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MSS Publications 2016/17

Peer reviewed papers

Adams, S., D. Hoole, J. McArdle, M. Metselaar, E. Munro, P. Smith, K. Thompson, and D. Verner-Jeffreys. 2016. EAFP UK and Ireland Branches Second Meeting: "Aquatic animal health in a changing world". Bulletin Of The European Association Of Fish Pathologists 36 (5):183-185.

Amorim, A. L., P. Leon, J. M. Mercado, D. Cortes, F. Gomez, S. Putzeys, S. Salles, and L. Yebra. 2016. Controls of picophytoplankton abundance and composition in a highly dynamic marine system, the Northern Alboran Sea (Western Mediterranean). Journal Of Sea Research 112:13-22.

Asjes, A., J.M. González-Irusta, and P.J. Wright. 2016. Age-related and seasonal changes in haddock (Melanogrammus aeglefinus) distribution: implications for spatial management. Marine Ecology Progress Series 553:203-217.

Ball, R. E., B. Serra-Pereira, J. Ellis, M. J. Genner, S. Iglesias, A. F. Johnson, C. S. Jones, R. Leslie, J. Lewis, S. Mariani, G. Menezes, F. Neat, L. R. Noble, D. W. Sims, and A. M. Griffiths. 2016. Resolving taxonomic uncertainty in vulnerable elasmobranchs: are the Madeira skate (Raja maderensis) and the thornback ray (Raja clavata) distinct species? Conservation Genetics 17 (3):565-576.

Beaulieu, C., H. Cole, S. Henson, A. Yool, T. Anderson, L. de Mora, E. T. Buitenhuis, M. Butenschon, I. J. Totterdell, and J. I. Allen. 2016. Marine regime shifts in ocean biogeochemical models: a case study in the Gulf of Alaska. Biogeosciences 13 (15):4533-4553.

Benedicenti, O., C. Secombes, U. McCarthy, and C. Collins. 2016. Atlantic salmon physiological and immune response to amoebic gill disease and insight into the biology of the amoeba. Fish & Shellfish Immunology 53:83-84.

Benedicenti, O., T. Wang, E. Wangkahart, D.J. Milne, J.W. Holland, C. Collins, and C.J. Secombes. 2017. Characterisation of arginase paralogues in salmonids and their modulation by immune stimulation/ infection. Fish and Shellfish Immunology 61:138-151.

Berdalet, E., R. Kudela, E. Urban, H. Enevoldsen, N.S. Banas, E. Bresnan, M. Burford, K. Davidson, C.J. Gobler, B. Karlson, P.T. Lim, L. Mackenzie, M. Montresor, V.L. Trainer, G. Usup, and K. Yin. 2017. GlobalHAB: A new program to promote international research, observations and modelling of harmful algal blooms in aquatic systems. Oceanography 30 (1):71-79.

Berx, B., and M.R. Paynes. 2017. The sub-polar gyre index - a comunity data set for application in fisheries and environmental research. Earth System Science Data 9:259-266.

Blackett, M., C.H. Lucas, K. Cook, and P.  Licandro. 2017. Occurrence of the siphonophore Muggiaea atlantica in Scottish coastal waters: source or sink? Journal of Plankton Research 39 (1):122-137.

Borja, A., M. Elliott, P.V.R. Snelgrove, M.C. Austen, T. Berg, S. Cochrane, J. Carstensen, R. Danovaro, S. P. R. Greenstreet, A-S. Heikanen, C.P. Lynam, M. Mea, A. Newton, J. Patricio, L. Uusitalo, M.C. Uyarra, and C. Wilson. 2016. Bridging the gap between policy and science in assessing the health status of marine ecosystems. Frontiers in Marine Science 3 (Article 175).

Boyle, K., M. J. Kaiser, S. Thompson, L. G. Murray, and P. F. Duncan. 2016. Spatial variation in fish and invertebrate bycatches in a scallop trawl fishery. Journal Of Shellfish Research 35 (1):7-15.

Bresnan, E., R.J. Fryer, S. Fraser, N. Smith, L. Stobo, N. Brown, and E. Turrell. 2017. The relationship between Pseudo-nitzschia (Peragallo) and domoic acid in Scottish shellfish. Harmful Algae 63:193-202.

Buddendorf, W.B., I.A. Malcolm, J. Geris, M. Wilkinson, and C. Soulsby. In press. Metrics to assess how longitudinal channel network connectivity and in-stream Atlantic salmon habitats are impacted by hydropower regulation. Hydrological Processes

Burgeot, T., F. Akcha, D. Menard, C.D. Robinson, V. Loizeau, C. Brach-Papa, C. Martínez-Gómez, J. Le Goff, H. Budzinski, K. Le Menach, J. Cachot, C. Minier, K. Breog, and K.   Hylland. 2017. Integrated monitoring of chemicals and their effects on four sentinel species, Limanda limanda, Platichthys flesus, Nucella lapillus and Mytilus sp, in Seine Bay: a key step towards applying biological effects to monitoring. Marine Environmental Research 124:90-105.

Burton, T., G. Robertsen, D. C. Stewart, S. McKelvey, J. D. Armstrong, and N. B. Metcalfe. 2016. Maternal age at maturation underpins contrasting behavior in offspring. Behavioral Ecology 27 (5):1280-1287.

Cano, I., B. Collet, C. Pereira, R. Paley, R. van Aerle, D. Stone, and N. G. H. Taylor. 2016. In vivo virulence of viral haemorrhagic septicaemia virus (VHSV) in rainbow trout Oncorhynchus mykiss correlates inversely with in vitro Mx gene expression. Veterinary Microbiology 187:31-40.

Christiansen, D.H., A.J.A. McBeath, M. Aamelfot, I. Matejusova, M. Fourrier, P. White, P.E. Petersen, and K.  Falk. 2017. First field evidence of the evolution from a non-virulent HPR0 to a virulent HPR-deleted infectious salmon anaemia virus (ISAV). Journal of General Virology 98 (4):595-606.

Collins, C., M. Hall, D. Bruno, J. Sokolowska, L. Duncan, R. Yuecel, U. McCarthy, M.J. Fordyce, C.C. Pert, R. McIntosh, and Z. MacKay. 2017. Generation of Paramoeba perurans clonal cultures using flow cytometry and confirmation of virulence. Journal of Fish Diseases 40:351-365.

Dehler, C. E., P. Boudinot, S. A. M. Martin, and B. Collet. 2016. Development of an Efficient Genome Editing Method by CRISPR/Cas9 in a Fish Cell Line. Marine Biotechnology 18 (4):449-452.  

Eckford-Soper, L.K., E. Bresnan, J-P Lacaze, and D.H. Green. 2016. The competitive dynamics of toxic Alexandrium fundyense and non-toxi Alexandrium tamarense: The role of temperature. Harmful Algae 53:135-144.

Edwards, E.W.J., L.R. Quinn, and P.M. Thompson. 2016. State-space modelling of geolocation data reveals sex differences in the use of management areas by breeding northern fulmars. Journal of Applied Ecology 53 (6):1880-1889.

Eerkes-Medrano, D., R.J. Fryer, K.B. Cook, and P.J. Wright. 2017. Are simple environmental indicators of food web dynamics reliable: exploring the kittiwake - temperature relationship. Ecological Indicators 75:36-47.

Elliott, S. A. M., P. A. Ahti, M. R. Heath, W. R. Turrell, and D. M. Bailey. 2016. An assessment of juvenile Atlantic cod Gadus morhua distribution and growth using diver operated stereo-video surveys. Journal Of Fish Biology 89 (2):1190-1207.

Evans, C.D., I.A. Malcolm, E.M. Shilland, N.L. Rose, S.D. Turner, A. Crilly, D. Norris, G. Granath, and D.T. Monteith. 2016. Sustained biogeochemical impacts of wildfire in a mountain lake catchment. Ecosystems Online first.

Fernandes, P.G., P. Copland, R. Garcia, T. Nicosevici, and B. Scoulding. 2016. Additional evidence for fisheries acoustics: small cameras and angling gear provide tilt angle distributions and other relevant data for mackerel surveys. ICES Journal of Marine Science 73 (8):2009-2019.

Fourrier, M. C. S., and B. Collet. 2017. Production of infectious salmon anaemia virus (ISAV) ribonucleoprotein complexes using a mammalian cell based minigenome system. Journal Of Virological Methods 239:75-82.

