Our papers

We write papers and we also contribute to papers of other people as part of consultancy projects. Some of the papers below come out of guidance of PhD students.

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• HW van der Veer, V Freita, J Koot, JIJ Witte, AF Zuur (In Press -2010). Are epibenthic species at temperate intertidal systems food limited in summer? An analysis for 0-group plaice Pleuronectes platessa L. in the Dutch Wadden Sea. Marine Ecology Progress Series. 
• J Craig , R Hutson, AJ Jamieson, AF Zuur & IG Priede. (2010-In Press). Factors influencing the abundance of deep pelagic bioluminescent zooplankton in the Mediterranean Sea. Deep Sea Research Part I.
• AF Zuur, EN Ieno & CS Elphick. (2010). A protocol for data exploration to avoiding common statistical problems. Methods in Ecology and Evolution. See also MEE's Method.blog. Download data and R code. This paper has been downloaded 5235 times in the first six months.
• DJ Mayor, AF Zuur, M Solan, GI Paton, K Killham. (2010-In press). Factors affecting the 'environmental footprints' of Scottish fish farms. Environmental Science & Technology. 
• DJ Mayor, K Cook, B Thornton, P Walsham, UFM Witte, AF Zuur and TR Anderson (2010 - In press). Absorption, fractionation and turnover of substrates in a keystone marine organism. Functional Ecology.
• L Dransfeld, O Dwane, AF Zuur. (2009). Distribution patterns of ichthyoplankton communities in different ecosystems of the Northeast Atlantic. Fisheries Oceanography. 18 (6), pp. 470 - 475.
• CJ Philippart, JM van Iperen, GC Cadee, AF Zuur. (2009). Long-term field observations on phytoplankton seasonality in a shallow coastal marine ecosystem, the Wadden Sea. Estuaries and Coasts.
• P Lastra-Luque, JA Learmonth, BA Santos, EN Ieno, GJ Pierce. (2009). Comparison of two histological techniques for age determination in small cetaceans. Marine mammal science.  
• DM Bailey, MA Collins, JDM. Gordon, AF Zuur, IG Priede. (2009) Long-term changes in deep-water fish populations in the North East Atlantic: a deeper-reaching effect of fisheries?  Journal Proceedings of the Royal Society: B.
• MA Cronin, AF Zuur, S Ingram and E Rogan. (2009). A modeling framework to optimize timing of haul-out counts for estimating harbour seal abundance. NAMMCO Scientific Publications. 
• Cronin MA, Zuur AF, Rogan E, McConnell BJ. (2009). Using mobile phone telemetry to investigate the haul-out behaviour of harbour seals Phoca vitulina vitulina. Endangered species research. 
• Penston MJ, Millar CP, Zuur AF, and Davies IM. (2008). Spatial and temporal distribution of Lepeophtheirus salmonis (Krøyer) larvae in a sea loch containing Atlantic salmon, Salmo salar L., farms on the north-west coast of Scotland. Journal of Fish Diseases. 31: 361–371
• Luque PL, Pierce GJ, Learmonth JA, Santos MB, Ieno EN, López A, Reid RJ, Rogan E, González AF, Boon J, Law RJ, and Lockyer CH. (2009). Dentinal anomalies in teeth of harbour porpoises (Phocoena phocoena) from Scottish waters: are they linked to sexual maturation and environmental events? Journal of the Marine Biological Association. 
• Pierce GJ, Santos MB, Murphy S, Learmonth JA, Zuur AF, Rogan E, Bustamante P, Caurant F, Lahaye V, Ridoux V, Zegers BN, Mets A, Addink M, Smeenk C, Jauniaux T, Law RJ, Dabin W, Lopez A, Farre JMA, Gonzalez AF, Guerra A, Garcia-Hartmann M, Reid RJ, Moffat CF, Lockyer C, Boon JP. (2008). Bioaccumulation of persistent organic pollutants in female common dolphins (Delphinus delphis) and harbour porpoises (Phocoena phocoena) from western European seas: Geographical trends, causal factors and effects on reproduction and mortality. Environmental pollution; 153: 401-415.
