Regulation (EC) No 1342/2008) which has been in force
in the EU since 2009 and provided recommendations for the
future to better achieve the overall goal of the management plan
through reduced fishing mortality.
During 2011, the Marine Mammals & Fisheries Research
group consisted of a PI, Dr Emer Rogan, three
postdoctoral researchers, five PhD students and two MSc
students. Outputs from the group during the year included
six peer-reviewed publications of which three were based
on marine mammal research and three were based on
fisheries research, three non-peer reviewed articles and
two reports. The group presented the results of their
research at a number of international conferences
including the 25th Annual Conference of the European
Cetacean Society, 19th Biennial Conference on the
Biology of Marine Mammals and the ICES Annual
Conference.
Aquaculture & Fisheries Development Centre Annual Report 2011
7
Shellfish Health Research
2011 was another significant year for the Shellfish health
Group. The group consists of PI Dr Sarah Culloty, two
postdoctoral researchers, two research assistants and four
PhD students and 4 MSc students. Two PhD students, Aaron
Maloy and Laura Lyons completed their theses and
successfully defended them. Aaron’s Phd was titled
“Development and application of molecular-based dietary
analyses for marine organisms and their larvae” –
(Supervisors Dr Sarah Culloty and Dr John Slater,
Letterkenny Institute of Technology). Aaron’s extern was
Prof. Marc Frischer, Skidaway Institute of Oceanography,
Georgia, USA. Laura’s thesis was on “Aspects of the biology
of decapods in south west Ireland” – (supervisors Dr Ruth
Ramsay, Dr Sarah Culloty, and Prof. Tom Cross).
During the year the group produced seven peer reviewed
publications – these included one paper in Aquaculture Nutrition from
Aarons thesis on the use of laser micro dissection to examine the gut
contents of cod – work carried out in collaboration with colleagues at
Carna Research laboratory at NUIG. Laura also published from her
thesis on the reproductive biology of the shore crab – developing and
describing a methodology and a scaling system that can be applied
to a range of crab species. Other publications during the year
concentrated on macroparasite infections in a range of marine
species. The group also presented results of research at the
International Conference on Shellfish Restoration in Stirling, Scotland where Dr Culloty presented the
Keynote presentation on disease and conservation of the native oyster. Current research on herpes virus,
the health status of the mussel, health of cockles and clams in Ireland and Bonamia in the native oyster
were presented at the National Shellfish Association Conference in Baltimore, USA by a number of
member of the current research team.
The ERDF Ireland Wales funded project SUSFISH
(www.susfish.com) continued during the year with ongoing
collaboration with Welsh colleagues at Bangor, Swansea and
Aberystwyth Universities on the impacts of climate change on
aquaculture and fisheries in the Irish Sea. The EU FP7
Capacities programme project OYSTERECOVER
(www.oysterecover.eu) on conservation of the native oyster
Ostrea edulis continued with colleagues – both industry and
research based throughout Europe. Two new EU FP7 projects
also commenced during the year; BEADS (www.beads.eu)
(another SME-led project) looking at the impact of
microencapsulation of a range of probiotics and
immunostimulants and their delivery on ameliorating bivalve
diseases and the effects of harmful algal blooms on bivalves.
BIVALIFE (www.bivalife.eu) is looking at the health status of
Pacific oysters and mussels in Europe. There is a particular concentration on looking at herpes virus in
the Pacific oyster in this project. The project has research partners throughout Europe and the European
Mollusc Producers Association (EMPA) are also a partner allowing the needs and interests of industry to
be represented in the project.
Aquaculture & Fisheries Development Centre Annual Report 2011
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Aquaculture Research
Prof. Burnell also continued activities in relation to two
EU projects on which he is a collaborator; “Interaction in
coastal waters: a roadmap to sustainable integration of
aquaculture and fisheries (COEXIST)” which is funded
by the EU FP7 funding programme and “Sustainable
and Environmentally Friendly aquaculture for the Atlantic
region of Europe (SEAFARE)” which is Co-funded by the
European Union Atlantic Area Transnational Programme
(2007 - 2013). The Aquaculture research group had one
peer-reviewed publication in Aquaculture Nutrition during
2011.
Publication:
O'Mahoney, M., Mouzakitis, G., Doyle, J., & Burnell, G.
