Publications (PURE)


Recent publications listed in research@st-andrews

Pomeroy, P, Twiss, S & Robinson, KJ 2017, Reproductive behaviour. in Encyclopedia of Marine Mammals. 3 edn, 36, Academic Press.
Negrão, R, Sampaio-e-Silva, T, Rocha Kortz, A, Magurran, A & Silva Matos , DM 2017, 'An endangered tree fern increases beta-diversity at a fine scale in the Atlantic Forest Ecosystem' Flora, vol 234, pp. 1-6. DOI: 10.1016/j.flora.2017.05.020
Dunlop, RA, Noad, MJ, McCauley, RD, Scott-Hayward, LAS, Kniest, E, Slade, R, Paton, D & Cato, DH 2017, 'Determining the behavioural dose-response relationship of marine mammals to air gun noise and source proximity' Journal of Experimental Biology, vol 220, no. 16, pp. 2878-2886. DOI: 10.1242/jeb.160192
Metcalfe, K, Collins, T, Abernethy, KE, Boumba, R, Dengui, J-C, Miyalou, R, Parnell, RJ, Plummer, KE, Russell, DJF, Safou, GK, Tilley, D, Turner, RA, VanLeeuwe, H, Witt, MJ & Godley, BJ 2017, 'Addressing uncertainty in marine resource management; combining community engagement and tracking technology to characterize human behavior' Conservation Letters, vol 10, no. 4, pp. 459-468. DOI: 10.1111/conl.12293
Williams, R, Ashe, EE, Gaut, K, Gryba, R, Moore, JE, Rexstad, E, Sandilands, D, Steventon, J & Reeves, R 2017, 'Animal Counting Toolkit: a practical guide to small-boat surveys for estimating abundance of coastal marine mammals' Endangered Species Research, vol 34, pp. 149-165. DOI: 10.3354/esr00845
Lowe, A, Bawazeer, S, Watson, D, McGill, S, Burchmore, R, Pomeroy, P & Kennedy, M 2017, 'Rapid changes in Atlantic grey seal milk from birth to desertion' bioRxiv. DOI:
Baron, J, Specht, A, Garnier, E, Bishop, P, Campbell, A, Davis, F, Fady, B, Field, D, Gross, L, Guru, S, Halpern, B, Hampton, S, Leavitt, P, Meagher, TR, Ometto, J, Parker, J, Price, R, Rawson, C, Rodrigo, A, Sheble, L & Winter, M 2017, 'Synthesis centers as critical research infrastructure' Bioscience, vol 67, no. 8, pp. 750-759. DOI: 10.1093/biosci/bix053
Harris, CM, Thomas, L, Falcone, E, Hildebrand, J, Houser, D, Kvadsheim, P, Lam, F-PA, Miller, P, Moretti, DJ, Read, A, Slabbekoorn, H, Southall, BL, Tyack, PL, Wartzok, D & Janik, VM 2017, 'Marine mammals and sonar: dose-response studies, the risk-disturbance hypothesis and the role of exposure context' Journal of Applied Ecology, vol Early view. DOI: 10.1111/1365-2664.12955
Fulling, GL, Jefferson, TA, Fertl, D, Salinas Vega, JC, Oedekoven, CS & Kuczaj II, SA 2017, 'Sperm whale (Physeter macrocephalus) collision with a research vessel: accidental collision or deliberate ramming?' Aquatic Mammals, vol 43, no. 4, pp. 421-429. DOI: 10.1578/AM.43.4.2017.421
Marques, TA, Thomas, L, Kery, M, Buckland, ST, Borchers, DL, Rexstad, E, Fewster, RM, Mackenzie, DI, Royle, JA, Guillera-Arroita, G, Handel, CM, Pavlacky, DC & Camp, RJ 2017, 'Model-based approaches to deal with detectability: a comment on Hutto (2016a)' Ecological Applications, vol 27, no. 5, pp. 1694-1698. DOI: 10.1002/eap.1553/full
