Systems biology for salmon farming is what I do. I lead the DigiSal project, whose full title is "Towards the Digital Salmon: From a reactive to a pre-emptive research strategy in aquaculture". DigiSal is part of Digital Life, the first call dedicated to systems biology by the Research Council of Norway. I'm also a lead modeller in GenoSysFat, working to improve the omega-3 content of salmon farmed on sustainable feeds by understanding the interplay between nutrition and genetics ("feeding and breeding"). My broad background in quantitative biology ranges from ecology to climate effects to cardiac modelling. For five years I worked on causally cohesive genotype-phenotype modelling and the analysis and comparison of virtual physiology models. I have also worked within the Infrastructure for Systems Biology Europe (ISBE), laying the foundations for "modelling as a service" to academia and industry.
Master thesis topics available, email me if you're interested and tell me a bit about your background and interests.
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Arbeidsområder
- Biostatistics
- Systems biology
- Aquaculture
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Publikasjoner
First author, shared first, or corresponding
Life-stage associated remodeling of lipid metabolism regulation in Atlantic salmon
Gillard G, Harvey T, ..., Vik JO, Sandve SR
Molecular Ecology, accepted for publication (2017)
Nordbø Ø, Gjuvsland AB, …, Vik JO
Journal of The Royal Society Interface, 2015
A call for virtual experiments: accelerating the scientific process
Cooper J, Vik JO, Waltemath D
Progress in Biophysics and Molecular Biology, 2015
A computational pipeline for quantification of mouse myocardial stiffness parameters
Nordbø Ø, Lamata P, …, Vik JO
Computers in Biology and Medicine, 2014
Bridging the genotype–phenotype gap: what does it take?
Gjuvsland AB, Vik JO, Beard DA, Hunter PJ, Omholt SW
The Journal of Physiology, 2013
Genotype–phenotype map characteristics of an in silico heart cell
Vik JO, Gjuvsland AB, Li L, Tøndel K, Niederer SA, Smith NP, et al.
Frontiers in Physiology, 2011
Interlinking hare and lynx dynamics using a century’s worth of annual data
Vik JO, Brinch CN, Boutin S, Stenseth NC
Population Ecology, 2008
Living in synchrony on Greenland coasts?
Vik JO, Stenseth NC, Tavecchia G, Mysterud A, Lingjaerde OC (2004)
Nature 427(6976): 697–698.
Cannibalism governing mortality of juvenile brown trout, Salmo trutta,
in a regulated streamVik JO, Borgstrøm R, Skaala Ø
Regulated Rivers: Research & Management, 2001
Co-author
A stable core gut microbiota across freshwater-to-saltwater transition for farmed Atlantic salmon
Rudi K, Angell IL, Pope PB, Vik JO, Sandve SR, Snipen LG
Applied and Environmental Microbiology, 2017
Interoperable genome annotation with GBOL, an extendable infrastructure for functional data mining
van Dam JCJ, Koehorst JJJ, Vik JO, Schaap PJ, Suarez-Diez M
bioRxiv preprint, 2017
Macqueen et al.
BMC Genomics, 2017
The Atlantic salmon genome provides insights into rediploidization
Lien S, Koop BF, Sandve SR, Miller JR, Kent MP, Nome T, Hvidsted TR, Leong JS, Minkley DR, Zimin A, Grammes F, Grove H, Gjuvsland A, Walenz B, Hermansen RA, von Schalburg K, Rondeau EB, Di Genova A, Samy JKA, Vik JO, et al.
Nature, 2016
Tøndel K, Vik JO, Martens H, Indahl UG, Smith N, Omholt SW
Chemometrics and Intelligent Laboratory Systems, 2013
Effect of regulatory architecture on broad versus narrow sense heritability
Wang Y, Vik JO, Omholt SW, Gjuvsland AB
PLoS Computational Biology, 2013
Parameters in dynamic models of complex traits are containers of missing heritability
Wang Y, Gjuvsland AB, Vik JO, Smith NP, Hunter PJ, Omholt SW
PLoS Computational Biology, 2012
Gjuvsland AB, Vik JO, Woolliams JA, Omholt SW
Journal of Evolutionary Biology, 2011
Relaxation oscillations in spruce-budworm interactions
Rasmussen A, Wyller J, Vik JO
Nonlinear Analysis: Real World Applications, 2011
Tøndel K, Indahl UG, Gjuvsland AB, Vik JO, Hunter P, Omholt SW, et al.
