2025
Peer-reviewed publications:
- Gomez S., English H.M., ..., Bray, E., ..., Whyte, K.F. & et al. (2025). Understanding and predicting animal movements and distributions in the Anthropocene. Journal of Animal Ecology, 94(6), 1146-1164.
- Sequeira, A.M.M., Rodriguez, J.P., ..., Couto, A. & et al. (2025). Global tracking of marine megafauna space use reveals how to achieve conservation targets. Science, 388(6751), 1086-1097.
- VanCompernolle M., Morris J., Calich H., ..., Bouchet P.J. & et al. (2025). Vulnerability of marine megafauna to global at-sea anthropogenic threats. Conservation Biology, e70147.
- Pirotta E., Tyack P., Adams J., Asaro M., Bouchet P.J. & et al. (2025). The combined effects of multiple stressors in an endangered, long-lived species: Lessons learned and ways forward. Ecological Applications 35(8), e70144.
- Lewis, S., Butler, A., Wanless, S., Newell, M.A., Harris, M.P., Burthe, S.J., Gunn, C.M., Howells, R.J. & Daunt, F. (2025). Effects of environmental conditions on mate fidelity in a socially monogamous seabird. Animal Behaviour, 123356.
2024
Peer-reviewed publications:
- Validating hidden Markov models for seabird behavioural inference
- Assessing the importance of individual- and colony-level variation when using seabird foraging ranges as impact assessment and conservation tools
- Stopping Rule Sampling to Monitor and Protect Endangered Species
- Incorporating density-dependent regulation into impact assessments for seabirds
Selected reports:
- Daunt, F., Jones, E., Cook, A., Thaxter, C., Buckingham, L., Whyte, K., Ewing, D., Mobbs, D., Couto, A., Bogdanova, M., Searle, K. & Butler, A. (2024). Improving methods for apportioning seabirds seen at sea both in the breeding season and non-breeding season (AppSAS). ORJIP project reports.
2022
- Seabird GPS tracking on the Isle of May, Fowlsheugh and St Abb’s Head in 2021 in relation to offshore wind farms in the Forth/Tay region
- Assessing discards in an illegal small-scale fishery using fisher-led reporting
- Potential climate-driven changes to seabird demography: implications for assessments of marine renewable energy development
- State-space models for ecological time-series data: Practical model-fitting
- Study to examine how seabird collision risk, displacement and barrier effects could be integrated for assessment of offshore wind developments
- Study to examine the impact of climate change on seabird species off the east coast of Scotland and potential implications for environmental assessments
- Tidal streams, fish, and seabirds: Understanding the linkages between mobile predators, prey, and hydrodynamics
- Building integral projection models with nonindependent vital rates
- Opposing effects of spatiotemporal variation in resources and temporal variation in climate on density dependent population growth in seabirds
- Shipping in the north-east Atlantic: Identifying spatial and temporal patterns of change
2021
- Surface characterisation of Kolk-Boils within tidal stream environments using UAV imagery
- A guide to state-space modeling of ecological time series
- Estimating spatio-temporal distribution of fish and gear selectivity functions from pooled scientific survey and commercial fishing data
- Feasibility study of large-scale deployment of colour-ringing on Black-legged Kittiwake populations to improve the realism of demographic models assessing the population impacts of offshore wind farms
- Intra- and inter-annual variability in the fat content of Atlantic herring (Clupea harengus) as revealed by routine industry monitoring
- Correct treatment of uncertainty in ornithological assessments
- Study to examine the feasibility of extending SeabORD to the entire breeding season
- Improving inference for nonlinear state-space models of animal population dynamics given biased sequential life stage data
- Assessing the role of sampling uncertainty when predicting behavioral responses of tagged cetaceans exposed to naval sonar
2020
- Estimating the effects of pile driving sounds on seals: Pitfalls and possibilities
- A population viability analysis modelling tool for seabird species – tool testing
- Attributing seabirds at sea to appropriate breeding colonies and populations
- Improving inference for nonlinear state-space models of animal population dynamics given biased sequential life stage data
- Scoping study - regional population viability analysis for key bird species
- dsmextra: Extrapolation assessment tools for density surface models
- A standard protocol for reporting species distribution models
2019
- A population viability analysis modelling tool for seabird species
- Colonisation dynamics during range expansion is poorly predicted by dispersal in the core range
- Effect of breeding performance on the distribution and activity budgets of a predominantly resident population of black‐browed albatrosses
- Fine scale spatial variability in the influence of environmental cycles on the occurrence of dolphins at coastal sites
- Global spatial risk assessment of sharks under the footprint of fisheries
- Scottish waters east region regional sectoral marine plan strategic ornithology study
- Sub-lethal effects of natural parasitism operate through maternal but not paternal reproductive success in a wild population
- Better model transfers require knowledge of mechanisms
2018
- AIS data to inform small scale fisheries management and marine spatial planning
