Modelling the spread of infectious salmon anaemia among salmon farms based on seaway distances between farms and genetic relationships between infectious salmon anaemia virus isolates

Journal of the Royal Society Interface

Volumn 8, Issue 62, 2011, Pages 1346-1356

  Aldrin, M ^a   Lyngstad, T M ^b   Kristoffersen, A B ^b,c   Storvik, B ^a   Borgan, O ^c   Jansen, P A ^b  

^a NORWEGIAN COMPUTING CENTER   (Norway)

^b NORWEGIAN VETERINARY INSTITUTE   (Norway)

^c UNIVERSITY OF OSLO   (Norway)

Author keywords

Genetic distance; Infection pathway; Infection rate; Space time data

Indexed keywords

ATLANTIC SALMON; FARMED SALMON; GENETIC DISTANCES; GENETIC RELATIONSHIPS; INFECTION PATHWAY; INFECTION RATES; INFECTIOUS DISEASE; NEIGHBOURHOOD; PHYLOGENETIC RELATIONSHIPS; SPACE-TIME DATA;

OILS AND FATS; VIRUSES;

FARMS;

GENETIC DISTANCE; GENOTYPE; INFECTION RATE; INFECTION RISK; INFECTIOUS SALMON ANEMIA; INFECTIOUS SALMON ANEMIA VIRUS; NONHUMAN; ORTHOMYXOVIRUS; PISCICULTURE; REVIEW; SALMON; STOCHASTIC MODEL; VIRUS ISOLATION;

ANIMALS; AQUACULTURE; COHORT STUDIES; DISEASE OUTBREAKS; FISH DISEASES; GENOTYPE; ISAVIRUS; MODELS, BIOLOGICAL; NORWAY; ORTHOMYXOVIRIDAE INFECTIONS; PHYLOGENY; SALMO SALAR; STOCHASTIC PROCESSES;

INFECTIOUS SALMON ANEMIA VIRUS; SALMO SALAR;

EID: 79961112111     PISSN: 17425689     EISSN: 17425662     Source Type: Journal    
DOI: 10.1098/rsif.2010.0737     Document Type: Review

References (30)