Fourrier, M. C. S., M. M. Monte, and E. S. Munro. 2017. Sexual maturation in Atlantic salmon induces a constitutive Mx protein production and influences the infectious pancreatic necrosis virus carrier-status. Fish and Shellfish Immunology 62:217-220.

Gaither, M. R., B. Violi, H. W. I. Gray, F. Neat, J. C. Drazen, R. D. Grubbs, A. Roa-Varon, T. Sutton, and A. R. Hoelzel. 2016. Depth as a driver of evolution in the deep sea: Insights from grenadiers (Gadiformes: Macrouridae) of the genus Coryphaenoides. Molecular Phylogenetics And Evolution 104:73-82.

Gallego, A., F.M. Gibb, D. Tullet, and P.J. Wright. 2016. Bio-physical connectivity patterns of benthic marine species used in the designation of Scottish nature conservation Marine Protected Areas. ICES Journal of Marine Science (Special Theme Set "Beyond ocean connectivity") 74(6): 1797-1811.

Gallego, A., J. Side, S. Baston, S. Waldman, M. Bell, M. James, I. Davies, R. O’Hara Murray, M. Heath, A. Sabatino, D. McKee, C. McCaig, H. Karunarathna, I. Fairley, A. Chatzirodou, V. Venugopal, R. Nemalidinne, T.Z. Yung, A. Vögler, R. MacIver, and M. Burrows. 2017. Large scale three-dimensional modelling for wave and tidal energy resource and environmental impact: Methodologies for quantifying acceptable thresholds for sustainable exploitation. Ocean and Coastal Management 147:67-77.

Gallon, S.L., D. Thompson, and S.J. Middlemas. 2017. What should I eat? Experimental evidence for prey selection in grey seals. Animal Behaviour 123:35-41.

Gastauer, S., S. M. M. Fassler, C. O'Donnell, A. Hoines, J. A. Jakobsen, A. I. Krysov, L. Smith, O. Tangen, V. Anthonypillai, E. Mortensen, E. Armstrong, M. Schaber, and B. Scoulding. 2016. The distribution of blue whiting west of the British Isles and Ireland. Fisheries Research 183:32-43.

Gee, K., A. Kannen, R. Adlam, C. Brooks, M. Chapman, R. Cormier, C. Fischer, S. Fletcher, M. Gubbins, R. J. Shucksmith, and R. Shellock. 2017. Identifying culturally significant areas for marine spatial planning. Ocean and Coastal Management 136:139-147.

Gibb, F.M., T. Regnier, K. Donald, and P.J. Wright. 2017. Connectivity in the early life history of sandeel inferred from otolith microchemistry. Journal of Sea Research 119:8-16.

Gibbins, C. N., J. Grant, I. A. Malcolm, and C. Soulsby. 2016. Influence of groundwater chemistry on hyporheic invertebrate assemblages is revealed by fine-scale sampling. Fundamental And Applied Limnology 187 (3):207-221.

Gilbey, J., E. Cauwelier, M.W. Coulson, L. Stradmeyer, J.M. Sampayo, A. Armstrong, E. Verspoor, L. Corrigan, J. Shelley, and S.J Middlemas. 2016. Accuracy of assignment of Atlantic Salmon (Salmo salar L.) to rivers and regions in Scotland and northeast England based on single nucleotide polymorphism (SNP) markers. PloS One 11 (10):e0164327.

Gilbey, J., V. Wennevikb, I.R. Bradbury, P. Fiske, L.P. Hansen, J.A. Jacobsen, and T. Potter. 2017. Genetic stock identification of Atlantic salmon caught in the Faroese fishery. Fisheries Research 187:110-119.

González-Irusta, J.M., and P.J. Wright. 2016. Spawning grounds of haddock (Melanogrammus aeglefinus) in the North Sea and West of Scotland. Fisheries Research 183:180-191.

Gubili, C., K. Macleod, W. Perry, P. Hanel, I. Batzakas, E. D. Farrell, A. Lynghammar, C. Mancusi, S. Mariani, G. M. Menezes, F. Neat, G. Scarcella, and A. M. Griffiths. 2016. Connectivity in the deep: Phylogeography of the velvet belly lanternshark. Deep-Sea Research Part I-Oceanographic Research Papers 115:233-239.

Hansson, T., J. Thain, C. Martínez-Gómez, K. Hylland, M. Gubbins, and L. Balk. In press. Supporting variables for biological effects measurements in fish and blue mussel. ICES Techniques in Marine Environmental Sciences.

Harte, A.J., A.S. Bowman, N.K.G. Salama, and C.C.  Pert. 2017. Factors influencing the long-term dynamics of larval sea lice density at east and west coast locations in Scotland. Diseases Of Aquatic Organisms 123:181-192.

Heath, M., A. Sabatino, N. Serpetti, C. McCaig, and R. O’Hara Murray. 2016. Modelling the sensitivity of suspended sediment profiles to tidal current and wave conditions. Ocean and Coastal Management Online first.

Hoare, R., K. D. Thompson, T. Herath, B. Collet, J. E. Bron, and A. Adams. 2016. Development, characterisation and application of monoclonal antibodies for the detection and quantification of infectious salmon anaemia virus in plasma samples using luminex bead array technology. Plos One 11 (7).

Hojesjo, J., R. Kaspersson, and J. D. Armstrong. 2016. Size-related habitat use in juvenile Atlantic salmon: the importance of intercohort competition. Canadian Journal Of Fisheries And Aquatic Sciences 73 (8):1182-1189.

Hylland, K., and M.J. Gubbins. 2017. Editorial. Marine Environmental Research 124:1.

Hylland, K., C.D. Robinson, T. Burgeot, C. Martínez-Gómez, T. Lang, J. Svavarsson, J.E. Thain, A.D. Vethaak, and M.J.   Gubbins. 2017. Integrated chemical and biological assessment of contaminant impacts in selected European coastal and offshore marine areas. Marine Environmental Research 124:130-138.

Hylland, K., B.B. Skei, G. Brunborg, T. Lang, M. J. Gubbins, J. le Goff, and T. Burgeot. 2017. DNA damage in dab (Limanda limanda) and haddock (Melanogrammus aeglefinus) from European seas. Marine Environmental Research 124:54-60.

Jackson, F., D.M. Hannah, R.J. Fryer, C.P. Millar, and I.A. Malcolm. 2017. Development of spatial regression models for predicting summer river temperatures from landscape characteristics: implications for land and fisheries management. Hydrological Processes 31 (6):1225-1238.

Jones, E.L., G.D. Hastie, S. Smout, J. Onoufriou, N.D. Merchant, K. L. Brookes, and D. Thompson. 2017. Seals and shipping: Quantifying population risk and individual exposure to vessel noise. Journal of Applied Ecology Online first.

Kafas, A., A. McLay, M. Chimienti, B. E. Scott, I. Davies, and M. Gubbins. 2017. ScotMap: Participatory mapping of inshore fishing activity to inform marine spatial planning in Scotland. Marine Policy 79:8-18.

Kaiser, M. J., R. Hilborn, S. Jennings, R. Amaroso, M. Andersen, K. Balliet, E. Barratt, O. A. Bergstad, S. Bishop, J. L. Bostrom, C. Boyd, E. A. Bruce, M. Burden, C. Carey, J. Clermont, J. S. Collie, A. Delahunty, J. Dixon, S. Eayrs, N. Edwards, R. Fujita, J. Gauvin, M. Gleason, B. Harris, P. G. He, J. G. Hiddink, K. M. Hughes, M. Inostroza, A. Kenny, J. Kritzer, V. Kuntzsch, M. Lasta, I. Lopez, C. Loveridge, D. Lynch, J. Masters, T. Mazor, R. A. McConnaughey, M. Moenne, F. Neat, A. M. Nimick, A. Olsen, D. Parker, A. Parma, C. Penney, D. Pierce, R. Pitcher, M. Pol, E. Richardson, A. D. Rijnsdorp, S. Rilatt, D. P. Rodmell, C. Rose, S. A. Sethi, K. Short, P. Suuronen, E. Taylor, S. Wallace, L. Webb, E. Wickham, S. R. Wilding, A. Wilson, P. Winger, and W. J. Sutherland. 2016. Prioritization of knowledge-needs to achieve best practices for bottom trawling in relation to seabed habitats. Fish And Fisheries 17 (3):637-663.