2011. 'A novel konjac glucomannan-xanthan gum binder
for aquaculture feeds: the effect of binder configuration
on formulated feed stability, feed palatability and growth
performance of the Japanese abalone, Haliotis discus
hannai'. Aquaculture Nutrition, 17: 395-407.
Prof. Gavin Burnell, PI with the Aquaculture Research
group at the AFDC, presented a series of lectures as
part of an MSc Aquaculture on the theme of “An
ecosystem approach to aquaculture and fisheries
management'", at the College of Fisheries and Life
Sciences, Shanghai Ocean University. During the visit
to Shanghai, Prof. Burnell delivered a paper at the 9th
Asian Fisheries and Aquaculture Conference hosted by
Shanghai Ocean University in April 2011. The paper is
entitled "A community based scallop restoration project
in Co. Kerry, Ireland". This is work that has arisen from a
Marine Institute Beaufort project "An ecosystem
approach to fisheries management". Prof. Burnell also
took the opportunity to network and meet with the
President of Shanghai University and the Dean of
International Affairs to explore the possible areas for
collaboration and exchange.
Aquaculture & Fisheries Development Centre Annual Report 2011
9
Molecular Genetics of Aquatic Animals
During 2011 we continued to work under the aegis of the overarching seven year Beaufort Fish Population
Genetics programme which runs until 2015 and employs PI Dr Phil McGinnity, Senior Researchers Dr
Jamie Coughlan and Jens Carlsson and graduate student Ciar O'Toole. The group also consists of
Professor TF Cross (Principal Investigator), Dr Eileen Dillane, Ms Mary Cross and Ms Alicé Antoniocomi.
Work continued on several other projects under the general Beaufort umbrella and with input from the
Beaufort senior researchers:
The EU FP7 funded Salsea-Merge project using genetics to determine the region/river of origin of salmon
caught in the eastern North Atlantic was successfully completed and several papers are in the process of
being produced.
In the EU INTERREG funded Celtic Sea trout project, being undertaken in conjuction with the IFI, QUB,
the University of Wales Bangor, the typing of sea trout largely flowing into the Irish and Celtic Seas for 20
microsatellite loci has been completed and a freshwater database has been contructed against which
marine samples can be assigned to natal river or region. The ultimate aim is to determine where sea trout
from various regions go in the sea.
Two geneticists from our group were involved in the "Celtic Explorer" cruise to the mid-Atlantic ridge which
discovered the Moytirra vent field and recovered shrimp, limpet and other possibly endemic species from
depths of 3,000 meters for genetic analysis.
The UCC part of the EU INTERREG AARC project focusses on restoration genetics of Atlantic salmon in
the river Shannon, in a tripartite approach where 1. different potential strains and natural popultaions for
restoration of the upper Shannon are being compared in a common garden situation, 2. salmon fry from
residual natural spawning above the hydroelectric dam are being screened and 3. the same microsatellite
loci are being screened in archival scales dating from 1928 onwards.
Ciar O'Toole's Beaufort PhD continues concentrating on investigating the genetics of local adaptation in
salmon, and in Mixed Stock Analysis of sea trout for the Currane system in SW Ireland and the study of
brown trout as an invasive species in Newfoundland. Ciar spent six weeks in University of Montana with
financial assistance from their International Office. While in Missoula she worked in the laboratory of
Professor Fred Allendorf and participated in a workshop on advanced statistics in genetics.
Work is continuing on improving the Irish Genetic Stock Identification salmon database with funding
coming from the Central Fisheries Board, and also from several Governmental requests to concentrate on
particular geographical areas with difficult fisheries management issues.
We are continuing to work with the NUIG Carna aquaculture facility on the Nationally funded EIRCOD cod
rearing and genetics programme and have recently had 2% of the cod genome sequenced using Next
Generation Methods. We are now mining this pipeline for novel microsatellites and SNPs.
Aquaculture & Fisheries Development Centre Annual Report 2011
10
SECTION 3: Funding - Grant Capture
Funding for research at the AFDC has increased from €7,743,673 in 2009 to €10,156,484 in 2011.