• Valavanis VD, Pierce GJ, Zuur AF, Palialexis A, Saveliev A, Katara I, Wang J. (2008) Modelling of essential fish habitat based on remote sensing, spatial analysis and GIS.  Hydrobiologia.
• Priede IG, Jamieson A, Heger A, Craig J, Zuur AF. The potential influence of bioluminescence from marine animals on a deep sea underwater neutrino telescope array in the Mediterranean Sea Deep-Sea Research. (2008). Deep-Sea Research Part I. 
• Pierce GJ, Valavanis VD, Guerra A,  Jereb P, Orsi-Relini L, Bellido JM, Katara I, Piatkowski U, Pereira J,  Balguerias E, Sobrino I, Lefkaditou E, Wang J, Santurtun M, Boyle PR, Hastie LC, MacLeod CD, Smith JM, Viana M, Gonzalez AF, Zuur AF. (2008). A review of cephalopod–environment interactions in European Seas.  Hydrobiologia.
• Pierce GJ, Santos MB, Smeenk C, Saveliev A, and Zuur AF. (2007). Historical trends in the incidence of strandings of sperm whales (Physeter macrocephalus) on North Sea coasts: An association with positive temperature anomalies. Fisheries Research. 87: 219-228.
• Mayor DJ, Matthews C, Cook K, Zuur AF, Hay S. (2007). CO2-induced acidification affects hatching success in Calanus finmarchicus. Marine ecology progress series, 350: 91-97.
• Lahaye V, Bustamante P,  Law RJ,  Learmonth JA, Santos MB,  Boon JP, Rogan E, Dabin W,  Addink MJ,  López A,  Zuur AF,  Pierce GJ, Caurant F. (2007). Biological and ecological factors related to trace element levels in harbour porpoises (Phocoena phocoena) from European waters. Marine Environmental Research, 64: 247-266
• Mendes S, Newton J, Reid R, Zuur AF, Pierce GJ. (2007). Teeth reveal sperm whale ontogenetic movements and trophic ecology through the profiling of stable isotopes of carbon and nitrogen. Oecologia. 151: 605-615
• Gillibrand EJV, Jamieson AJ, Bagley PM, Zuur AF & Priede IG. (2007). Seasonal development of a deep pelagic bioluminescent layer in the northeast Atlantic Ocean. Marine Ecology Progress Series, 341: 37-44.
• Laine AO, Andersin AB, Leiniö S & Zuur AF. (2007). Stratification induced hypoxia as a structuring factor of macrozoobenthos in the open Gulf of Finland (Baltic Sea). Journal of Sea Research. 57: 65-77.
• Borges L, Zuur AF, Rogan E and Officer R. (2006). Modelling discards from demersal fisheries. ICES J. Mar. Sci., 63: 1086-1095.
• Brown A, Bournhill A, Watson J, Wall T, Ellis T, Zuur AF and Ieno EN. (2007). Commercial conditions: Integration of physiological, behavioural and physical approaches. Comparative  biochemistry and physiology a-molecular & integrative physiology. 146: S80-S81
• Ieno EN, Solan M, Batty P & Pierce GJ, 2006. Distinguishing between the effects of infaunal species richness, identity and density in the marine benthos. Marine Ecology Progress Series, 311: 263-271.
• Neat FC, Wright PJ, Zuur AF, Gibb IM, Gibb FM, Tulett D, Righton DA and Turner RJ. (2006). Residency and depth movements of a coastal group of Atlantic cod (Gadus morhua L). Marine Biology, 148: 643-654.
• MacLeod CD and Zuur AF. (2005). Habitat utilization by Blainville's beaked whales off Great Abaco, northern Bahamas, in relation to seabed topography. Marine Biology, 147: 1-11.