Kammann, U., F. Akcha, H. Budzinski, T. Burgeot, M. J. Gubbins, T. Lang, K. Le Menach, A. D. Vethaak, and K. Hylland. 2017. PAH metabolites in fish bile: From the Seine estuary to Iceland. Marine Environmental Research 124:41-45.

Mangi, S. C., A. Kenny, L. Readdy, P. Posen, A. Ribeiro-Santos, F. C. Neat, and F. Burns. 2016. The economic implications of changing regulations for deep sea fishing under the European Common Fisheries Policy: UK case study. Science Of The Total Environment 562:260-269.

Martinez-Gomez, C., B. Fernandez, C.D. Robinson, J.A. Campillo, V.M. Leon, J. Benedicto, K. Hylland, and A.D. Vethaak. 2017. Assessing environmental quality status by integrating chemical and biological effect data: The Cartagena coastal zone as a case. Marine Environmental Research 124:106-117.

McIntyre, F., J. Drewery, D. Medrano Eerkes, and F.C. Neat. 2016. Distribution and diversity of deep-sea sponge aggregations on the Rosemary Bank Seamount, NE Atlantic. Marine Biology 163:1-11.

McLennan, D., J.D. Armstrong, D.C. Stewart, S. McKelvey, W. Boner, P. Monaghan, and N.B. Metcalfe. 2016. Interactions between parental traits, environmental harshness and growth rate in determining telomere length in wild juvenile salmon. Molecular Ecology 25 (21):5425-5438.

Mendez-Fernandez, P., B. Simon-Bouhet, P. Bustamante, T. Chouvelon, M. Ferreira, A. Lopez, C. F. Moffat, G. J. Pierce, M. Russell, M. B. Santos, J. Spitz, J. V. Vingada, L. Webster, F. L. Read, A. F. Gonzalez, and F. Caurant. 2017. Inter-species differences in polychlorinated biphenyls patterns from five sympatric species of odontocetes: Can PCBs be used as tracers of feeding ecology? Ecological Indicators 74:98-108.

Mercado, J.M., F. Gómez-Jakobsen, D. Cortés, L. Yebra, S. Salles, P. León, and S. Putzeys. 2016. A method based on satellite imagery to identify spatial units of eutrophication management. Remote Sensing of Environment 186:123-134.

Merchant, N.D., K.L. Brookes, R.C. Faulkner, A.W.J. Bicknell, B.J. Godley, and M.J. Witt. 2016. Underwater noise levels in UK waters. Scientific Reports 6:Article number: 36942.

Mindel, B. L., F. C. Neat, C. N. Trueman, T. J. Webb, and J. L. Blanchard. 2016. Functional, size and taxonomic diversity of fish along a depth gradient in the deep sea. PeerJ 4:e2387.  

Monte, M. M., K. Urquhart, C. J. Secombes, and B. Collet. 2016. Individual monitoring of immune responses in rainbow trout after cohabitation and intraperitoneal injection challenge with Yersinia ruckeri. Fish & Shellfish Immunology 55:469-478.

Murray, A. G, and M. Gubbins. 2016. Spatial management measures for disease mitigation as practised in Scottish aquaculture. Marine Policy 70:93-100.

Murray, A. G. 2016. Increased frequency and changed methods in the treatment of sea lice (Lepeophtheirus salmonis) in Scottish salmon farms 2005-2011. Pest Management Science 72 (2):322-326.

Murray, A. G. 2016. A Modelling Framework for Assessing the Risk of Emerging Diseases Associated with the Use of Cleaner Fish to Control Parasitic Sea Lice on Salmon Farms. Transboundary And Emerging Diseases 63 (2):E270-E277.  

Murray, A. G. 2016. A note on sea lice abundance on farmed Atlantic salmon in Scotland 2011-2013: significant regional and seasonal variation. Aquaculture Research 47 (3):961-968.  

Murray, A. G. 2017. A model of the process of spillover and adaption leading to potential emergence of disease in salmon held with cleaner fish used to control lice. Aquaculture 473:283-290.

Murray, A.G., and N.K.G. Salama. 2016. A simple model of the role of area management in the control of sea lice. Ecological Modelling 337:39-47.

Murray, A.G., M. Wardeh, and K.M. McIntyre. 2016. Using the H-index to assess disease priorities for salmon aquaculture. Preventive Veterinary Medicine 126:199-207.

O'Hara Murray, R.B., and A. Gallego. 2017. A modelling study of the tidal stream resource of the Pentland Firth, Scotland. Renewable Energy 102 (B):326-340.  

O'Hara Murray, R.B., and A.G. Gallego. 2017. Data review and the development of realistic tidal and wave energy scenarios for numerical modelling of Orkney Islands waters, Scotland. Ocean and Coastal Management Online first.

O'Neill, F. G., R. J. Kynoch, L. Blackadder, R. J. Fryer, A. R. Eryasar, E. Notti, and A. Sala. 2016. The influence of twine tenacity, thickness and bending stiffness on codend selectivity. Fisheries Research 176:94-99.  

O'Neill, F.G., and K.J. Summerbell. 2016. The hydrodynamic drag and the mobilisation of sediment into the water column of towed fishing gear components. Journal of Marine Systems 164:76-84.

Patra, S., A. Hartigan, D.J. Morris, A. Kodádková, and A.S.  Holzer. 2016. Description and experimental transmission of Tetracapsuloides vermiformis n. sp. (Cnidaria: Myxozoa) and guidelines for describing malacosporean species including reinstatement of Buddenbrockia bryozoides n. comb. (syn. Tetracapsula bryozoides). Parasitology 144:497-511.

Punzon, A., A. Serrano, F. Sanchez, F. Velasco, I. Preciado, J. M. Gonzalez-Irusta, and L. Lopez-Lopez. 2016. Response of a temperate demersal fish community to global warming. Journal Of Marine Systems 161:1-10.  

Regnier, T., J. Augley, S. Devalla, C.D. Robinson, P.J. Wright, and F.C. Neat. 2017. Otolith chemistry reveals seamount fidelity in a deepwater fish. Deep-Sea research Part I 121:183-189.

Regnier, T., F.M. Gibb, and P.J. Wright. 2017. Importance of trophic mismatch in a winter hatching species: evidence from lesser sandeel. Marine Ecology Progress Series 567:185-197.

Rindorf, A., M. Cardinale, S. Shephard, J.A.A. De Oliveira, E. Hjorleifsson, A. Kempf, A. Luzenczyk, C. Millar, D.C.M. Miller, C. Needle, J. Simmonds, and M. Vinther. 2016. Fishing for for MSY: using "pretty good yield" ranges without impairing recruitment. ICES Journal of Marine Science 74 (2):525-534.

Rindorf, A., P.J. Wright, H. Jensen, and M. Maar. 2016. Spatial differences in growth of lesser sandeel in the North Sea. Journal of Experimental Marine Biology and Ecology 479:9-19.

Sabatino, A. D., R. B. O'Hara Murray, A. Hills, D. C. Speirs, and M. R. Heath. 2016. Modelling sea level surges in the Firth of Clyde, a fjordic embayment in south-west Scotland. Natural Hazards 84 (3):1601-1623.

Scott, F., E. Jardim, C. P. Millar, and S. Cervino. 2016. An applied framework for incorporating multiple sources of uncertainty in fisheries stock assessments. Plos One 11 (5).

Side, J., A. Gallego, M. James, I. Davies, M. Heath, H. Karunarathna, V. Venugopal., A. Vögler, and M.  Burrows. 2017. Developing methodologies for large scale wave and tidal stream marine renewable energy extraction and its environmental impact: An overview of the TeraWatt project. Ocean and Coastal Management, 147: 1-5.

Siemering, B., E. Bresnan, S.C. Painter, C. Daniels, M. Innal, and K. Davidson. 2016. Phytoplankton distribution in relation to environmental drivers on the North West European shelf sea. PLoS One 11 (10):e0164482.

Simons, J., D. W. Bruno, Y. M. Ho, W. Murray, and I. Matejusova. 2016. Common dab, Limanda limanda (L.), as a natural carrier of salmonid alphavirus (SAV) from waters off north-west Ireland. Journal Of Fish Diseases 39 (4):507-510.

Sistiaga, M., B. Herrmann, E. Grimaldo, and F. G. O'Neill. 2016. Estimating the selectivity of unpaired trawl data: a case study with a pelagic gear. Scientia Marina 80 (3):321-327.  

