Water Quality and Plankton Ecology
D. Prandle, A. Murray and R. Johnson 1990 “Analyses of flux measurements in the
River Mersey.” In: R.T. Cheng, Editor, Residual Currents and Long Term
Transport. Coastal and Estuarine Studies, 38, Springer-Verlag, New York, pp.
413–430.
G. Harris, G. Batley, D. Fox, D. Hall, P. Jernakoff, R. Molloy, A. Murray, B. Newell, J.
Parslow, G. Skyring, S. and Walker, S. 1996 “Port Phillip Bay Environmental
Study Final Report.” CSIRO Press, Canberra, Australia, 240pp [Presented to
the Hon. Jeff Kennett, Premier of Victoria, 30/7/96.
A.G. Murray and J.S. Parslow 1999 “Modelling nutrient impacts in Port Phillip Bay a semi-enclosed marine Australian ecosystem.” Journal of Marine and
Freshwater Research 50, 597-612
J. Parslow and A. Murray 1999 "Introduced marine species and nitrogen cycling in
Port Phillip Bay" Chapter 17 of "Marine Biological Invasions of Port Phillip Bay,
Victoria" R. Thresher, C. Hewitt, R. Martin and M. Campbell (eds), CSIRO
Press, Canberra
A.G. Murray, J.S. Parslow and S.J. Walker 2001 “Modelling treated waste disposal in
Port Phillip Bay and Bass Strait: biogeochemical and physical removal”
Environment International 27, 249-255
S. Hay and A. Murray 2008. “Jellyfish problems faced by the aquaculture industry”
Fish Farmer Magazine October 2008
Marine Algal Virology
A.G. Murray and G.A. Jackson 1992 "Viral dynamics. A model of the effects of size,
shape, motion and abundance of singled-celled organisms and other particles"
Marine Ecology Progress Series 89,103-116
A.G. Murray and G.A. Jackson 1993 "Viral dynamics II. A model of the effects of
ultraviolet light and mixed-layer circulation on virus survival in seawater."
Marine Ecology Progress Series 102, 105-114
A.G. Murray and P.M. Eldridge 1994 "Marine viral ecology: Incorporation of
bacteriophage into the microbial planktonic food web paradigm." Journal of
Plankton Research 16, 627-641
A.G. Murray 1995 "Phytoplankton exudation: exploitation of the microbial loop as a
defence against algal viruses." Journal of Plankton Research, 17 (5) 1079-1094
A.G. Murray 1998 “Modelling the interactions of viruses with the plankton” State-ofthe-art speech, International Conference on Medical Virology, Beijing, China
Fish Disease Modelling
Pilchard Herpesvirus
A.
A.G. Murray, M. O'Callaghan and B. Jones 2000 "The development of a model
of the spread of the pilchard fish kill event in southern Australian waters"
Fisheries Research and Development Corporation Report 99/225 112pp
B. A.G. Murray, M. O’Callaghan and B. Jones 2001 “Simple models of massive
epidemics of herpesvirus in Australian (and New Zealand) pilchards”
Environment International, 27, 243-248
A.G. Murray, M. O'Callaghan and B. Jones 2001 "A model of transmission of a viral
epidemic among schools within a shoal of pilchards" Ecological Modelling, 144,
245-251
A.G. Murray and D.J. Gaughan 2003 “Using an age-structured model to simulate the
recovery of the Australian pilchard (Sardinops sagax) population following
epidemic mass mortality” Fisheries Research, 60, 415-426.
A.G. Murray, M. O'Callaghan and B. Jones 2003. “A Model of Spatially-Evolving
Herpesvirus Epidemics Causing Mass Mortality in Australian Pilchards
(Sardinops sagax).” Disease of Aquatic Organisms 54, 1-14
A.G. Murray 2004 “Managing harvesting to minimise the impact of epidemics on wild
fish stocks.” Natural Resources Modelling 17(2) 103-121
Infectious Salmon Anaemia
R.M. Stagg, D.W. Bruno, C.O. Cunningham, R.S. Raynard, P.D. Munro, A.G.
Murray, C.E.T. Allen, D.A. Smail, A.H. McVicar and T.S. Hastings 2001
“Epizootiological investigations of infectious salmon anaemia (ISA) in Scotland.”
FRS Marine Laboratory Report 13/01
R. Raynard, A.G. Murray and A Gregory 2001 “Infectious Salmon Anaemia Virus
from wild fish in Scotland” Diseases of Aquatic Organisms, 46, 93-100
A.G. Murray, R.J. Smith and R. M. Stagg 2002 “Shipping and the Spread of
Infectious Salmon Anemia in Scottish Aquaculture.” Emerging Infectious
Diseases, 8, 1-5.