Suryawanshi, KR, Redpath, SM, Bhatnagar, YV, Ramakrishnan, U, Chaturvedi, V, Smout, SC & Mishra, C 2017, 'Impact of wild prey availability on livestock predation by snow leopards' Royal Society Open Science, vol 4, 170026. DOI: 10.1098/rsos.170026
Brierley, AS 2017, 'Plankton' Current Biology, vol 27, no. 11, pp. R478. DOI: 10.1016/j.cub.2017.02.045
Howe, EJ, Buckland, ST, Després-Einspenner, M-L & Kühl, H 2017, 'Distance sampling with camera traps' Methods in Ecology and Evolution, vol Early View. DOI: 10.1111/2041-210X.12790
Romagosa, M, Cascão, I, Merchant, ND, Lammers, MO, Giacomello, E, Marques, TA & Silva, MA 2017, 'Underwater ambient noise in a baleen whale migratory habitat off the Azores' Frontiers in Marine Science, vol 4, 109. DOI: 10.3389/fmars.2017.00109
Joshi, M, von Glasow, R, Smith, RS, Paxton, CGM, Maycock, AC, Lunt, DJ, Loptson, C & Markwick, P 2017, 'Global warming and ocean stratification: a potential result of large extraterrestrial impacts' Geophysical Research Letters, vol Early View. DOI: 10.1002/2017GL073330
Nguyen, Q, Naguib, R, Das, A, Papathomas, M, Vallar, E, Wickramasinghe, N, Santos, GN, Galvez, MC & Nguyen, V 2017, 'Primary education in Vietnam and pupil online engagement' International Journal of Educational Management.
Rue, H, Riebler, A, Sørbye, SH, Illian, JB, Simpson, DP & Lindgren, FK 2017, 'Bayesian computing with INLA: a review' Annual Review of Statistics and its Application, vol 4, pp. 395-421. DOI: 10.1146/annurev-statistics-060116-054045
Rodríguez-Caro, RC, Oedekoven, CS, Graciá, E, Anadón, JD, Buckland, ST, Esteve-Selma, MA, Martinez, J & Giménez, A 2017, 'Low tortoise abundances in pine forest plantations in forest-shrubland transition areas' PLoS One, vol 12, no. 3, e0173485. DOI: 10.1371/journal.pone.0173485
Aguilar de Soto, N, Martín, V, Silva, M, Edler, R, Reyes, C, Carrillo, M, Schiavi, A, Morales, T, García-Ovide, B, Sanchez-Mora, A, Garcia-Tavero, N, Steiner, L, Scheer, M, Gockel, R, Walker, D, Villa, E, Szlama, P, Eriksson, IK, Tejedor, M, Perez-Gil, M, Quaresma, J, Bachara, W & Carroll, E 2017, 'True’s beaked whale (Mesoplodon mirus) in Macaronesia' PeerJ, vol 5, e3059. DOI: 10.7717/peerj.3059
Vacquié-Garcia, J, Lydersen, C, Marques, TA, Aars, J, Ahonen, H, Skern-Mauritzen, M, Øien, N & Kovacs, KM 2017, 'Late summer distribution and abundance of ice-associated whales in the Norwegian High Arctic' Endangered Species Research, vol 32, pp. 59-70. DOI: 10.3354/esr00791
Vellend, M, Dornelas, M, Baeten, L, Beauséjour, R, Brown, CD, De Frenne, P, Elmendorf, SC, Gotelli, NJ, Moyes, F, Myers-Smith, IH, Magurran, AE, McGill, BJ, Shimadzu, H & Sievers, C 2017, 'Estimates of local biodiversity change over time stand up to scrutiny' Ecology, vol 98, no. 2, pp. 583-590. DOI: 10.1002/ecy.1660