Stagg, R., A. McIntosh, and M. J. Gubbins. 2016. Determination of CYP1A-dependent mono-oxygenase activity in dab by fluorimetric measurement of EROD activity in S9 or microsomal liver fractions. ICES Techniques in Marine Environmental Sciences No 57:21pp.

Tam, J.C., J.S. Link, A.G. Rossberg, S.I. Rogers, P.S. Levin, M-J. Rochet, A. Bundy, A. Belgrano, S. Libralto, M. Tomczak, K. van de Wolfshaar, F. Pranovie, E. Gorokhova, S.I. Large, N. Niquil, S.P.R. Greenstreet, J-N. Druon, M. Johansen, I. Preciado, J. Patricio, A. Palialexis, P. Tett, G.O. Johansen, J. Houle, and A. Rindorf. In press. Towards ecosystem-based management: indentifying operational food-web indicators for marine ecosystems. ICES Journal of Marine Science Online first.

Tarling, G. A., V. Peck, P. Ward, N. S. Ensor, E. Achterberg, E. Tynan, A. J. Poulton, E. Mitchell, and M. V. Zubkov. 2016. Effects of acute ocean acidification on spatially-diverse polar pelagic foodwebs: Insights from on-deck microcosms. Deep-Sea Research Part Ii-Topical Studies In Oceanography 127:75-92.

Thorne, A., A. I. MacDonald, and J. L. Thorley. 2016. The abundance of large, piscivorous Ferox Trout (Salmo trutta) in Loch Rannoch, Scotland. PeerJ 4:e2646.  

Vasilakopoulos, P., F. G. O'Neill, and C. T. Marshall. 2016. The unfulfilled potential of fisheries selectivity to promote sustainability. Fish And Fisheries 17 (2):399-416.

Wade, H. M., E. A. Masden, A. C. Jackson, and R. W. Furness. 2016. Incorporating data uncertainty when estimating potential vulnerability of Scottish seabirds to marine renewable energy developments. Marine Policy 70:108-113. <Go to ISI>://000379371500013

Waggit, J.J., A.M.C. Robbins, H. M. Wade, E.A. Masden, R.W. Furness, A.C. Jackson, and B.E. Scott. 2017. Comparative studies reveal variability in the use of tidal stream environments by seabirds. Marine Policy 81:143-152.

Waggitt, J.J., P.W. Cazenave, R. Torres, B.J. Williamson, and B. E. Scott. 2016. Predictable hydrodynamic conditions explain temporal variations in the density of benthic foraging seabirds in a tidal stream environment. ICES Journal of Marine Science Online first.

Wang, J., T. Wang, O. Benedicenti, C. Collins, K. Wang, C.J. Secombes, and J. Zou. In press. Characterisation of ZBTB46 and DC-SCRIPT/ZNF366 in rainbow trout, transcription factors potentially involved in dendritic cell maturation and activation in fish. Developmental and Comparative Immunology Online first.

Wang, J., T. H. Wang, O. Benedicenti, C. Collins, U. McCarthy, K. Y. Wang, C. J. Secombes, and J. Zou. 2016. Characterisation of transcription factors in rainbow trout potentially involved in dendritic cell maturation and activation. Fish & Shellfish Immunology 53:74-74.  

Wiebe, P. H., R. Harris, A. Gislason, P. Margonski, H. R. Skjoldal, M. Benfield, S. Hay, T. O'Brien, and L. Valdes. 2016. The ICES Working Group on Zooplankton Ecology: Accomplishments of the first 25 years. Progress In Oceanography 141:179-201.

Wiegertjes, G. F., N. Lorenzen, C. J. Secombes, B. Collet, U. Fischer, C. Tafalla, D. Parra, G. Scapigliati, P. Boudinot, O. Evensen, A. Adams, A. Toffan, K. Buchmann, T. Vesely, L. David, V. Mulero, P. Smith, V. Aspehaug, K. Engell-Sorensen, J. Sober, T. Wallis, T. Rod, M. Flores, A. Stratmann, P. Christofilogiannis, J. Tobar, N. Henriksen, T. Sigholt, and A. de las Heras. 2016. TargetFish - Targeted disease prophylaxis in European fish farming. Bulletin Of The European Association Of Fish Pathologists 36 (1):52-56.

Williamson, B. J., P. Blondel, E. Armstrong, P. S. Bell, C. Hall, J. J. Waggitt, and B. E. Scott. 2016. A self-contained subsea platform for acoustic monitoring of the environment around marine renewable energy devices-field deployments at wave and tidal energy sites in Orkney, Scotland. IEEE Journal Of Oceanic Engineering 41 (1):67-81.

Williamson, L.D., K.L. Brookes, B. E. Scott, I.M. Graham, and P.M. Thompson. 2017. Diurnal variation in harbour porpoise distribution - potential implications for management. Marine Ecology Progress Series 570:223-232.

Wright, P.J., J.E. Orpwood, and B.E. Scott. 2017. Impact of rising temperature on reproductive investment in a capital breeder: the lesser sandeel. Journal of Experimental Marine Biology and Ecology 486:52-58.

Yanez, J. M., S. Naswa, M. E. Lopez, L. Bassini, K. Correa, J. Gilbey, L. Bernatchez, A. Norris, R. Neira, J. P. Lhorente, P. S. Schnable, S. Newman, A. Mileham, N. Deeb, A. Di Genova, and A. Maass. 2016. Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations. Molecular Ecology Resources 16 (4):1002-1011.  

Yebra, L., S. Putzeys, D. Cortés, J.M. Mercado, F. Gómez-Jakobsen, P. León, S. Salles, and I.  Herrera. 2017. Trophic conditions govern summer zooplankton production variability along the SE Spanish coast (SW Mediterranean). Estuarine, Coastal and Shelf Science 187:134-145.

Book Chapters

Campbell, N. 2016. Northwest Atlantic. In Vulnerable Marine Ecosystems: Practices and processes in the high seas, edited by A. Thompson, J. Sanders, M. Tandstad, F. Carocci and J. Fuller. Rome: FAO. pp31-53.

Castelli, M., U. McCarthy, G. Petroni, and C. Bazzocchi. 2016. Transmission of members of the “Candidatus Midichloriaceae” family to vertebrates and possible involvement in disease pathogenesis. In Rickettsiales: biology, molecular biology, epidemiology, and vaccine development, edited by S. Thomas: Springer. pp283-292.

Moffat, C. F. 2016. Aquaculture. In Agricultural chemicals in the environment: issues and potential solutions, edited by R. E. Hester and R. M. Harrison. Cambridge: Royal Society of Chemistry. Chapter 6, pp128-175.

Murray, A.G., and M. Gubbins. 2017. Aquaculture zoning, site selection and area management in Scottish marine finfish production. In Aquaculture zoning, site selection and area management under the ecosystem approach to aquaculture: a handbook, edited by J. Anguilar-Manjarrez, D. Soto and R. Brummett. Rome: FAO. pp358-367.

Scottish Marine and Freshwater Science Reports

Bresnan, E., K. Cook, J. Hindson, S. Hughes, J-P. Lacaze, P. Walsham, L. Webster, and W.R. Turrell. 2016. The Scottish Coastal Observatory 1997-2013: Part 1 - executive summary. Scottish Marine and Freshwater Science 7 (26):16pp.

Bresnan, E., K. Cook, J. Hindson, S. Hughes, J-P. Lacaze, P. Walsham, L. Webster, and W.R. Turrell. 2016. The Scottish Coastal Observatory 1997-2013: Part 2 - description of Scotland's coastal waters. Scottish Marine and Freshwater Science 7 (26):278pp.

Bresnan, E., K. Cook, J. Hindson, S. Hughes, J-P. Lacaze, P. Walsham, L. Webster, and W.R. Turrell. 2016. The Scottish Coastal Observatory 1997-2013: Part 3 - appendices. Scottish Marine and Freshwater Science 7 (26):107pp.

Dickens, S., A. McLay, H. Dobby, H. Goudge, and A. Deamer-John. 2016. Survey of the Scottish Solway Firth Cockle Grounds 2015. Scottish Marine and Freshwater Science 7 (25):34pp.

Doyle, A., A. Davie, P. Wright, K. Coull, and C. Angus. 2016. Determination of the Distribution of the Resident Inshore and Offshore Migratory Cod Populations Around Shetland (IVa) and Westwards into VIa. Scottish Marine and Freshwater Science 7 (28):32pp.