BMC Systems Biology, 2011
Temporal scales, trade-offs, and functional responses in red deer habitat selection
Godvik IMR, Loe LE, Vik JO, Veiberg V, Langvatn R, Mysterud A
Ecology, 2009
Wavelet analysis of ecological time series
Cazelles B, Chavez M, Berteaux D, Ménard F, Vik JO, Jenouvrier S, et al.
Oecologia, 2008
Mushroom fruiting and climate change
Kauserud H, Stige LC, Vik JO, Økland RH, Høiland K, Stenseth NC
Proceedings of the National Academy of Sciences, 2008
Linking climate change to lemming cycles
Kausrud KL, Mysterud A, Steen H, Vik JO, Østbye E, Cazelles B, et al.
Nature, 2008
Saitoh T, Vik JO, Stenseth NC, Takanishi T, Hayakashi S, Ishida N, et al.
Population Ecology, 2008Daase M, Vik JO, Bagøien E, Stenseth NC, Eiane K
Journal of Plankton Research, 2007
Response to Comment on “Rapid advance of spring arrival dates
in long-distance migratory birds”Jonzén N, Lindén A, Ergon T, Knudsen E, Vik JO, Rubolini D, et al.
Science, 2007
Knudsen E, Lindén A, Ergon T, Jonzén N, Vik JO, Knape J, et al.
Climate Research, 2007
Rapid advance of spring arrival dates in long-distance migratory birds
Jonzén N, Lindén A, Ergon T, Knudsen E, Vik JO, Rubolini D, et al.
Science, 2006
Effects of regime shifts on the population dynamics of the grey-sided vole
in Hokkaido, JapanSaitoh T, Cazelles B, Vik JO, Viljugrein H, Stenseth NC
Climate Research, 2006
Selås V, Vik JO
Biodiversity and Conservation, 2006
Selås V, Vik JO
Journal of Zoology, 2006
Using the satellite-derived NDVI to assess ecological responses to environmental change
Pettorelli N, Vik JO, Mysterud A, Gaillard J-M, Tucker CJ, Stenseth NC
Trends in Ecology & Evolution, 2005
Reports, book chapters and theses
ISBE Deliverable D8.3: How to organise and run an ISBE modelling service
Vik JO, Omholt SW, et al.
Infrastructure for Systems Biology Europe, 2015
ISBE Deliverable D8.2: Resource assessment for a European modelling service
Vik JO, Omholt SW, et al.
Infrastructure for Systems Biology Europe, 2015
ISBE Deliverable D8.1: Portfolio of showcases illustrating the impact of modelling
Höfer T, ..., Omholt SW, Vik JO
Infrastructure for Systems Biology Europe, 2014
From genotype to phenotype
Vik JO, Gjuvsland AB, de Bono B, Omholt SW (2014)
Computational biomedicine: modelling the human body, p 33-58
Oxford University Press
The digital salmon - key to both more science and more profit
Omholt SW, Gjuvsland AB, Vik JO
Food from the ocean - Norway’s opportunities, p 81–112
Novus, Oslo, Norway, 2013
PLS-Based Multivariate Metamodeling of Dynamic Systems
Martens H, Tøndel K, Tafintseva V, Kohler A, Plahte E, Vik JO, et al.
New Perspectives in Partial Least Squares and Related Methods. Springer, 2013
State-dependency of process rates: a clear concept of feedback in ecology
Vik JO, Omholt SW
Synthetic and Integrative Biology: Parts and Systems, Design Theory and Application, p 93–103
Nova Science Publishers, 2010
Feedback and population regulation by piscivory
in Arctic charr Salvelinus alpinus and brown trout Salmo truttaVik JO
Agricultural University of Norway, Dr.scient. thesis, 2002
Individual-based models for the management of freshwater fish populations
Vik JO
Agricultural University of Norway, Cand.agric. thesis, 1996
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Undervisning
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Forskning & prosjekt
Prosjekter
How can we increase the omega-3 content of salmon that are fed sustainable feeds? A brand new map of the salmon's genome makes it much easier to characterize heritable differences in how well different salmon families utilize the various nutrients.
Systems biology will aid sustainability in salmon farming. Scarcity of fish oil has forced development of novel feedstuffs, challenging the salmon's metabolism as well as our understanding of it.
Forskningsområder
Tema:
- Akvakultur
- Biovitenskap
Spesialområder:
- Mathematical modelling
- Systems biology
Forskningsområder:
- Biofag
- Bioteknologi
- Informasjonsteknologi
- Matematikk og naturvitenskap
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Annet
Projects:
- DigiSal: Towards the Digital Salmon: From a reactive to a pre-emptive research strategy in aquaculture
- GenoSysFat: Integrating genomics and system biology to improve the capacity for synthesis, transport, and filet deposition of EPA/DHA in salmon.