Jaramillo-Legorreta, A, Cardenas-Hinojosa, G, Nieto-Garcia, E, Rojas-Bracho, L, Hoef, JV, Moore, J, Tregenza, N, Barlow, J, Gerrodette, T, Thomas, L & Taylor, B 2017, 'Passive acoustic monitoring of the decline of Mexico's critically endangered vaquita' Conservation Biology, vol 31, no. 1, pp. 183-191. DOI: 10.1111/cobi.12789
Hohn, AA, Thomas, L, Carmichael, RH, Litz, J, Clemons-Chevis, C, Shippee, SF, Sinclair, C, Smith, S, Speakman, TR, Tumlin, MC & Zolman, ES 2017, 'Assigning stranded bottlenose dolphins to source stocks using stable isotope ratios following the Deepwater Horizon oil spill' Endangered Species Research, vol 33, pp. 235-252. DOI: 10.3354/esr00783
Schwacke, LH, Thomas, L, Wells, RS, McFee, WE, Hohn, AA, Mullin, KD, Zolman, ES, Quigley, BM, Rowles, TK & Schwacke, JH 2017, 'Quantifying injury to common bottlenose dolphins from the Deepwater Horizon oil spill using an age-, sex- and class-structured population model' Endangered Species Research, vol 33, pp. 265-279. DOI: 10.3354/esr00777
McDonald, TL, Hornsby, FE, Speakman, TR, Zolman, ES, Mullin, KD, Sinclair, C, Rosel, PE, Thomas, L & Schwacke, LH 2017, 'Survival, density, and abundance of common bottlenose dolphins in Barataria Bay (USA) following the Deepwater Horizon oil spill' Endangered Species Research, vol 33, pp. 193-209. DOI: 10.3354/esr00806
Chen, F, Shapiro, GI, Bennett, KA, Ingram, SN, Thompson, D, Vincent, C, Russell, DJF & Embling, CB 2017, 'Shipping noise in a dynamic sea: a case study of grey seals in the Celtic Sea' Marine Pollution Bulletin, vol 114, no. 1, pp. 372-383. DOI: 10.1016/j.marpolbul.2016.09.054
Hampton, SE, Halpern, BS, Winter, M, Balch, JK, Parker, JN, Baron, JS, Palmer, M, Schildhauer, MP, Bishop, P, Meagher, TR & Specht, A 2017, 'Best practices for virtual participation in meetings: experiences from synthesis centers' The Bulletin of the Ecological Society of America, vol 98, no. 1, pp. 57-63. DOI: 10.1002/bes2.1290
Heath, MR, Richard, L, Kate, S, Cook, R, Speirs, D, Daunt, F, Wanless, S, Hyder, K, Pinnegar, JK, Thorpe, R, Karen, D, Campbell, N, Wright, P, Thorburn, J, Arthur, R, Macdonald, P, Mouat, B, Fox, C, Heymans, S, Coull, K, Evans, P, Fernandes, P, Hammond, P, Smout, S, Kolding, J & Reid, D 2017, FIS013 – Scoping the background information for an ecosystem approach to fisheries in Scottish waters: Review of predator-prey interactions with fisheries, and balanced harvesting. Fisheries Innovation Scotland.
Nic Lughadha, E, Canteiro, C, Bachman, S, Baines, D, Gardiner, L, Meagher, TR, Rivers, M, Shuiteman, A, Williams, E & Hargreaves, S 2017, Extinction risk and threats to plants. in KJ Willis (ed.), State of the World's Plants 2017., 11, Royal Botanic Gardens, Kew, pp. 72-77.
Jones, EL & Russell, DJ 2017, Updated grey seal (Halichoerus grypus) usage maps in the North Sea. vol. OESEA-15-65, Department of Energy and Climate Change.