Malcolm, I.A., K.  Millidine, R.S.  Glover, L.   Hawkins, and C. Millar. 2016. Assessing the status of Atlantic salmon in the Aberdeenshire River Dee from electrofishing data. Scottish Marine and Freshwater Science 7 (30):16pp.

Miethe, T., H. Dobby, and A. McLay. 2016. The use of indicators for shellfish stocks and fisheries: a literature review. Scottish Marine and Freshwater Science 7 (16):76pp.

Sangiuliano, S. 2016. A Quality Management Review of Scotland’s Sectoral Marine Plan for Tidal Energy. Scottish Marine and Freshwater Science 7 (18):114pp.

Webster, L., M. Russell, P. Walsham, G. Packer, E.J. Dalgarno, N. Shepherd, and W. R. Turrell. 2016. Determination and Environmental Assessment of Hydrocarbons in Water Samples Following a Release of Oil from the Clair Platform. Scottish Marine and Freshwater Science 7 (29):25pp.

Webster, L., N. Shepherd, M. Russell, P. Walsham, G. Packer, P. Hayes, and W.R. Turrell. 2016. Taint, polycyclic aromatic hydrocarbon (PAHs) and N-alkane analysis of farmed mussels and salmon samples following the Transocean Winner rig incident. Scottish Marine and Freshwater Science 7 (22):21pp.

Contributions to the ICES Annual Science Conference

Billet, M., A. Kafas, B.E. Scott, B. Buchanan, M. Gubbins, I.M. Davies, and C. Needle. 2016. Interpolating fishing vessel tracks to improve representation of the use of marine space by commercial fisheries in marine spatial planning. ICES CM L: 604.

Bresnan, E., K. Davidson, A. McKinney, S. Milligan, C. Belin, and H. Enevoldsen. 2016. The use of the IOC-ICES-PICES Harmful Algal Event Database (HAE-DAT) to detect spatial and temporal trends in harmful algal bloom events in UK waters. ICES CM N: 382.

Bresnan, E., S. Fraser, L. Brown, P. Leon Diaz, K. Cook, S. Hughes, P. Walsham, and L.  Webster. 2016. The spring diatom bloom in Scottish waters; regional differences and interannual variation. ICES CM N: 381.

Clarke, L., A. Pout, S. Sweeting, F. Zeng, L. Ritchie, P. Clark, M. Gault, and H. Cole. 2016. Which species to sample? An objective method for the selection of species when sampling fish on a market. ICES CM O: 589.

Eerkes-Medrano, D., K.B. Cook, and P.J. Wright. 2016. The role of temperature as a proxy for prey availability. ICES CM M: 364.

Kafas, A., J.B. Illian, I. Davies, and B.E. Scott. 2016. Spatio-temporal modelling of fishing effort pattern after displacement due to offshore wind developments using INLA. ICES CM L: 575.

Mastrantonis, S., A. Kafas, L. Blackadder, L. Williamson, H.A. McLay, and B. E. Scott. 2016. Using Species Distribution Models to predict king scallop (Pecten maximus) distribution along the East coast of Scotland. ICES CM L: 360.

Miethe, T., and H. Dobby. 2016. Testing length-based indicators in harvest control rules (HCR) for shellfish stocks and fisheries. Working Document in Report of the ICES workshop on the development of quantitative assessment methodologies based on life-history traits, exploitation characteristics and other relevant parameters for data-limited stocks category 3-6 (WKLIFE VI), 3-7 October 2016 Lisbon, Portugal. ICES CM 2016/ACOM:59: 58-76.

Moriarty, M., A.F. Sell, V.M. Trenkel, Y. Vérin, and S.P.R. Greenstreet. 2016. Effect of shortening haul durations on a survey's species richness estimates. ICES CM O: 166.

Pout, A., L. Clarke, A. Ribeiro-Santos, J. Elson, P. Börjesson, M. Christman, K. Birch Håkansson, and M. Storr-Paulson. 2016. Evaluating regional designs for the on-shore sampling of North Sea demersal fisheries. ICES CM O: 263.

Soares, S., M. Campbell, P. Gibson, S. Kinnear, J. Turriff, E.S Munro, and L. Blackadder. 2016. Survey of king scallops (Pecten maximus) for the presence of Apicomplexan parasite in Scotland. In Report of the ICES Scallop Assessment Working Group (WGScallop), 3-7 October 2016, Aberdeen, UK. ICES CM 2016/ACOM: 24, edited by ICES. Copenhagen: ICES. pp35.

Tweddle, J.F., M. Gubbins, and B. E. Scott. 2016. Phytoplankton: supporting a good pelagic habitat. ICES CM J: 386.

Walmsley, S.F., R. Blyth-Skyrme, D. Rodmell, W. Lart, P.S. Weller, N.K. Dewey, D.O. Lambkin, and F.G. O'Neill. 2016. Assessing the significance of fishing and natural disturbance at local scales. ICES CM L: 437.

Contributions to Meetings and Other Publications

Aamelfot, M., D.H. Christiansen, O. Bendik Dale, A. McBeath, I. Matejusova, S.L. Benestad, and K. Falk. 2017. HPR0 ILA virus infiserer epitel hos Atlantisk laks (HPR0 ISA Virus Infects Epithelial Atlantic Salmon Cells). Frisk Fisk (Healthy Fish) Conference, Bergen, Norway, 1-2 February 2017.

Barreto, E., and N. Bailey. 2016. Fish and shellfish stocks 2016. Aberdeen: Scottish Government. 54pp.

Benedicenti, O., C. Secombes, U. McCarthy, and C. Collins. 2016. Atlantic salmon physiological and immune response to amoebic gill disease and insight into the biology of the amoeba. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Berdalet, E., N. Banas, E. Bresnan, M. Burford, K. Davidson, H. Enevoldsen, C. Gobler, B. Karlson, R. Kudela, P.T. Lim, L. Mackenzie, M. Montresor, V. Trainer, E. Urban, G.  Usup, and K. Yin. 2016. GlobalHAB: the international SCOR-IOC program for the study of Harmful Algal Blooms. International Conference on Harmful Algae, Florianopolis, Brazil, 9-14 October 2016.

Berx, B., J. Hopkins, S. Jones, J. Huthnance, and M. Inall. 2016. Long-term variability of exchange between the Slope Current and the West Shetland Shelf. Paper read at Challenger Society Conference, 5-9 September 2016, at Liverpool.

Berx, B., D. Lee, and M. Geldart. 2016. Impact of Plastic Insert Type on Stability of Stored Salinity Samples. MASTS Annual Science Meeting 2016, 19-21 October.

Bresnan, E. 2016. Harmful algal blooms and policy. Invited lecture, Oceans and Climate course, University of St Andrews, 10 October 2016.

Bresnan, E. 2017. Plankton and policy: protecting human health and assessment of state. Invited talk - Nippon Foundation - POGO Centre of Excellence in Observational Oceanography Programme 2017, Alfred Wegner Institute, Helogland, Germany, 21 March 2017.

Bresnan, E. 2017. The Scottish Coastal Observatory Stonehaven time-series: lessons working at the science/policy interface. Invited lecture, Nippon Foundation - POGO Centre of Excellence in Observational Oceanography Programme 2017, Alfred Wegner Institute, Helgoland, Germany, 22 March 2017.

Bresnan, E., C. Baker Austin, C. Campus, K. Davidson, M. Edwards, A. Hall, D. Lees, A. McKinney, S. Milligan, and J. Silke. In press. Human health. Marine Climate Change Impacts Report Card.

Bresnan, E., and W.R. Turrell. 2017. The Scottish Coastal Observatory. Harmful Algae News (A newsletter of the IOC) 56:15.

Campbell, L., A. Gallego, and R. O'Hara Murray. 2016. The Scottish Shelf Model - future developments and directions. MASTS Annual Science Meeting, Glasgow, UK, 19-21 October 2016.

Collins, C., K. Lester, J. Del Pozo, and B. Collet. 2016. DNA Vaccination Against SPDV:  Suppression of Viraemia, Protection, and Individual Monitoring. PD TriNation Meeting, Aberdeen, UK, 12-13 October 2016.

Cook, K., E. Bresnan, J. Fraser, S. Fraser, S. Robinson, L. Brown, and P. Diaz. 2016. Status of pelagic habitats in Scottish coastal waters: an application of the UK plankton index. ICES/PICES 6th Zooplankton Production Symposium, Bergen, Norway, 9-13 May 2016.