Twenty-one projects were on-going at the AFDC during 2011. National funding sources, mainly the
Marine Institute, account for 61% of the total funding at the AFDC whilst European Union (EU) funding
through the FP7 funding programme and the EU ERDF INTERREG funding programme accounts for 29%
of the total funding for research at the AFDC. Non-exchequer funding has increased from 3% in 2007 to
the current level of 29%. Various national funding bodies including BIM and the Irish Research Council
provide funding for the additional 10% of funding for research at the AFDC.
Figure 1. Allocation of research funding on-going during 2011 from different funding bodies
17%
12%
61%
10%
FP7
EU INTERREG
MI
OTHER
Aquaculture & Fisheries Development Centre Annual Report 2011
11
SECTION 4: Outreach Activities
Newsletter
AFDC/BEES Seminar Series
The AFDC co-hosted a number of seminars during 2011 with the School of Biological, Earth &
Environmental Sciences:
The AFDC produced newsletter is available through our website at http://
afdc.ucc.ie. Researchers from each of the four research themes are invited to
contribute to each issue of the newsletter and it covers a wide variety of topics
related to the research activities which take place throughout the year at the
AFDC. The latest issue is now available online.
Professor Marc E. Frischer, Skidaway Institute
of Oceanography, Georgia, USA – “Where Have
the Blue Crabs Gone? New Approaches to
Disease Discovery in Blue Crabs and other Aquatic
Species” AFDC/BEES Seminar Series, 18th May
2011.
Dr Paddy Sleeman, School of Biological, Earth
& Environmental Sciences, UCC – “Biodiversity
and infectious diseases – towards one health”
AFDC/BEES Seminar Series, 9th December 2011.
Dr Jenny Ovenden, Department of Agriculture,
Fisheries & Forestry, Queensland Government,
Australia – “Genes for conservation and manage-
ment of marine species in tropical Australia" AFDC/
BEES Seminar Series, 13th June 2011
Aquaculture & Fisheries Development Centre Annual Report 2011
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SECTION 5: Degrees Awarded
PhD Theses
Emily Baxter Gelatinous zooplankton in Irish waters: Ecology and role in the gill disorders of marine
farmed salmon. Supervisors: Dr Rob McAllen, Dr Tom Doyle.
Giuliano Greco Natural antifouling in Carcinus maenas: Lessons for marine antifouling technology.
Supervisors: Prof. John Davenport.
Laura Lyons Aspects of the biology of decapods in south west Ireland. Supervisors: Dr Sarah Culloty,
Prof. Tom Cross, Dr Ruth Ramsay.
Aaron Maloy Development and application of molecular-based dietary analyses for marine organisms
and their larvae. Supervisors: Dr Sarah Culloty,
MSc Theses
Michael Galvin The health status of the mussel in Ireland. Supervisors: Dr Sarah Culloty,
Aideen Kane Aspects of the biology of the periwinkle in Ireland. Supervisors: Dr Sarah Culloty,
Dr Ruth O’Riordan.
Catherine Smith The impact of trematodes on burrowing behaviour in cockles.
Supervisors: Dr Sarah Culloty, Dr Tom Kelly.
Alice Doyle Role of salmon in the diet of grey seals. Supervisor: Dr Emer Rogan.
Tara Keena The Acoustic Repertoire of Bottlenose Dolphins in the North-West Atlantic Ocean.”
Supervisor: Dr Emer Rogan.
Aquaculture & Fisheries Development Centre Annual Report 2011
13
SECTION 6: On-going and New Research Grants During 2011
2011 Funding
Cross, T.F. & McGinnity, P. Salmon Scale Analysis: Burrishoole Fishery. University of Turku, Finland,
2011. €16,000
Culloty, S.C. Bioengineered micro-encapsulation of active agents delivered to shellfish (BEADS). EU
FP7 Capacities Support for SME’s Funding Programme, 2011-2013. €303,899.
Culloty, S.C. Management of infectious diseases in oysters and mussels in Europe (BIVALIFE). EU FP7
Funding, 2011-2014. €256,410.
Rogan, E. The genetic structure, foraging ecology, movement patterns and habitat choices of bottlenose
dolphins (Tursiops truncatus) along the west coast of Ireland. School of BEES Crawford Hayes
Scholarship/National Parks and Wildlife Service, 2011-2015. NPWS funding: €45,000
2010 Funding
Cross, T.F., McGinnity, P. & Coughlan, J. Atlantic aquatic resource conservation (AARC). European
Regional Development Fund (ERDF): INTERREG 4 Atlantic Area Programme. 2010-2012, €255,429.