1. Archie, E. A., Luikart, G. & Ezenwa, V. O. 2009 Infecting epidemiology with genetics: a new frontier in disease ecology. Trends Ecol. Evol. 24, 21-30. (doi:10.1016/j.tree.2008.08.008)
2. Keeling, M. J. et al. 2001 Dynamics of the 2001 UK foot and mouth epidemic: stochastic dispersal in a heterogeneous landscape. Science 294, 813-817. (doi:10.1126/science.1065973)
3. Diggle, P. J. 2006 Spatio-temporal point processes, partial likelihood, foot and mouth disease. Stat. Methods Med. Res. 15, 325-336. (doi:10.1191/0962280206sm454oa)
4. Höhle, M. 2009 Additive-multiplicative regression models for spatio-temporal epidemics. Biomet. J. 51, 961-978. (doi:10.1002/bimj.200900050)
5. Scheel, I., Aldrin, M., Frigessi, A. & Jansen, P. A. 2007 A stochastic model for infectious salmon anemia (ISA) in Atlantic salmon farming. J. R. Soc. Interface 4, 699-706. (doi:10.1098/rsif.2007.0217)
6. Aldrin, M., Storvik, B., Frigessi, A., Viljugrein, H. & Jansen, P. A. 2010 A stochastic model for the assessment of the transmission pathways of heart and skeleton muscle inflammation, pancreas disease and infectious salmon anaemia in marine fish farms in Norway. Prev. Vet. Med. 93, 51-61. (doi:10.1016/j.prevetmed.2009.09.010)
7. Wallace, R. G., Hodac, H., Lathrop, R. H. & Fitch, W. M. 2007 A statistical phylogeography of influenza A H5N1. Proc. Natl Acad. Sci. USA 104, 4473-4478. (doi:10.1073/pnas.0700435104)
8. Cottam, E. M., Thebaud, G., Wadsworth, J., Gloster, J., Mansley, L., Paton, D. J., King, D. P. & Haydon, D. T. 2008 Integrating genetic and epidemiological data to determine transmission pathways of foot-and-mouth disease virus. Proc. R. Soc. B 275, 887-895. (doi:10.1098/rspb.2007.1442)
9. OIE. 2010 Infectious salmon anaemia. In Manual of diagnostic tests for aquatic animals 2010, pp. 222-235. Paris, Italy: World Organization for Animal Health. See http://www.oie.int/eng/normes/fmanual/a-summry.htm.
10. Mardones, F. O., Perez, A. M. & Carpenter, T. E. 2009 Epidemiologic investigation of the re-emergence of infectious salmon anemia virus in Chile. Dis. Aquat. Org. 84, 105-114. (doi:10.3354/dao02040)
11. FIS. 2010 (Fish Information&Services). Salmon industry lost USD2,000 million due to ISAvirus. See http://www.fis.com/-fis/worldnews/worldnews.asp?l= e&id=39160&ndb=1.
12. Kawaoka, Y. et al. 2005 Infectious salmon anaemia virus. In Virus taxonomy-eight report of the international committee on taxonomy viruses (eds C. M. Fauquet, M. A. Mayo, J. Maniloff, U. Desselberger & L. A. Ball), pp. 681-693, New York, NY: Elsevier Academic Press.
13. Mjaaland, S., Rimstad, E., Falk, K. & Dannevig, B. H. 1997 Genomic characterization of the virus causing infectious salmon anemia in Atlantic salmon (Salmo salar L.): an orthomyxo-like virus in a teleost. J. Virol. 71, 7681-7686. (Pubitemid 27391712)
14. Krossøy, B. et al. 2001 Cloning and identification of the infectious salmon anaemia virus haemagglutinin. J. Gen. Virol. 82, 1757-1765. (Pubitemid 32611518)
15. Mjaaland, S., Hungnes, O., Teig, A., Dannevig, B. H., Thorud, K. & Rimstad, E. 2002 Polymorphism in the infectious salmon anemia virus hemagglutinin gene: importance and possible implications for evolution and ecology of infectious salmon anemia disease. Virology 304, 379-391. (doi:10.1006/viro.2002.1658)
16. Devold, M., Falk, K., Dale, O. B., Krossøy, B., Biering, E., Aspehaug, V., Nilsen, F. & Nylund, A. 2001 Strain variation, based on the hemagglutinin gene, in Norwegian ISA virus isolates collected from 1987 to 2001: indications of recombination. Dis. Aquat. Org. 47, 119-128. (doi:10.3354/dao047119)
17. Nylund, A., Devold, M., Plarre, H., Isdal, E. & Aarseth, M. 2003 Emergence and maintenance of infectious salmon anaemia virus (ISAV) in Europe: a new hypothesis. Dis. Aquat. Org. 56, 11-24. (doi:10.3354/dao056011)
18. Kibenge, F. S. et al. 2009 Infectious salmon anaemia virus (ISAV) isolated from the ISA disease outbreaks in Chile diverged from ISAV isolates from Norway around 1996 and was disseminated around 2005, based on surface glycoprotein gene sequences. Virol. J. 6, 88. (doi:10.1186/1743-422X-6-88)
19. Lyngstad, T. M., Hjortaas, M. J., Kristoffersen, A. B., Markussen, T., Karlsen, E. T., Jonassen, C. M. & Jansen, P. A. 2011 Use of molecular epidemiology to trace transmission pathways for infectious salmon anaemia virus (ISAV) in Norwegian salmon farming. Epidemics 3, 1-11. (doi:10.1016/j.epidem. 2010.11.001)
20. Kristoffersen, A. B., Viljugrein, H., Kongtorp, R. T., Brun, E. & Jansen, P. A. 2009 Risk factors for pancreas disease (PD) outbreaks in farmed Atlantic salmon and rainbow trout in Norway during 2003-2007. Prev. Vet. Med. 90, 127-136. (doi:10.1016/j.prevetmed.2009.04.003)
21. Gustafson, L. L., Ellis, S. K., Beattie, M. J., Chang, B. D., Dickey, D. A., Robinson, T. L., Marenghi, F. P., Moffett, P. J. & Page, F. H. 2007 Hydrographics and the timing of infectious salmon anemia outbreaks among Atlantic salmon (Salmo salar L.) farms in the Quoddy region of Maine, USA and New Brunswick, Canada. Prev. Vet. Med. 78, 35-56. (doi:10.1016/j.prevetmed. 2006.09.006)
22. Kimura, M. 1980 A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16, 111-120. (doi:10.1007/BF01731581)
23. Markussen, T., Jonassen, C. M., Numanovic, S., Braaen, S., Hjortaas, M., Nilsen, H. & Mjaaland, S. 2008 Evolutionary mechanisms involved in the virulence of infectious salmon anaemia virus (ISAV), a piscine orthomyxovirus. Virology 374, 515-527. (doi:10.1016/j.virol.2008.01.019)
24. Cox, D. R. 1975 Partial likelihood. Biometrika 62, 269-276. (doi:10.1093/biomet/62.2.269)
25. Aalen, O. O., Borgan, Ø. & Gjessing, H. K. 2008 Survival and event history analysis - a process point of view. New York, NY: Springer. (doi:10.1007/978-0-387-68560-1)
26. Jarp, J. & Karlsen, E. 1997 Infectious salmon anaemia (ISA) risk factors in sea-cultured Atlantic salmon Salmo salar. Dis. Aquat. Org. 28, 79-86. (doi:10.3354/dao028079)
27. Murray, A. G., Amundrud, T. L. & Gillibrand, P. A. 2005 Models of hydrodynamic pathogen dispersal affecting Scottish salmon production:Modelling shows howScotland eradicated ISA, but not IPN. Bull. Aquat. Assoc. Can. 105, 80-87.
28. Murray, A. G., Munro, L. A., Wallace, I. S., Berx, B., Pendrey, D., Fraser, D. & Raynard, R. S. 2010 Epidemiological investigation into the re-emergence and control of an outbreak of infectious salmon anaemia in the Shetland Islands, Scotland. Dis. Aquat. Org. 91, 189-200. (doi:10.3354/dao02262)
29. Norwegian Food Safety Authority. 2007 Contingency plan for control of ISA in Norway. See http://www.mattilsynet.no/smittevern-og-bekjempelse/fisk/ila/ regelverk-bekjempelsesdokumenter/bekjempelsesplan-for-infeksi-s-lakseanemi-ila- 20149 accessed 25 Nov 2010.
30. Viljugrein, H., Staalstrom, A., Molvaer, J., Urke, H. A. & Jansen, P. A. 2009 Integration of hydrodynamics into a statistical model on the spread of pancreas disease (PD) in salmon farming. Dis. Aquat. Org. 88, 35-44. (doi:10.3354/dao02151)