Crawford, C.B., M. Russell, C. Ewins, and B. Quinn. 2016. Chemical adsorption of hydrophobic polycyclic aromatic hydrocarbons in the marine environment onto microplastic polymers and subsequent desorption in a simulated gut. SETAC Europe 26th Annual Meeting, Nantes, France, 22-26 May 2016.

Crawford, C.B., M. Russell, C. Ewins, and B. Quinn. 2016. Microplastics as vectors of Polycyclic Aromatic Hydrocarbons (PAHs) via chemical adsorption and desorption. MICRO 2016, Lanzarote, Spain, 25-27 May 2016.

Eerkes-Medrano, D., K.B. Cook, and P.J. Wright. 2016. The role of temperature as a proxy for prey availability. ICES/PICES 6th Zooplankton Production Symposium, Bergen, Norway, 9-13 May 2016.

Fanjul, A., F. Villate, I. Uriarte, A. Iriarte, A. Atkinson, and K. Cook. 2016. Seasonal and interannual relationships in the zooplankton dynamics of the Northeast Atlantic Shelves in relation to latitude and trophic status. Poster presented at ICES/PICES 6th Zooplankton Production Symposium, 9-13 May 2016, at Bergen, Norway.

Farcas, A., K.L. Brookes, and N.D. Merchant. 2016. A shipping noise map of the western North Sea. The Effects of Noise on Aquatic Life, Dublin, Ireland, 10-16 July 2016.

Giltrap, M., M. Leaver, K. White, J. Wilson, and C. Robinson. 2016. Ecotoxicogenomics: validation of a quantitative PCR macroarray for use as a biomarker of exposure to pollutants in flounder. Food Research Showcase, Dublin Institute of Technology, Dublin, Ireland, 18 May 2016.

Gimpel, A., V. Stelzenmüller, A. A. Hageberg, R. Pastres, M. Gubbins, I. Galparsoro, E. Kerepeczki, A. Boyd, D. Brigolin, G. Roca Carceller, J. Aguilar-Manjarrez, A. Gangnery, Ø. Strand, L. Asplin, D. Miller, N. Papageorgiou, J. Grant, H. Liu, A. Sequeira, N. Marba, S. Billing, and K. Black. 2016. Tools and methods to support an ecosystem approach to aquaculture (EAA) - a gap analysis. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Gimpel, A., V. Stelzenmüller, N. Marba, J. Aguilar-Manjarrez, L. Arantzamendi, L Asplin, K. Black, A. Boyd, S. Bricker, D. Brigolin, G. Roca Carceller, I. Galparsoro, A. Gangnery, J. Grant, M. Gubbins, A. A. Hageberg, E. Kerepeczki, H. Liu, D. Miller, A. Murillas, N. Papageorgiou, R. Pastres, A. Sequeira, S. Billing, and Ø. Strand. 2016. Tools and methods supporting EAA: Finding the gap towards an environmental Cost Benefit Analysis. Deliverable 3.1 AQUASPACE project (Ecosystem Approach to making Space for Aquaculture) EU Horizon 2020 project grant no. 633476.

Gubbins, M. 2016. Marine Planning and Scotland’s Sustainable Marine Economy. Invited speaker EU MSP Stakeholder Series: 6 Maritime Spatial Planning Worldwide, Ponta Delgada, Azores, Portugal, 23-24 June 2016.

Hannah, L., A. Coppng, L. Feinberg, F. Bennet, R. May, J. Koppel, L. Bulling, and V. Gartman. 2016. Adaptive management white paper. International Energy Authority - Task 34 White Paper.

Haskins, G., K.L. Brookes, E. Edwards, and D. Risch. 2017. Acoustic detections of minke whales in the Moray Firth, northeast Scotland. European Cetacean Society conference, Middelfart, Denmark, 1-3 May 2017.

Hayes, P., and S. Rouse. 2016. Pipeline decommissioning: scale, context and interaction of activities and resources on the UKCS. MASTS Annual Science Meeting, Glasgow, UK, 19-21 October 2016.

Hindson, J., B. Rabe, and S.L. Hughes. 2016. Freshwater around the Scottish coast: temporal and spatial variability, with a sea loch case study. MASTS Annual Science Meeting, Glasgow, UK, 19-21 October 2016.

Hylland, K., I. Davies, M. Gubbins, C. Robinson, T. Lang, C. Martínez-Gómez, T. Burgeot, and J.   Thain. 2016. Developing a framework for the assessment of contaminant impacts in marine ecosystems. SETAC Europe 26th Annual Meeting, Nantes, France, 22-26 May 2016.

Iriarte, A., I. Uriarte, F. Villate, A. Fanjul, A. Atkinson, and K.  Cook. 2016. Comparison of different scales of zooplankton variability in four sites of the Northeast Atlantic Shelves in relation to latitude and trophic status. Poster presented at ICES/PICES 6th Zooplankton Production Symposium, 9-13 May 2016, at Bergen, Norway.

Kafas, A., J.B. Illian, I.M Davies, and B.E. Scott. 2016. Spatio-temporal modelling of fishing effort patern after displacement due to offshore wind developments using INLA. International Statistical Ecology Conference, Seattle, Washington, USA, 28 June - 1 July 2016

Larsen, K.M., H. Hatun, B. Berx, and T. Rossby. 2017. Workshop on currents and transports across the Iceland-Faroe-Scotland Ridge. Havstivab Technical Report: 17-01:60pp.

Leon Diaz, P., E. Bresnan, K. Cook, P. Walsham, G.R. McCoy, M. Helfrich, and K. Mackenzie. 2016. Analysis of the potential impact of ocean acidification on the pelagic gastropod community in the North East of Scotland. MASTS Annual Science Meeting 2016, 19-21 October.

León Diaz, P., E. Bresnan, K. Cook, P. Walsham, G.R. McCoy, M. Helfrich, and K. Mackenzie. 2016. Can pelagic gastropods be used to assess the impacts of ocean acidification in the North Sea? Paper read at ICES/PICES 6th Zooplankton Production Symposium "New Challenges in a Changing Ocean", Bergen, Norway, 9-13 May 2016.

León Diaz, P., M. Helfrich, E. Bresnan, K. Cook, P. Walsham, G.R. McCoy, and K. Mackenzie. 2016. Can pelagic gastropods be used to assess the impacts of ocean acidification? ICES Science Fund Final Report: 21pp.

Madgett, A.S., L. Webster, C. McKenzie, K. Yates, and C.F. Moffat. 2016. Bioaccumulation of persistent organic pollutants and trace metals in Scottish marine food webs and their relationship with trophic level and fatty acid signatures. Sixth MASTS Annual Science Meeting (ASM), Our Marine Environment: A Shared Resource. Technology & Innovation Centre, University of Strathclyde, Glasgow, 19-21 October 2016.

Madgett, A.S., K. Yates, L. Webster, C. McKenzie, and C.F. Moffat. 2016. Relationship of Trophic Level, Fatty Acid Signatures and Stable Isotopes in North Sea Food Webs. North Sea Open Science Conference, Ostend, Belgium, 7-10 November 2016.

Madgett, A.S., K. Yates, L. Webster, C. McKenzie, and C.F. Moffat. 2016. The relationship of trophic level, fatty acid signatures and stable isotopes in Scottish marine food webs. Ninth Scottish Postgraduate Symposium on Environmental Analytical Chemistry, Dundee, Scotland, 14 December 2016.

Main, R. 2016. Marine Scotland Science Diadromous Smolt Tracking Array. Second IFM Tagging and Telemetry Workshop, Edinburgh, UK, 7-8 June 2016.

Marine Scotland. 2016. Provisional Scottish sea fisheries statistics 2015. Edinburgh: Scottish Government. Excel spreadsheet.

Marine Scotland. 2016. Scottish sea fisheries employment 2015. Edinburgh: Scottish Government. 38pp.

Marine Scotland. 2016. Scottish sea fisheries statistics 2015. Edinburgh: Scottish Government. 110pp.

Marine Scotland. 2017. Scottish Marine Protected Areas Socioeconomic Monitoring. Edinburgh: Scottish Government. 45pp.

Marine Scotland Science. 2016. Trends in adult return and abundance indicators for Scottish salmon and sea trout stocks 2015. Marine Scotland Science Report 02/16:32pp.

Matejusova, I. 2016. What can DNA do for the shellfish industry? Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Matejusova, I., M. Gubbins, and W. R. Turrell. 2017. Development of monitoring strategies for marine invasive non-native Species (INNS): Didemnum vexillum case study. DNA-aquaNET Kick-off meeting, Essen, Germany, 7-9th March 2017.