Culloty, S.C. Establishing the scientific bases and technical procedures and standards to recover the
European flat oyster production through strategies to tackle the main constraint bonamiosis
(OYSTERECOVER). EU FP7 Funding, 2010-2013, €730,894.
McGinnity, P., Coughlan, J., Dillane, E. & Cross, T. Ministerial request for mixed stock fisheries analysis
for the Cromane & Waterford Estuary experimental salmon fisheries, 2010-2011. €46,000
Rogan, E. Pilot marine mammal observer programme in Irish pelagic trawl and gillnet fisheries. Bord
Iascaigh Mhara, 2010-2011. €49,999
2009 Funding
Cross, T.F. & McGinnity, P. Celtic Sea Trout project: Genetic Stock Identification of sea trout stocks. EU
INTERREG, 2009-2012, €359,830.
Culloty, S.C. Shellfish productivity in the Irish Sea: working towards a sustainable future (SUSFISH).
ERDF INTERREG 4A, 2009-2012, €618,399.
Sheehan, D., Davenport, J. & Culloty, S.C. Do nanoparticles induce neurodegenerative diseases?
Understanding the origin of reactive oxidative species and protein aggregation and mis-folding
phenomena in the presence of nanoparticles. EU 7th Framework (Prof. D. Sheehan, Biochemistry PI),
2009-2013, €167,000.
2008 Funding
Cross, T.F. & McGinnity, P. SALSEA – Merge: Advancing understanding of salmon at sea: Merging
genetics and ecology to resolve stock specific migration and distribution patterns. EU RTD FP7, 2008-
2011, €254,609.
Cross, T.F. & McGinnity, P. Irish cod breeding programme. Marine Institute, 2008-2015, €213,088.
Rogan E. & E. Codling. Develop and test through simulation a suite of measures that will contribute to
rebuilding depleted fish stocks in waters around Ireland. Marine Institute, 2008-2014, €625,570.
Aquaculture & Fisheries Development Centre Annual Report 2011
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Rogan E. & E. Codling. Modelling the ecology, population dynamics, assessment and management of
Nephrops (Nephrops norvegicus) in the waters around Britain & Ireland. Marine Institute, 2008-2011, €105,000.
Rogan E. & E. Codling. The application of signal detection methods to the fisheries management system.
Marine Institute, 2008-2012, €115,000.
Rogan E. The life history, ecology and dynamics of the Black Scabbard (Aphanopus carbo) in the deep
water ecosystem of the North East Atlantic. Marine Institute, 2008-2012, €115,000.
2007 Funding
Burnell G. & Cummins V. Beaufort Marine Research Award: Ecosystem approach to fisheries management. Irish Government NDP administered by Marine Institute, 2007-2014, €1,860,004.
Cross, T.F. & McGinnity, P. Beaufort Marine Research Award: Fish population genetics. Irish Government NDP administered by the Marine Institute, 2007-2014, €2,710,236.
Aquaculture & Fisheries Development Centre Annual Report 2011
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SECTION 7: Publications
Peer-Reviewed Journals
1. Carlsson, J., Shephard, S., Coughlan, J., Trueman, C.N., Rogan, E. & Cross, T.F. (2011). Fine-
scale population structure in a deep-sea teleost (Orange Roughy, Hoplostethus atlanticus). Deep-Sea
Research Part I-Oceanographic Research Papers, 58:627-636.
2. de Eyto, E., McGinnity, P., Huisman, J., Coughlan, J., Consuegra, S., Farrell, K., Tufto, J., Megens,
H.J., Jordan, W., Cross, T., Stet, R.J.M. 2011. Varying disease-mediated selection at different life
history stages of Atlantic salmon in freshwater. Evolutionary Applications. 4: 6: 749-762.