- Bacterial community response in deep Faroe-Shetland channel sediments following hydrocarbon entrainment with and without dispersant addition
- Finding out the fate of displaced birds
- Multi-decadal and ontogenetic trophic shifts inferred from stable isotope ratios of pinniped teeth
- Pronounced long-term trends in year-round diet composition of the European shag Phalacrocorax aristotelis
- The effect of chemical dispersant concentration on hydrocarbon mobility through permeable North-East Scotland sands
- Outstanding challenges in the transferability of ecological models
- The energetic cost of parasitism in a wild population
2017
- Convergent foraging tactics of marine predators with different feeding strategies across heterogeneous ocean environments
- Feasibility study for meta-analysis of red-throated diver displacement
- Fine-scale harbour seal usage for informed marine spatial planning
- From days to decades: Short- and long-term variation in environmental conditions affect offspring diet composition of a marine top predator
- Multi-colony tracking reveals spatio-temporal variation in carry-over effects between breeding success and winter movements in a pelagic seabird
- Review of analytical approaches for identifying usage and foraging areas at sea for harbour seals
- Seals and shipping: quantifying population risk and individual exposure to vessel noise
- Taking movement data to new depths: Inferring prey availability and patch profitability from seabird foraging behavior
- Updated grey seal (Halichoerus grypus) usage maps in the North Sea
- Updated seal usage maps: The estimated at-sea distribution of grey and harbour seals
- Validating accelerometry estimates of energy expenditure across behaviours using heart rate data in a free-living seabird
2016
- A trait-based approach for predicting species responses to environmental change from sparse data: how well might terrestrial mammals track climate change?
- Avoidance of wind farms by harbour seals is limited to pile driving activities
- Life histories of oceanodromous fishes. An introduction to fish migration
- Fine-scale harbour seal at-sea usage around Orkney and the North coast of Scotland
- Integrated monitoring of Mola mola behaviour in space and time
- Investigations into the interactions between harbour seals (Phoca vitulina) and vessels in the inner Moray Firth
- Novel application of a quantitative spatial comparison tool to species distribution data
- Population scaling in 5 km x 5 km grey and harbour seal usage maps
- The relative performance of AIC, AICC and BIC in the presence of unobserved heterogeneity
- The role of trust in the resolution of conservation conflicts
- The use of an unsupervised learning approach for characterizing latent behaviors in accelerometer data
- Using individual tracking data to validate the predictions of species distribution models
2015
- At-sea turnover of breeding seabirds
- Bogdanova, M.I., Butler, A., Gunn, C., Kafas, A., Rei, C., Low, P. & Daunt F. (2015) Foraging behaviour of large gulls and implications for offshore wind site selection. Contract report to Innovate UK, Moray Offshore Renewables Ltd and Beatrice Offshore Windfarm Ltd
- Determine data sparse regions. Report to Marine Scotland MMSS/001/11 MR 5.1
- Determine environmental covariates for usage preference around the UK. Report to Marine Scotland MMSS/001/11 MR 5.1.6
- Effects of sea temperature and stratification changes on seabird breeding success
- Examining the distribution of observed carcasses to identify biological and oceanographic patterns and distribution of potential causes to assess the patterns of risk associated with unexplained seal deaths
- Habitat selection of gray seals (Halichoerus grypus) in a marine protected area in France
- Intrinsic and extrinsic drivers of activity budgets in sympatric grey and harbour seals
- Patterns of space use in sympatric marine colonial predators reveals scales of spatial partitioning
- Produce, publish and maintain seal usage maps with confidence intervals
- Protracted treatment with corticosterone reduces breeding success in a long-lived bird
- Review the extent of how new survey data affect usage estimates. Report to Marine Scotland MMSS/001/11 MR 5.1
2014
- Among-year and within-population variation in foraging distribution of European shags Phalacrocorax aristotelis over a twenty-year period: implications for marine spatial planning
- Assessing the vulnerability of the marine bird community in the western North Sea to climate change and other anthropogenic impacts
- Population consequences of displacement from proposed offshore wind energy developments for seabirds breeding at Scottish SPAs (CR/2012/03)
2013
- Does stakeholder involvement really benefit biodiversity conservation
- Endoscopy as a novel method for assessing endoparasite burdens in free-ranging European shags (Phalacrocorax aristotelis)
- Framing scale in participatory biodiversity management may contribute to more sustainable solutions
- Jones, E.L., & Matthiopoulos, J. (2013) Hornsea Offshore Wind Farm Project One: Environmental Statement Volume 5 – Offshore Annexes. Smart Wind Limited
2012
- Phenological trends and trophic mismatch across multiple levels of a North Sea pelagic food web
- Sparling, C.E., Russell, D.J.F., Jones, E.L., Grellier, K., Lonergan, M., McConnell, B.J., ... Thompson, D. (2012) Baseline seal information for the FTWODG area. SMRUL-FDG-2012-0 to FTOWDG. SMRU Consulting