P.D. Munro, A.G. Murray, D.I. Fraser and E. J. Peeler 2003. “An evaluation of the
risks of infectious salmon anaemia transmission associated with different
salmon harvesting methods in Scotland.” Ocean and Coastal Management 46,
157-174.
M. Snow, R.S. Raynard, A.G. Murray, D.W. Bruno, J.A. King, R. Grant, I.R. Bricknell,
N. Bain and A. Gregory 2003. “An evaluation of the current diagnostic tests for
the detection of Infectious Salmon Anaemia Virus (ISAV) following experimental
water-borne infection of Atlantic salmon (Salmo salar)”. Journal of Fish
Diseases 26, 135-145
A.G. Murray 2003. The epidemiology of infectious salmon anemia in Scotland. pp5562 In: Miller, Otis; Cipriano, Rocco C., tech. coords. International response to
infectious salmon anemia: prevention, control, and eradication: symposium
proceedings; 3-4 September 2002; New Orleans, LA. Tech. Bull. 1902.
Washington, DC, U.S. Department of Agriculture, Animal and Plant Health
Inspection Service; U.S. Department of the Interior, U.S. Geological Survey;
U.S. Department of Commerce, National Marine Fisheries Service
A.Gregory, L.A. Munro, M. Snow, K.L. Urquhart, A.G. Murray, R.S. Raynard 2009.
“An experimental investigation on aspects of infectious salmon anaemia virus
(ISAV) infection dynamics in seawater Atlantic salmon, Salmo salar L..” Journal
of Fish Diseases, 32, 481-489
A.G. Murray, L.A. Munro, I.S. Wallace, B. Berx, D. Pendrey, D. Fraser, R.S. Raynard
2010. “Epidemiological factors in the re-emergence and control of an outbreak
of infectious salmon anaemia in the Shetland Islands, Scotland.” Diseases of
Aquatic Organisms 91, 189-200
M Hall, I.S. Wallace, L.A. Munro, E.S. Munro, R. McIntosh, P. Cook, C.E.T. Allen,
A.G. Murray 2013. Reliability of individual and pooled test procedures for
detecting the pathogenic agent for clinical salmon anaemia. Journal of Fish
Diseases 36, 741-745
Infectious pancreatic necrosis virus
A.G. Murray, C.D. Busby and D. Bruno 2003 “Infectious pancreatic necrosis virus in
Scottish Atlantic salmon farms, 1996-2001” Emerging Infectious Diseases, 9,
455-460
Anon. 2003 “Final report of the aquaculture health joint working group on infectious
pancreatic necrosis in Scotland.” Fisheries Research Service, Aberdeen 90pp
A.G. Murray, W.A. Lechen, R. Kilburn and R.S. Raynard 2004, “A case-control study
for the identification of risk factors behind clinical outbreaks of infectious
pancreatic necrosis (IPN).” FRS Marine Laboratory Report 06/04
A.G. Murray 2006 “Persistence of infectious pancreatic necrosis virus (IPNV) in
Scottish salmon farms” Preventive Veterinary Medicine 76, 97-106
A.G. Murray 2006 “A model of the spread of infectious pancreatic necrosis virus in
Scottish salmon farms 1996-2003” Ecological Modelling 199, 64-72
I.S. Wallace, A.Gregory, A.G Murray, E.S. Munro, R.S. Raynard 2008. “Distribution
of infectious pancreatic necrosis virus (IPNV) in wild marine fish from Scottish
waters with respect to clinically infected aquaculture sites producing Atlantic
salmon, Salmo salar L.” Journal of Fish Diseases, 31, 177-186
K. Urquhart, Murray, A.G., Gregory, A., O’Dea, M., Munro, L.A., Smail, D.A., Shanks,
A.M. and Raynard, R.S. 2008 “Estimation of infectious dose and viral shedding
rates for infectious pancreatic necrosis virus in Atlantic salmon, Salmo salar L.,
post-smolts”. Journal of Fish Diseases 31, 879-887
N.M. Ruane, A.G. Murray, F. Geoghan and R.S. Raynard 2009 “Modelling the
spread of Infectious Pancreatic Necrosis Virus (IPNV) in the Irish salmon
farming industry: the role of inputs.” Ecological Modelling 220, 1369-1374
Sea lice and hydrodynamics
A.G. Murray 2002 “Using observed load distributions and simple models to analyse
the epidemiology of sea lice (Lepeophtheirus salmonis) on sea trout (Salmo
trutta). Pest Management Science 58, 585-594
P. Gillibrand, D. Hay, M. Penston and A. Murray 2005 “Are salmon farms causing
increased parasitism on wild salmonids in Scotland?” Ocean Challenge 14, 2834
A.G. Murray, T.L. Amundrud and P.A. Gillibrand 2005 “Models of hydrodynamic
pathogen dispersal affecting Scottish salmon production: Modelling shows how
Scotland eradicated ISA, but not IPN.” Bulletin of the Aquaculture Association
of Canada 105-1 80-87
A.G.Murray and P.A. Gillibrand 2006 “Modelling dispersal of larval salmon lice in
Loch Torridon, Scotland.” Marine Pollution Bulletin 53, 128-135
T.L. Amundrud and A.G. Murray 2007 “Validating particle tracking models of sea lice
dispersion in Scottish sea lochs”. ICES CM2007/B:05