• Sacau, M, Pierce GJ, Wang J, Arkhipkin AI, Portela J, Brickle P, Santos MB, Zuur AF and Cardoso X. (2005). The spatio-temporal pattern of Argentine shortfin squid Illex argentinus abundance in the southwest Atlantic. Aquat. Living Resour. 18: 361-372.
• Weijerman M, Lindeboom H, Zuur AF. (2005). Regime shifts in marine ecosystems in the North Sea and Wadden Sea. Marine Ecology Progress Series 298: 21-39.
• Chen CS, Pierce GJ, Wang J, Robin JP, Poulard JC, Pereira J, Zuur AF, Boyle PR, Bailey N, Beare DJ, Jereb P, Ragonese S, Mannini A & Orsi-Relini L, (2006). The apparent disappearance of Loligo forbesi from the south of its range in the 1990s: trends in Loligo spp. abundance in the northeast Atlantic and possible environmental influences. Fisheries Research 78: 44-54.
• Pierce GJ, Zuur AF, Smith JM, Santos MB, Bailey N, Chen CS & Boyle PR. (2005). Interannual variation in life-cycle characteristics of the veined squid (Loligo forbesi) in Scottish (UK) waters. Aquatic Living Resources 18: 327-340.
• Smith JM, Pierce GJ, Zuur AF & Boyle PR. (2005). Seasonal patterns of investment in reproductive and somatic tissues in the squid Loligo forbesi. Aquatic Living Resources 18: 341-351.
• Borges L, Zuur AF, Rogan E and Officer R. (2005). Choosing the best sampling unit and auxiliary variable for discard estimations. Fish. Res. 75: Issue 1-3, 29-39.
• Zuur AF and Pierce GJ. (2004). Common trends in Northeast Atlantic Squid time series. Journal of Sea Research 52: 57-72.
• Borges L, Zuur AF, Rogan E and Officer R. (2004). Optimum sampling levels in discard sampling programs. Can. J. Fish. Aquat. Sci. 61: 1918-1928.
• Ieno E, Alemany D , Blanco D & Bastida R. (2004). Prey size selection by Red Knot feeding on mud snails at Punta Rasa (Argentina) during migration. Waterbirds 27: 493-498.
• Zuur AF, Fryer RJ, Jolliffe IT, Dekker R and Beukema JJ. (2003). Estimating common trends in multivariate time series using dynamic factor analysis. Environmetrics, 14(7): 665-685.
• Fryer J, Zuur AF and Graham N. (2003). Using mixed models to combine smooth size-selection and catch-comparison curves over hauls. Can. J. Fish. Aquat. Sci. 60: 448-459.  
• O'Neill FG, McKaya SJ, Ward JN, Strickland A, Kynoch RJ, Zuur AF. (2003). An investigation of the relationship between sea state induced vessel motion and cod-end selection. Fisheries Research, 60, 107–130
• Zuur AF, Tuck ID and Bailey N. (2003). Dynamic factor analysis to estimate common trends in fisheries time series. Canadian Journal of Fisheries and Aquatic Sciences, 60: 542-552.
• Ieno EN, Martin JP & Bastida R. (2000). Estimation of size classes in Laeonereis acuta (Polychaeta Nereididae) based on jaw length and body width usable in trophic studies. Bulletin of Marine Science 67(1): 30-44.
• Brinkman AG, Philippart CJM & Zuur AF. (1995). Model methods of mesocosm experimental methods. Helgoländer Meeresunters 49: 771-784.
• Ieno EN and Bastida R. (1998). Spatial and temporal patterns in coastal macrobenthos of Samborombón Bay, Argentine: a case study of very low diversity. Estuaries 21: (4): 690-699.
• van Geer FC and Zuur AF. (1997). An extension of Box-Jenkins transfer/noise models for spatial interpolation of groundwater head series. Journal of Hydrology 192: 65-80.
• Elias R &  Ieno EN. (1993). The community of Laeonereis acuta Treadwell, 1923 (Polychaeta: Nereididae) in the estuary of Bahía Blanca, Argentina. Iheringia, Ser. Zool., Porto Alegre 75: 3-13.