3. Ellis, J., Gilbey, J. Armstrong, A., Balstad, T., Cauweiler, E., Cherbonnel, C., Consuegra, S.,
Coughlan, J., Cross, T., Crozier, W., Dillane, E., Ensing, D., Garcia de Leaniz, C., Garcia-Vasquez,
E., Griffiths, A., Hindar, K., Hjorleifsdottir, S., Knox, D., Machado-Schiaffino, G., McGinnity, P.,
Meldrop, D., Neilsen, E., Olafsson, K., Primmer, C., Prodöhl, P., Stradmeyer, L., Vaha, J-P.,
Verspoor, E., Wennevik, V. and Stevens, J. 2011. Microsatellite standardisation and evaluation of
genotyping error in a large multi-partner research programme for conservation of Atlantic salmon
(Salmo salar L.). Genetica 139: 353-367.
4. Fermer, J., Culloty, S.C., Kelly, T.C. & O'Riordan, R.M. (2011). Manipulation of Cerastoderma edule
burrowing ability by Meiogymnophallus minutus metacercariae. Journal of The Marine Biological
Association of The United Kingdom, 91 (4):907-911.
5. Fermer, J., Culloty, S.C., Kelly, T.C. & O'Riordan, R.M. (2011). Parasitological survey of the edible
cockle Cerastoderma edule (Bivalvia) on the south coast of Ireland. Journal of the Marine Biological
Association of the United Kingdom, 91 (4):923-928.
6. Foote, A.D., Vilstrup, J.T., De Stephanis, R., Verborgh, P., Abel Nielsen, S.C., Deaville, R., Kleivane,
L., Martin, V., Miller, P.J.O., Øien, N., Pérez-Gil, M., Rasmussen, M., Reid, R.J., Robertson, K.M.,
Rogan, E., Similä, T., Tejedor, M.L., Vester, H., Víkingsson, G.A., Willerslev, E., Gilbert, M.T.P.,
Piertney, S.B.; (2011) Genetic differentiation among North Atlantic killer whale populations. Molecular
Ecology, 20 (3): 629-641.
7. Kraak, S.B.M., and Hart, P.J.B. 2011. Modelling sympatric speciation by means of biologically
plausible mechanistic processes as exemplified by threespine stickleback species pairs. Organisms
Diversity & Evolution, 11: 287-306.
8. Kraak, S.B.M. (2011). Exploring the 'public goods game' model to overcome the Tragedy of the
Commons in fisheries management. Fish And Fisheries, 12: 18-33.
9. Lyons, L.J., O'Riordan, R.M., Cross, T.F. & Culloty, S.C. (2011). Reproductive biology of the shore
crab Carcinus maenas (decapoda: Portunidae): a macroscopic and histological view. Invertebrate
Reproduction and Development.
10. Maloy, A.P., Culloty, S.C., Bolton-Warberg, M., Fitzgerald, R. & Slater, J.W. (2011). Molecular
identification of laser dissected gut contents from hatchery reared larval cod, Gadus morhua: a new
approach to diet analysis. Aquaculture Nutrition, 17:536-541.
11. McCarthy, M., Culloty, S.C. (2011). Optomisation of two immunofluorescent antibodies for the
detection of Escherichia coli using immunofluorescent microscopy and flow cytometry. Current
Microbiology, 62 (2):402-408.
12. Mirimin, L., Banguera-Hinestroza, E., Dillane, E., Hoelzel, A.R., Cross, T.F., Rogan, E. (2011).
Insights into genetic diversity, parentage, and group composition of Atlantic white-sided dolphins
(Lagenorhynchus acutus) off the west of Ireland based on nuclear and mitochondrial genetic markers.
Journal of Heredity, 102(1): 79-87.
Aquaculture & Fisheries Development Centre Annual Report 2011
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13. Mirimin, L. , Miller, R., Dillane, E. , Berrow, S.D. , Ingram, S., Cross, T.F. & Rogan, E. (2011). Fine
-scale population genetic structuring of bottlenose. Animal Conservation, 14 (4): 342-353.
14. O'Mahoney, M., Mouzakitis, G., Doyle, J., & Burnell, G. (2011) A novel konjac glucomannan-
xanthan gum binder for aquaculture feeds: the effect of binder configuration on formulated feed
stability, feed palatability and growth performance of the Japanese abalone, Haliotis discus hannai'.
Aquaculture Nutrition, 17: 395-407.