T.L. Amundrud and A.G. Murray 2009 “Modelling sea lice dispersal under varying
environmental forcing in a Scottish sea loch.” Journal of Fish Diseases, 32, 2744
A.G. Murray 2011 “A simple model to assess selection of treatment-resistant sea
lice.” Ecological Modelling 222, 1854-1862
A.G. Murray, T.L. Amundrud, M.J. Penston, C.C. Pert and S.J. Middlemas 2011
“Abundance and distribution of larval sea lice in Scottish waters.” Chapter 2 in
(eds) S. Jones and R. Beamish “Salmon Lice” Wiley-Blackwell ISBN 978-08138-1362-2
N.K.G. Salama and A.G. Murray 2011 “Farm size as a factor in hydrodynamic
transmission of pathogens in aquacultural fish production” Aquaculture
Environment Interaction 3, 61-74
N.K.G. Salma, C.M. Collins, J.G. Fraser, J. Dunn, C.C. Pert, A.G. Murray and B.
Rabe 2013 Development of a biophysical dispersal model for sea lice. Journal
of Fish Diseases 36, 223-237
N.K.G. Salama and A.G. Murray 2013 A comparison of modelling approaches to
assess the transmission of pathogens between Scottish fish farms: The rol of
hydrodynamics and site biomass. Preventive Veterinary Medicine 108, 285-293
A.G. Murray and M. Hall 2014 Treatment rates for sea lice of Scottish inshore marine
salmon farms depend on local (sea loch) farmed salmon biomass and
oceanography. Aquaculture Environment Interactions 5, 117-125
Bacterial Kidney Disease
A.G. Murray, L.A. Munro, I..S. Wallace, E.J. Peeler and M.A. Thrush 2011.: Bacterial
Kidney Disease: Assessment of Risk to Atlantic Salmon Farms from Infection in
Trout Farms and Other Sources, Scottish Marine and Freshwater Science Vol 2
No 3 Edinburgh, UK
I S Wallace, L A Munro, R Kilburn, M Hall, J Black, R S Raynard and A G
Murray 2011. A report on the effectiveness of cage-level and farm level
fallowing for the control of diseases (BKD and sleeping disease) on large cagebased trout farms in Scotland Scottish Marine and Freshwater Science Vol 2 No
10, Edinburgh, UK
A.G. Murray, M. Hall, L.A. Munro, I.S. Wallace (2011) Modelling management
strategies for a disease including undetected sub-clinical infection: Bacterial
kidney disease in Scottish salmon and trout farms, Epidemics 3, 171-182
A.G. Murray, L.A. Munro, I.S. Wallace, C.E.T. Allan, E.J. Peeler, M.A. Thrush (2012)
Epidemiology of Renibacterium salmoninarum in Scotland and the potential
for compartmentalised management of salmon and trout farming areas.
Aquaculture, 324-5, 1-13
A.G. Murray and J. Soje. 2012 Epidemiology and economics of bacterial kidney
disease to inform control policy. Fish Veterinary Journal 13, 30-34
A.G. Murray 2013 Implications of leaky boundaries for compartmentalized control of
pathogens: a modeling case study for bacterial kidney disease in Scottish
salmon aquaculture. Ecological Modelling 250, 177-182
Other
A.G. Murray and E.J. Peeler 2005 “A framework for understanding the potential for
emerging diseases in aquaculture.” Preventative Veterinary Medicine 67 (2/3)
223-235
Anon 2005 “Final report of the Aquaculture Health Joint Working Group sub-group
on disease risks and interactions between farmed salmonids and emerging
marine aquaculture species.” Fisheries Research Services, Aberdeen
E.J. Peeler, A.G.Murray, Thebault A., Brun, E., Giovaninni, A. and Thrush M.A. 2007
“The application of risk analysis in aquatic animal health management”
Preventive Veterinary Medicine 81 (3) 3-20 (Special Issue ISVEE XI)
A. Thebault, E.J. Peeler, A.G.Murray, E. Brun, A. Giovaninni, and M.A. Thrush 2007
“Application de la modélisation en santé des espèces aquacoles” Productions
Animales 20, 223-226
A.G. Murray and R.S. Raynard 2007 “Modelling for disease preparedness and
response.” Developments in Biologicals 129, 41-51
A.G. Murray 2008 “Existing and potential use of models in the control and prevention
of diseases affecting aquatic animals” in E.-M. Bernoth (ed) Changing trends in
managing aquatic animal disease emergencies OIE Sci Tech Rev 27(1), 211228
A.G. Murray 2009 “Using simple models to review the application and implications of
different approaches used to simulate transmission of pathogens among
aquatic animals.” Preventive Veterinary Medicine 88, 167-177
M. Werkman, D.M. Green, A.G. Murray and J.F. Turnbull 2011. “The effectiveness of
fallowing strategies in disease control in salmon aquaculture assessed with an
SIS model” Preventive Veterinary Medicine 98, 64-73
J.F. Turnbull, I.K. Berrill, D. Green, R. Kaye, D. Morris, A.G. Murray, J. del-Pozo and
Shinn A. 2011. “Applied epidemiology with examples from UK Aquaculture.”