Savage, A, Thomas, L, Feilen, KL, Kidney, D, Soto, LH, Pearson, M, Medina, FS, Emeris, G & Guillen, RR 2016, 'An assessment of the population of cotton-top tamarins (Saguinus oedipus) and their habitat in Colombia' PLoS One, vol 11, no. 12, e0168324. DOI: 10.1371/journal.pone.0168324
Taylor, BL, Rojas-Bracho, L, Moore, J, Jaramillo-Legorreta, A, Ver Hoef, JM, Cardenas-Hinojosa, G, Nieto-Garcia, E, Barlow, J, Gerrodette, T, Tregenza, N, Thomas, L & Hammond, PS 2016, 'Extinction is imminent for Mexico’s endemic porpoise unless fishery bycatch is eliminated' Conservation Letters, vol Early View. DOI: 10.1111/conl.12331
Schick, RS, Humphris, GM, Kelsey, TW, Marston, J & Sampson, K 2016, 'MapMySmoke–a context aware mobile phone application targeted at smoking cessation' Scottish Smoking Cessation Conference 2016, Edinburgh, United Kingdom, 22/11/16 - 22/11/16, . DOI: 10.13140/RG.2.2.27703.32165
Heide-Jørgensen, MP, Hansen, RG, Fossette, S, Nielsen, NH, Borchers, DL, Stern, H & Witting, L 2016, 'Rebuilding beluga stocks in West Greenland' Animal Conservation, vol 20, no. 3, pp. 282-293. DOI: 10.1111/acv.12315
Ledo, A, Illian, JB, Schnitzer, SA, Wright, SJ, Dalling, JW & Burslem, DFRP 2016, 'Lianas and soil nutrients predict fine-scale distribution of above-ground biomass in a tropical moist forest' Journal of Ecology, vol 104, no. 6, pp. 1819-1828. DOI: 10.1111/1365-2745.12635
Dellabianca, NA, Pierce, GJ, Rey, AR, Scioscia, G, Miller, DL, Torres, MA, Viola, MNP, Goodall, RNP & Schiavini, ACM 2016, 'Spatial models of abundance and habitat preferences of Commerson’s and Peale’s dolphin in southern Patagonian waters' PLoS One, vol 11, no. 10, e0163441. DOI: 10.1371/journal.pone.0163441
Python, A, Illian, JB, Jones-Todd, CM & Blangiardo, M 2016, Explaining the Lethality of Boko Haram’s Terrorist Attacks in Nigeria, 2009-2014: A Hierarchical Bayesian Approach. in R Argiento, E Lanzarone, I Antoniano Villalobos & A Mattei (eds), Bayesian statistics in action: Proceedings of BAYSM 2016 . Springer Proceedings in Mathematics & Statistics, vol. 194, Springer.
Tyack, PL, Bailey, H, Crocker, D, Estes, JE, Francis, CD, Harwood, J, Schwacke, L, Thomas, LJ & Wartzok, D 2016, Approaches to Understanding the Cumulative Effects of Stressors on Marine Mammals. National Academies Press, Washington DC. National Academies Press, Washington DC. DOI: 10.17226/23479
Arranz Alonso, P, DeRuiter, SL, Stimpert, AK, Neves, S, Friedlaender, AS, Goldbogen, JA, Visser, F, Calambokidis, J, Southall, BL & Tyack, PL 2016, 'Discrimination of fast click series produced by tagged Risso’s dolphins (Grampus griseus) for echolocation or communication' Journal of Experimental Biology, vol 219, no. 18, pp. 2898-2907. DOI: 10.1242/jeb.144295
Vogogias, A, Kennedy, J, Archaumbault, D, Smith, VA & Currant, H 2016, MLCut: exploring Multi-Level Cuts in dendrograms for biological data. in C Turkay & TR Wan (eds), Computer Graphics and Visual Computing Conference (CGVC) 2016. Eurographics Association, Computer Graphics & Visual Computing (CGVC) 2016, Bournemouth, United Kingdom, 15-16 September. DOI: 10.2312/cgvc.20161288
Russell, DJF 2016, Activity Budgets:Analysis of seal behaviour at sea. Department for Business, Energy and Industrial Strategy.