Mayor, D.J., U. Sommer, K.B. Cook, and M.R. Viant. 2016. The metabolic response of marine copepods to environmental warming and ocean acidification in the absence of food. ICES/PICES 6th Zooplankton Production Symposium, Bergen, Norway, 9-13 May 2016.

Merchant, N.D., K.L. Brookes, R.C. Faulkner, A.W.J. Bicknell, B.J. Godley, and M.J. Witt. 2016. Ambient noise levels in UK waters during 2013-2014. The Effects of Noise on Aquatic Life, Dublin, Ireland, 10 -16 July 2016.

Miethe, T., and H. Dobby. 2016. Application of harvest control rules (HCR) using length-based indicators for shellfish stocks and fisheries. MASTS Annual Science Meeting, Glasgow, UK, 19-21 October 2016.

Moffat, C. F. 2016. Linking connectivity to delivering our vision for our seas. International Research Network on Marine Connectivity (iMarCo), University of St Andrews, Scotland, UK, 27-29 June 2016.

Moffat, C. F. 2016. Managing Expectations – responding to incidents at sea (Keynote). Unified Response - Uniting the Responder Community, Aberdeen, Scotland, UK, 20 April 2016.

Moffat, C. F. 2016. Nano to micro – small size, large issue. Ninth Scottish Postgraduate Symposium on Environmental Analytical Chemistry, Dundee, Scotland, 14 December 2016.

Moffat, C. F. 2016. The Scottish vision for our seas. “Sea Scotland” Conference, 2016: Blue Seas Thinking for Marine Planning in Scotland.  Dundee, Scotland, UK, 15-16 June 2016.

Moffat, C. F. 2016. Sustainable aquaculture: Meeting the challenges. European Aquaculture Society, Aquaculture Europe 16, Food for Thought, Edinburgh, Scotland, 20-23 September 2016.

Moffat, C. F. 2016. Sustainable aquaculture: Solving the range of challenges. AGRITECH: Capacity Building and networking Project to Support UK-Turkey Partnership in Agri-Tech Sector, Royal Society of Chemistry, London, UK, 17 November 2016.

Molodtsova, T.N., J. Drewery, B.W. Narayanaswamy, and T. Britayev. 2016. Black corals from topographic highs found in the Rockall Trough and the adjacent continental slope. Unique Marine Ecosystems: Modern Technologies of Exploration and Conservation for Future Generations, Vladivostock, Russia, 4-7 August 2016.

Munro, L.A., and I.S. Wallace. 2016. Scottish Fish Farm Production Survey 2015. Edinburgh: Scottish Government. 50pp.

Munro, L.A., and I.S. Wallace. 2016. Scottish Shellfish Farm Production Survey 2015. Edinburgh: Scottish Government. 14pp.

Murray, A. G, and L. A Munro. 2017. A logistic population model of the growth of production of salmon in Scotland 1979-2015. Society for Veterinary Epidemiology and Preventive Medicine (SVEPM) Annual Conference, Inverness, UK, 29-31 March 2017.

Murray, A. G, L. A Munro, N. K. G Salama, A.R.T Jonkers, K.J Sharkey, N Taylor, M Thrush, D Green, R Norman, and K.L Morgan. 2017. Quantifying epidemiological risk in Great Britain's salmonid aquaculture industry. Society for Veterinary Epidemiology and Preventive Medicine (SVEPM) Annual Conference, Inverness, UK, 29-31 March 2017.

Murray, A. G, M Wardeh, and K.M McIntyre. 2017. Using literature analysis to compare the relative significance of diseases of farmed salmon. Society for Veterinary Epidemiology and Preventive Medicine (SVEPM) Annual Conference, Inverness, UK, 29-31 March 2017.

Murray, A.G., D. Green, A.R.T. Jonkers, K.L.M. Morgan, L.A. Munro, R. Norman, N.K.G. Salama, K.J. Sharkey, N. Taylor, and M. Thrush. 2016. The contact structure of the Great British aquaculture industry. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

O'Connor, J., M. Gubbins, J. Murray, M.F. Robertson, S. Ware, and P. Whomersley. 2016. Recent monitoring surveys of shelf benthic habitats in the UK offshoe Marine Protected Areas (MPAs); survey summaries and habitat mapping data availability. GeoHab 2016 Annual Conference, Winchester, UK, 2-6 May 2016.

O'Hara Murray, R., M.  de Dominicis, and A Gallego. 2016. Modelling pressures on the marine environment: tidal stream Marine Renewable Energy  extraction and climate change. Second workshop of the Network of Experts for Re-Developing Models of the European Marine Environment (MEME).  Brussels, Belgium, 22-23 March 2017.

O'Hara Murray, R., M. de Dominicis, and A.  Gallego. 2016. Modelling the near- and far-field effects on the physical environment of maximizing tidal stream energy extraction in the Pentland Firth, Scottish waters. North Sea Open Science Conference, Ostend, Belgium, 7-10 November 2016.

O'Hara Murray, R., and A.G. Gallego. 2016. Maximizing the tidal stream energy potential of the Pentland Firth using a 3D hydrodynamic tidal model. Challegner Society Meeting, Liverpool, UK, 5-8 September 2016.

O'Hara Murray, R.B., and A.G. Gallego. 2016. Hydrodynamic modelling of tidal energy extraction in the Pentland Firth. National Telford Institute advanced research workshop on environmental fluid mechanics, Royal Society of Edinburgh, Edinburgh, UK, 16 Mar 2017.

Ostle, C., P. Williamson, Y. Artioli, D.C.E. Bakker, S. Birchenough, C.E. Davis, S. Dye, M. Edwards, H.S. Findlay, N. Greenwood, S. Hartman, M.P. Humphreys, T. Jickells, M. Johnson, P. Landschützer, R. Parker, D. Pearce, J. Pinnegar, C.  Robinson, U. Schuster, B. Silburn, R. Thomas, S. Wakelin, P. Walsham, and A.J. Watson. 2016. Carbon dioxide and ocean acidification observations in UK waters.  Synthesis report with a focus on 2010-2015: University of East Anglia. 44pp.

Paterson, R.F., D.  Green, K. Davidson, E. Bresnan, and J-P Lacaze. 2016. Too small to see: using qPCR to monitor azaspiracid producer Azadinium spinosum in Scottish waters. International Conference on Harmful Algae, Florianopolis, Brazil, 9-14 October 2016.

Paterson, R.F., D. Green, K. Davidson, K. Breog, and J-P Lacaze. 2016. Understanding the ecology of the toxic dinoflagellate Azadinium spinosum in Scottish coastal regions. British Phycological Society Annual Meeting, London, UK, 21-23 June 2016.

Paterson, R.F., D. Green, K. Davidson, E. Bresnan, and J-P Lacaze. 2016. Keeping shellfish safe: new technologies help protect consumers of cultured shellfish toxic algae (Azadinium spinosum and azaspiracids) in Scottish waters. Challenger Society Meeting, Liverpool, UK, 5-8 September 2016.

Pert, C.C., Z. Allcock, M. Schrittwieser, U. McCarthy, and C. Collins. 2016. Assessment of the viability of the different life-cycle stages of Lepeophtheirus salmonis (Kroyer, 1837) following exposure to hydrogen peroxide. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Potts, T., and J.F. Tweddle. 2016. Does the use of ecosystem services concepts aid in stakeholder participation and improve integrated understanding of the marine environment?  A case study from the Firth of Forth, Scotland. Royal Geographical Society Annual Conference, London, UK, 30 August - 2 September 2016.

Purvis, N., N. Salama, and S. Soares. 2016. A conceptual model for classifying emerging disease in Scottish aquaculture and fisheries. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Rabe, B. 2016. Using Scottish Shelf Model climatological flow fields to interpret connectivity patterns among farm management areas in Scotland. Challenger Society Ocean Modelling Group Meeting, Liverpool, UK, 9 September 2016.

Rabe, B., A Gallego, J. Wolf, and N.K.G.  Salama. 2016. Interpretation of connectivity patterns amongst farm management areas in Scotland. Sea Lice 2016, Westport, Ireland, 26-28 September 2016.

Rabe, B., and J. Hindson. 2016. Forcing mechanisms and hydrodynamics in a dynamically wide Scottish sea loch. The 17th Biennial Conference of the Challenger Society for Marine Science, Liverpool, UK, 5-8 September 2016.