15. Prinz, K., Kelly, T.C., O'Riordan, R.M. & Culloty, S.C. (2011). Factors influencing cercarial
emergence and settlement in the digenean trematode Parorchis acanthus (Philophthalmidae).
Journal of The Marine Biological Association of The United Kingdom, 91 (8):1673-1679.
16. Thaler, A.D, Zelnio, K., Saleu, W., Schultz, T.F., Carlsson, J.SCunningham, C., Vrijenhoek, R. &
Van Dover, C.L. 2011. The effects of spatial scale on the population dynamics of Ifremeria nautilei, a
hydrothermal vent endemic gastropod from the southwest Pacific. BMC Evolutionary Biology, 11:
372.
Non Peer-Reviewed Articles
1. Caurant F., Chouvelon T., Lahaye V., Mendez-Fernandez P., Rogan E., Spitz J. and Ridoux V.
(2011). The use of ecological tracers for discriminating dolphin population structure: the case of the
short-beaked common dolphin Delphinus delphis in European Atlantic waters. Paper AC18/Doc.5-
02 (P) to the 18th ASCOBANS Advisory Committee Meeting.
2. Kraak, S. B. M., Reid, D. G., Gerritsen, H. D., Fitzpatrick, M., Kelly, C. J., Codling, E. A., & Rogan,
E. (2011). 21st century fisheries management: A spatio-temporally explicit tariff-based approach
combining multiple drivers and incentivising responsible fishing. ICES CM 2011/P:11.
3. Kraak, S. B. M. (2011). Overcoming the "tragedy of the commons" in fishery management. ICES
Insight September 2011.
Reports
1. Rogan, E. & Hernandez-Milian, G. (2011). Preliminary analysis of beaked whale strandings in
Ireland: 1800 – 2009 SC/63/SM 19 Report of the International Whaling Commission.
2. STECF (Scientific, Technical & Economic Committee for Fisheries) (2011). Evaluation of multi-
annual plans for cod in Irish Sea, Kattegat, North Sea, and West of Scotland (STECF-11-07),
reviewed by the STECF during its 37th plenary meeting held from 11 to 25 July, 2011 in
Copenhagen, Denmark. Edited by John Simmonds and Sarah Kraak.
Aquaculture & Fisheries Development Centre Annual Report 2011
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Conference Contributions
Oral Presentations
1. Brown, S., Rogan, E. & Reid, D. (2011). Ecological Risk Assessment for the Effects of Fishing.
ICES Working Group of Fishing Technology and Fish Behaviour, Reykjavik, Iceland, May 2011.
Invited Speaker.
2. Carlsson, J., Cross, T.C. & Culloty, S.C. (2011). The use of genetics in oyster restoration:
experiences from Chesapeake Bay. 14th International Conference on Shellfish Restoration ,
Sterling University, Sterling, Scotland, 23-26 August, 2011.
3. Culloty, S. (2011). Conservation of the native European oyster through control of it’s main pathogen
Bonamia ostreae. 14th International Conference on Shellfish Restoration , Sterling University,
Sterling, Scotland, 23-26 August, 2011. Keynote Speaker.
4. Englund, A., Ingram, S. & Rogan, E. (2011). Using variability in bottlenose dolphin tonal sound to
investigate community structure. 19th Biennial Conference on the Biology of Marine Mammals,
Tampa, Florida, 28 Nov – 02 Dec, 2011.
5. Kraak, S. (2011). Special presentation in the pecha kucha competition. ICES Annual Science
Conference, Gdansk, Poland, 19-23 September, 2011. (http://youtu.be/oZ5oBW2kJhA?t=21m)
6. Kraak, S., Reid, D., Fitzpatrick, M. (2011). Twenty-first century fisheries management: a spatio-
temporally explicit tariff-based approach combining multiple drivers and incentivizing responsible
fishing. ICES Annual Science Conference, Gdansk, Poland, 19-23 September, 2011.
7. Lynch, S.A., Carlsson, J. & Culloty, S.C. (2011). Investigation into the involvement of ostreid
herpes virus 1 (OsHV-1) in summer mortalities of Pacific oyster, Crassostrea gigas, spat and market
sized adults in Ireland. The National Shellfisheries Association, The Sheraton, Baltimore, Maryland,
USA, 27-31 March 2011.