Pimentel, MS, Faleiro, F, Marques, T, Bispo, R, Dionísio, G, Faria, AM, Machado, J, Peck, MA, Pörtner, H, Pousão-Ferreira, P, Gonçalves, EJ & Rosa, R 2016, 'Foraging behaviour, swimming performance and malformations of early stages of commercially important fishes under ocean acidification and warming' Climatic Change, vol 137, no. 3, pp. 495-509. DOI: 10.1007/s10584-016-1682-5
Kempf, A, Mumford, J, Levontin, P, Leach, A, Hoff, A, Hamon, KG, Bartelings, H, Vinther, M, Staebler, M, Poos, JJ, Smout, S, Frost, H, van den Burg, S, Ulrich, C & Rindorf, A 2016, 'The MSY concept in a multi-objective fisheries environment - Lessons from the North Sea' Marine Policy, vol 69, pp. 146-158. DOI: 10.1016/j.marpol.2016.04.012
Fleishman, E, Costa, DP, Harwood, J, Kraus, S, Moretti, D, New, LF, Schick, RS, Schwarz, LK, Simmons, SE, Thomas, L & Wells, RS 2016, 'Monitoring population-level responses of marine mammals to human activities' Marine Mammal Science, vol 32, no. 3, pp. 1004-1021. DOI: 10.1111/mms.12310
Ellison, WT, Racca, R, Clark, CW, Streever, B, Frankel, AS, Fleishman, E, Angliss, R, Berger, J, Ketten, D, Guerra, M, Leu, M, McKenna, M, Sformo, T, Southall, B, Suydam, R & Thomas, L 2016, 'Modeling the aggregated exposure and responses of bowhead whales Balaena mysticetus to multiple sources of anthropogenic underwater sound' Endangered Species Research, vol 30, pp. 95-108. DOI: 10.3354/esr00727
Moffat, C, Buckland, ST, Samson, AJ, McArthur, R, Chamosa Pino, V, Bollan, KA, Huang, JT-J & Connolly, CN 2016, 'Neonicotinoids target distinct nicotinic acetylcholine receptors and neurons, leading to differential risks to bumblebees' Scientific Reports, vol 6, 24764, pp. 1-10. DOI: 10.1038/srep24764
Smout, SC 2016, Report of the NAMMCO Working Group on Coastal Seals 2016. North Atlantic Marine Mammal Commission.
Letessier, TB, Cox, MJ, Meeuwig, JJ, Boersch-Supan, PH & Brierley, AS 2016, 'Enhanced pelagic biomass around coral atolls' Marine Ecology Progress Series, vol 546, pp. 271-276. DOI: 10.3354/meps11675
Simpson, D, Illian, JB, Lindgren, F, Sørbye , SH & Rue, H 2016, 'Going off grid: computationally efficient inference for log-Gaussian Cox processes' Biometrika, vol 103, no. 1, pp. 49-70. DOI: 10.1093/biomet/asv064
Magurran, AE 2016, 'How ecosystems change' Science, vol 351, no. 6272, pp. 448-449. DOI: 10.1126/science.aad6758
Brierley, AS & Clapham, P 2016, 'Whaling permits: Japan's whaling is unscientific' Nature, vol 529, no. 7586, pp. 283. DOI: 10.1038/529283a
Russell, DJF 2016, Movements of Grey Seal That Haul out on the UK Coast of the Southern North Sea. vol. OESEA - 14 - 47 , Department of Energy and Climate Change.
Graham, IM, Cheney, B, Hewitt, R, Cordes, L, Hastie, GD, Russell, DJF, Arso Civil, M, Hammond, PS & Thompson, P 2016, Strategic Regional Pre-construction Marine Mammal Monitoring Programme Annual Report 2016. Annual report for the Moray Firth Regional Advisory Group, University of Aberdeen.
Gonzalvo, J, Lauriano, G, Hammond, PS, Viaud-Martinez, KA, Fossi, MC, Natoli, A & Marsili, L 2016, The Gulf of Ambracia’s common bottlenose dolphins (Tursiops truncatus): a highly dense and yet threatened population. in G Notarbartolo di Sciara, M Podestà & BE Curry (eds), Mediterranean Marine Mammal Ecology and Conservation. 1st edn, Advances in Marine Biology, vol. 75, Academic Press/Elsevier . DOI: 10.1016/bs.amb.2016.07.002
Aderhold, A, Smith, VA & Husmeier, D 2016, Biological network inference at multiple scales: from gene regulation to species interactions. in M Elloumi, CS Iliopoulos, JTL Wang & AY Zomaya (eds), Pattern Recognition in Computational Molecular Biology: Techniques and Approaches. Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, pp. 525-554.