Rabe, B., and J. Hindson. 2016. Understanding forcing mechanisms and hydrodynamics in Loch Linnhe, Scotland, as a basis for sustainable growth. Physical Processes in Natural Waters. In: D. Wain and L. Bryant (Eds.), Proceedings of the 19th International Workshop on Physical Processes in Natural Waters: PPNW2016, Bath, UK, 12-15 July 2016.

Rabe, B., and J. Hindson. 2016. Understanding forcing mechanisms and hydrodynamics in Loch Linnhe, Scotland, as a basis for sustainable growth. Physical Processes in Natural Waters, Bath, UK, 12-15 July 2016.

Russell, M., and C.F. Moffat. 2017. The evidence to change the culture - issues around marine litter. The Lives and Afterlives of Plastic: a nearly carbon-neutral conference, held online, 26 June - 14 July 2016.

Salama, N. K. G. 2016. Risks associated with movements of organisms. EMBRIC workshop: Shipment and Traceability of Living Organisms: the need for a common strategy to facilitate the use of marine biological resources, Olhão, Portugal, 4 May 2016.

Salama, N.K.G. 2016. Using dispersal modelling connectivity outputs to produce a meta-population model of salmon lice on farms in Loch Linnhe. Sea Lice 2016, Westport, Ireland, 26-28 September 2016.

Salama, N.K.G., B. Rabe, A. Gallego, and A. G. Murray. 2016. Developing environmental connectivity networks for parasites and pathogens of marine finfish aquaculture in Scotland. AquaEpi I: Aquatic Animal Epidemiology, Oslo, Norway, 20 - 22 September 2016.

Siemering, B., E. Bresnan, S.C. Painter, C.J. Daniels, M. Inall, and K. Davidson. 2016. Phytoplankton distribution in relation to environmental drivers on the North West European shelf sea. Paper read at British Phycological Society Meeting, 23-25 June 2016.

Siemering, B., K. Davidson, M. Inall, E. Bresnan, and R. Gowen. 2016. Using gliders to study phytoplankton. Challenger Society Meeting, Liverpool, UK, 5-8 September 2016.

Siemering, B., K. Davidson, M. Inall, E. Bresnan, and B. Stewart. 2016. Using gliders to study phytoplankton. International Conference on Harmful Algae, Florianopolis, Brazil, 9-14 October 2016.

Siemering, B., M. Inall, E. Bresnan, and K. Davidson. 2017. The advective transport of harmful phytoplankton in North West European Shelf Seas. Association for the Science of Limnology and Oceanography (ASLO), Aquatic Science Meeting, Honolulu, Hawaii, 28 February - 3 March 2017.

Smedes, F., A.E. van de Zande, H. Beeltje, P. Kukuka, D. Vethaak, and I.M. Davies. 2016. Two activities on passive sampling in water and sediment in the North Atlantic within the OSPAR/ICES community. SETAC Europe 26th Annual Meeting, Nantes, France, 22-26 May 2016.

Stagg, H. E. B., J. Black, W. Murray, P. Savage, S. Pflaum, and E. S. Munro. 2016. Ranavirus isolated from Lumpfish, Cycloptherus lumpus. European Association Of Fish Pathologists UK and Ireland Branches Second Meeting, Stirling, 15-16 September 2016.

Susdorf, R., N.K.G. Salama, A.G. Murray, and D. Lusseau. 2016. Sea lice effect on body condition of wild Atlantic salmon. Sea Lice 2016, Westport, Ireland, 26-28 September 2016.

Swan, S., A. Turner, R. F Paterson, E. Bresnan, and K.  Davidson. 2016. An unusual bloom of Dinophysis acuta in Scottish coastal waters linked to a change in diarrhetic shellfish toxin profiles. International Conference on Harmful Algae, Florianopolis, Brazil, 9-14 October 2016.

Tett, P., C. Fox, R. Gowen, C. Scherer, A. McQuatters-Gollop, and K.  Cook. 2016. The Plankton Index: A life-forms and state-space approach to tracking change in pelagic ecosystems. ICES/PICES 6th Zooplankton Production Symposium, Bergen, Norway, 9-13 May 2016.

Tweddle, J.F., M. Gubbins, and B. E. Scott. 2016. Phytoplankton supporting society. Challenger Society Conference, Liverpool, UK, 5-9 September 2016.

Wallace, I.S., P. McKay, and A.G. Murray. 2016. A historical review of sampling for pathogens in Scottish wild fish. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Wells, S., K. Cook, E. Bresnan, A. Douglas, and D.  Mayor. 2016. Environmental drivers for zooplankton community structure at Loch Ewe, Scotland. ICES/PICES 6th Zooplankton Production Symposium, Bergen, Norway, 9-13 May 2016.

Wells, S.R., K. Cook, A. Douglas, E.  Bresnan, and D.  Mayor. 2017. The status of the plankton community at Loch Ewe, Scotland: environmental drivers and the UK Plankton Index. ASLO Aquatic Sciences Meeting, Honolulu, Hawaii, USA, 26th February- 3rd March 2017.

White, K., C.D. Robinson, C. Stenton, F. Gunn Folmer, and M. Marcos Lopez. 2016. PAH exposure, genotoxic responses and histopathological alterations in Scottish flatfish. SETAC Europe 26th Annual Meeting, Nantes, France, 22-26 May 2016.

Williamson, L., K.L. Brookes, B. E. Scott, D. Sadykova, and P. Thompson. 2016. Investigating the distribution of harbour porpoises along the east coast of Scotland from digital video surveys using GAM and INLA. Royal Statistical Society: Young Researchers Using Statistics Symposium, Aberdeen, UK, 30 June 2016.

Wilson, J., M. Bekaert, J. Taggart, R. McIntosh, and I. Matejusova. 2016. Using SNP markers to reveal the extent of hybridisation in Scottish Mytilus/mussel populations. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

Winterton, C., K. Davidson, E. Bresnan, and W. Austin. 2016. A hundred year record of changing toxic algae in Scottish coastal waters relating to climate change. Aquaculture Europe Conference 2016, Edinburgh, UK, 20-23 September 2016.

 

Commissioned research (10)

Band, B., C. Sparling, D. Thompson, J. Onoufriou, E. San Martin, and N. West. 2016. Refining Estimates of Collision Risk for Harbour Seals and Tidal Turbines. Scottish Marine and Freshwater Science 7 (17):123pp.

Dworski, K.M., A.J. Fenwick, and P.G. Fernandes. 2016. Slippage Mitigation and Acoustic Characterisation Phase 2: Report of Fishing Industry Science Alliance (FISA) Project 13/15. Scottish Marine and Freshwater Science 7 (15):26pp.

Hammond, P. S., and L.J. Wilson. 2016. Grey seal diet composition and prey consumption. Scottish Marine and Freshwater Science 7 (20):47pp.

Jones, E.L., S. Smout, C.  Blight, C. Sparling, and B.  McConnell. 2016. Fine-scale harbour seal at-sea usage mapping around Orkney and the north coast of Scotland. Scottish Marine and Freshwater Science 7 (27):31pp.

Onoufriou, J., E. Jones, G. Hastie, and D. Thompson. 2016. Investigations into the interactions between harbour seals (Phoca vitulina) and vessels in the inner Moray Firth. Scottish Marine and Freshwater Science 7 (24):40pp.

PACEC on behalf of Marine Scotland. 2017. An analysis of the value of wild fisheries in Scotland. Edinburgh: Scottish Government. 122pp.

Sparling, C., D. Gillespie, G. Hastie, J. Gordon, J. Macaulay, C. Malinka, M. Wu, and B. McConnell. 2016. Scottish Government Demonstration Strategy: Trialling Methods for Tracking the Fine Scale Underwater Movements of Marine Mammals in Areas of Marine Renewable Energy Development. Scottish Marine and Freshwater Science 7 (14):108pp.

Wilson, L.J., K. Grellier, and P.S. Hammond. 2016. Improved estimates of digestion correction factors and passage rates for harbour seal (Phoca vitulina) prey. Scottish Marine and Freshwater Science 7 (23):42pp.

Wilson, L.J., and P. S. Hammond. 2016. Comparing the diet of harbour and grey seals in Scotland and eastern England. Scottish Marine and Freshwater Science 7 (19):30pp.

Wilson, L.J., and P. S. Hammond. 2016. Harbour seal diet composition and diversity. Scottish Marine and Freshwater Science 7 (21):86pp.