8. Rogan, E., Kavanagh, A., McHugh, B., Englund, A., Hernandez-Milian, G. & Ingram, S. (2011).
Using ecological tracers to help differentiate populations: the case of bottlenose dolphins in Ireland.
19th Biennial Conference on the Biology of Marine Mammals, Tampa, Florida, 28 Nov – 02 Dec,
2011.
9. Spencer, P., Kraak, S,. Trippel, E. (2011). The influence of maternal age on fishery harvest
reference points. ICES Annual Science Conference, Gdansk, Poland, 19-23 September, 2011.
Poster Presentations
1. Brown, S., Reid, D. & Rogan, E. (2011). “Albacore tuna fisheries and megafauna bycatch:
comparing driftnets and pair trawling using Productivity Susceptibility Analysis.” The 25th Annual
Conference of the European Cetacean Society, Cadiz, Spain. March, 2011.
2. Brown, S., Reid, D. & Rogan, E. (2011). Assessing risk to marine mammals from fishing activities:
optimising procedures for cetaceans. 19th Biennial Conference on the Biology of Marine Mammals,
Tampa, Florida. 28 Nov-Dec, 2011.
3. Flannery, G., Lynch, S.A., Carlsson, J., Cross, T. & Culloty, S.C. (2011). The current status of
the pathogen Bonamia ostreae in the European flat oyster Ostrea edulis. 14th International
Conference on Shellfish Restoration, Sterling University, Sterling, Scotland, 23-26 August, 2011.
4. Hernandez-Milian, G. & Rogan, E. (2011). Beaked whales in Irish waters: what can long-term
strandings records tell us? 19th Biennial Conference on the Biology of Marine Mammals, Tampa,
Florida. 28 Nov-Dec, 2011.
Aquaculture & Fisheries Development Centre Annual Report 2011
18
5. Lynch, S., Cross, M., O' Grady, E., Morgan, E., O’ Riordan, R. & Culloty, S. (2011). Shellfish
productivity in the Irish Sea: working towards a sustainable future (SUSFISH). The National
Shellfisheries Association, Baltimore, Maryland, USA, 27-31 March 2011.
6. Lynch, S.A., Morgan, E. & Culloty, S.C. (2011). Investigation into the prevalence and distribution
of pathogens in cultured and wild populations of mussels Mytilus spp. in Ireland. The National
Shellfisheries Association, The Sheraton, Baltimore, Maryland, USA, 27-31 March 2011.
7. Lynch, S.A. & Culloty, S.C. (2011). Haplosporidium nelsoni and Haplosporidium amoricanum. The
National Shellfisheries Association, The Sheraton, Baltimore, Maryland, USA, 27-31 March 2011.
8. Lynch, S., Cross, M., O' Grady, E., Morgan, E., O’Riordan, R. & Culloty, S. (2011). Shellfish
productivity in the Irish Sea: working towards a sustainable future (SUSFISH), 14th International
Conference on Shellfish Restoration , Sterling University, Sterling, Scotland, 23-26 August, 2011.
9. Maloy, A.P., Culloty, S.C., Slater, J.W. (2011). DNA-based dietary analysis of wild bivalve larvae.
Annual meeting of the National Shellfisheries Association, The Sheraton, Baltimore, Maryland, USA,
27-31 March 2011.
10. Maloy, A.P., Culloty, S.C., Slater, J.W., Harrod, C. (2011). DNA-based dietary analysis of adult
bivalves and it concurrence with stable isotopes 13C and 15N. Annual meeting of the National
Shellfisheries Association, The Sheraton, Baltimore, Maryland, USA, 27-31 March 2011.
Other
1. Kraak, S., Pastoors, M. & de Boois, I. (2011). ICES Presentation Competition. ICES Annual
Science Conference, Gdansk, Poland, 19-23 September, 2011.
Aquaculture & Fisheries Development Centre Annual Report 2011
19
NOTES
Aquaculture & Fisheries Development Centre Annual Report 2011
CONTACT:
The Aquaculture & Fisheries Development Centre
School of Biological, Earth & Environmental Sciences
Distillery Fields, North Mall
Cork, Ireland
Director: Dr Sarah Culloty
Manager: Dr Maria O’Mahoney
Email: [email protected]; [email protected]
http://afdc.ucc.ie