Harris, CM, Thomas, L, Sadykova, D, De Ruiter, SL, Tyack, PL, Southall, BL, Read, AJ & Miller, P 2016, The challenges of analyzing behavioral response study data: an overview of the MOCHA (Multi-study OCean acoustics Human effects Analysis) project. in AN Popper & A Hawkins (eds), Effects of Noise on Aquatic Life II. Advances in Experimental Medicine and Biology, vol. 875, Springer Science and Business Media, pp. 399-407, Third International Conference on the Effects of Noise on Aquatic Life, Budapest, Hungary, 11-16 August. DOI: 10.1007/978-1-4939-2981-8_47
Hildebrand, J, Baumann-Pickering, S, Frasier, K, Trickey, J, Merkens, K, Wiggins, S, McDonald, M, Garrison, L, Harris, D, Marques, TA & Thomas, L 2015, 'Passive acoustic monitoring of beaked whale densities in the Gulf of Mexico' Scientific Reports, vol 5, 16343. DOI: 10.1038/srep16343
Marques, TA & Thomas, L 2015, A description of LATTE outputs. CREEM Technical Report, no. 2015-2, University of St Andrews.
Williams, R, Wright, AJ, Ashe, E, Blight, LK, Bruintjes, R, Canessa, R, Clark, CW, Cullis-Suzuki, S, Dakin, DT, Erbe, C, Hammond, PS, Merchant, MD, O'Hara, PD, Purser, J, Radford, AN, Simpson, SD, Thomas, L & Wale, MA 2015, 'Impacts of anthropogenic noise on marine life: publication patterns, new discoveries, and future directions in research and management' Ocean and Coastal Management, vol 115, pp. 17-24. DOI: 10.1016/j.ocecoaman.2015.05.021
New, LF, Hall, AJ, Harcourt, R, Kaufman, G, Parsons, ECM, Pearson, HC, Cosentino, AM & Schick, RS 2015, 'The modelling and assessment of whale-watching impacts' Ocean and Coastal Management, vol 115, pp. 10-16. DOI: 10.1016/j.ocecoaman.2015.04.006
Brummitt, N, Bachman, S, Griffiths-Lee, J, Lutz, M, Moat, J, Farjon, A, Donaldson, J, Hilton-Taylor, C, Meagher, TR, Albuquerque, S, Aletrari, E, Andrews, AK, Atchison, G, Baloch, E, Barlozzini, B, Brunazzi, A, Carretero, J, Celesti, M, Chadburn, H, Ciafoni, E, Cockel, C, Coldwell, V, Concetti, B, Contu, S, Crook, V, Dyson, P, Gardiner, L, Ghanim, N, Greene, H, Groom, A, Harker, R, Hopkins, D, Khela, S, Lakeman-Fraser, P, Lindon, H, Lockwood, H, Loftu, C, Lombrici, D, Lopez-Poveda, L, Lyon, J, Malcolm-Tompkins, P, McGregor, K, Moreno, L, Murray, L, Nazar, K & Nic Lughadha, E 2015, 'Green plants in the red: a baseline global assessment for the IUCN Sampled Red List Index for Plants' PLoS One, vol 10, no. 8, e0135152. DOI: 10.1371/journal.pone.0135152
Webster, CN, Hansson, S, Didrikas, T, Gorokhova, E, Peltonen, H, Brierley, AS & Lehtiniemi, M 2015, 'Stuck between a rock and a hard place: zooplankton vertical distribution and hypoxia in the Gulf of Finland, Baltic Sea' Marine Biology, vol 162, no. 7, pp. 1429-1440. DOI: 10.1007/s00227-015-2679-8