Aquaculture Research 42, 21-27
M.A. Thrush, E.J. Peeler, A.G. Murray, E. Brun, I.S. Wallace 2011 “The application
of risk and disease modelling to emerging freshwater diseases in wild aquatic
animals.” Freshwater Biology 56, 658-675
R. Kilburn, A. Gregory, A.G. Murray 2012. “Using a Marcov-Chain Monte-Carlo
modeling approach to identify the relative risk to farmed Scottish Rainbow Trout
(Oncorhychus mykiss) in a multi-sector industry of Viral Haemorrhagic
Septicaemia Viruses from introduction and emergent sources.” Ecological
Modelling 237-238, 34-42
R.Kilburn, A.G. Murray, M., Hall, D.W.., Bruno, D, Cockerill and R.S., Raynard 2012
Analysis of a company’s production data to describe the epidemiology and
persistence of pancreas disease in Atlantic salmon (Salmon salar L.) farms of
Western Scotland. Aquaculture 368-369, 89-94
A.G. Murray, M. Marcos-Lopez, B. Collet, L.A. Munro 2012. A review of the risk
posed to Scottish mollusk aquaculture from Bonamia, Maretillia and oyster
herpesvirus. Aquaculture 370-371, 7-13
A.G. Murray 2013 Epidemiology of the spread of viral diseases under aquaculture.
Current Opinions in Virology 3 (1) 74-78
A.G. Murray 2014 A game theory based framework for assessing incentives for local
area collaboration with an application to Scottish salmon farming. Preventive
Veterinary Medicine 115, 255-262
Computing and Data Analysis
A.G. Murray. 1990. "Ada tasking as a tool for ecological modelling" Ada Letters 10,
pp85-90.
A.G. Murray and J.S. Parslow 1999 “The behaviour of a semi-enclosed bay in
response to nutrient loading Dynamical and analytical models”. Ecological
Modelling 119, 149-166.
A.G. Murray, J.S. Parslow, S.J. Walker and J.R. Waring 2000 “Implementation of the
ecosystem module of a coastal environmental model: Port Phillip Bay,
Australia” Environmental Modelling and Software 15, 357-372
A.G. Murray 2001 “The use of simple models in the design and calibration of a
dynamic 2 D model of a semi-enclosed Australian bay.” Ecological Modelling
136, 15-30
M. O’Callaghan and A.G. Murray 2002 “A tractable deterministic model with a
realistic latent period for an epidemic in a linear habitat.” Journal of
Mathematical Biology 44, 227-251
A.G. Murray and M. O’Callaghan. 2005 “The numerical and computing methods
used to implement models of the spread and impact a major epidemic disease:
pilchard herpesvirus, Australia 1995 and 1998/9.” Environmental Modelling and
Software 20, 575-585
S. Soares, J.F. Turnbull, D.M. Green, M. Crumlish and A.G. Murray 2011. A baseline
method for benchmarking mortality losses in Atlantic salmon (Salmo salar)
production. Aquaculture 314, 7-12
M. Werkman, D.M. Green, L.A. Munro, A.G. Murray and J.F. Turnbull 2011.
Seasonality and heterogeneity of live fish movements in Scottish fish farms.
Diseases of Aquatic Organisms 96, 69-82
S. Soares, A.G. Murray, M. Crumlish, J.F. Turnbull and D.M. Green 2012. Evaluating
abnormal mortality as an indicator of disease presence in the Atlantic salmon
industry using the receiver operating characteristic (ROC). Aquaculture 370371, 136-143
S. Soares, A.G. Murray, M. Crumlish, J.F. Turnbull and D.M. Green 2013. Factors
affecting variation in mortality of marine Atlantic salmon Salmo salar from
Scotland. Diseases of Aquatic Organisms 103, 101-109
M. Werkman, A.G. Murray, L.A. Munro, J.F. Turnbull and D.M. Green 2014
Seasonality in live fish movements and its effects on epidemic dynamics.
Aquaculture 418-419, 72-78