Publications

You can find here the latest publications from our group.

2025

Feng M, Varliero G, Perez-Mon C, Robinson S, Qi W, Stierli B & Frey B (2025) Permafrost thawing by soil transplantation alters the functional genetic potential of the alpine permafrost microbiome (2025) Geoderma 458: 117339. doi.org/10.1016/j.geoderma.2025.117339

Perez-Mon C, Hauk C, Roncone A, Bontempo L, Kelly SD, Caillet C, Deats M, Ogden R & Newton PN (2025) Hide and seek with falsified medicines: Current challenges and physico-chemical and biological approaches for tracing the origin of trafficked products. Forensic Science International 370: 112474. doi.org/10.1016/j.forsciint.2025.112474

Banterng N, Ewart K, Sitam FT & Ogden R (2025) Mitogenomic analysis of Thai Sunda pangolins reveals regional phylogeography and informs conservation management. Scientific Reports 15, 14067. doi.org/10.1038/s41598-025-97182-1

2024

Roncone A, Kelly SD, Giannioti Z, Hauk C, Caillet C, Newton PN, Perez-Mon C & Bontempo L (2024) Stable isotope ratio analysis: an emerging tool to trace the origin of falsified medicines. Trends in Analytical Chemistry 174: 117666. https://doi.org/10.1016/j.trac.2024.117666

2023

Hoban S, Bruford MW, da Silva JM, Funk WC, Frankham R, Gill MJ, Grueber CE, Heuertz M, Hunter ME, Kershaw F, Lacy RC, Lees C, Lopes-Fernandes M, MacDonald AJ, Mastretta-Yanes A, McGowan PJK, Meek MH, Mergeay J, Millette KL, Mittan-Moreau CS, Navarro LM, O’Brien D, Ogden R, Segelbacher G, Paz-Vinas I, Vernesi C, Laikre L (2023) Genetic diversity goals and targets have improved, but remain insufficient for clear implementation of the post-2020 global biodiversity framework. Conservation Genetics. doi.org/10.1007/s10592-022-01492-0

2022

Neaves LE, Ogden R, Hollingsworth PM (2022) Genomics and Conservation Translocations. In, Conservation Translocations, p 271, Eds MJ Gaywood, JG Ewan, PM Hollingsworth, A Moehrenschlager. Cambridge University Press

Humble E, Stoffel MA, Dicks K, Ball AD, Gooley RM, Chuven J, Pusey R, al Remeithi M, Koepfli K-P, Pukazhenthi B, Senn H, Ogden R (2022) Conservation management strategy impacts inbreeding and genetic load in scimitar-horned oryx. bioRxiv

Kershaw F, Bruford MW, Funk WC, Grueber CE Hoban S, Hunter ME, Laikre L, MacDonald AJ, Meek MH, Mittan C, Ogden R et al (2022) The Coalition for Conservation Genetics: Working across organizations to build capacity and achieve change in policy and practice. Conservation Science and Practice, 4(4): e12635

O'Brien D, Laikre L, Hoban S, Bruford MW, Ekblom R, Fischer MC, Hall J, Hvilsom C, Hollingsworth PM, Kershaw F, Mittan CS, Mukassabi TA, Ogden R, Segelbacher G, Shaw RE, Vernesi C, MacDonald AJ (2022) Bringing together approaches to reporting on within species genetic diversity. Journal of Applied Ecology, 59(9):2227-2233

Pomerantz A, Sahlin K, Vasiljevic N, Seah A, Lim M, Humble E, Kennedy S, Krehenwinkel H, Winter S, Ogden R, Prost S. (2022) A step-by-step protocol for DNA amplicon sequencing using miniaturized laboratory equipment for genetic biomonitoring and biodiversity exploration. Nature Protocols 17:1415–1443

Vasiljevic N, Morf NV, Senn J, Pérez‐Espona S, Mattucci F, Mucci N, Moore‐Jones G, Pisano SRR, Kratzer A, Ogden R (2022) Phylogeography and population genetic structure of the European roe deer in Switzerland following recent recolonization. Ecology and evolution, 12(2): e8626

2021

Laguardia A, Gobush KS, Bourgeois S, Strindberg S, Abitsi G, Ebouta F, Fay JM, Gopalaswamy, AM, Maisels F, Ogden R et al (2021) Assessing the feasibility of density estimation methodologies for African forest elephant at large spatial scales. Global Ecology and Conservation, 27: e01550

Coals P, Loveridge A, Kurian D, Williams VL, Macdonald DW, Ogden R (2021) DART mass spectrometry as a potential tool for the differentiation of captive-bred and wild lion bones. Biodiversity and Conservation, 30(6):1825-1854

Laikre L, Hohenlohe PA, Allendorf FW, Bertola LD, Breed MF, Bruford MW, Funk WC, Gajardo G, González-Rodríguez A, Grueber CE, Ogden R et al. (2021) Authors’ Reply to Letter to the Editor: Continued improvement to genetic diversity indicator for CBD. Conservation Genetics, 22(4): 533-536

Hoban S, Bruford MW, Funk WC, Galbusera PG, Griffith MP, Grueber CE, Heuertz M, Hunter ME, Hvilsom C, Stroil BK, Ogden R et al (2021) Global commitments to conserving and monitoring genetic diversity are now necessary and feasible. BioScience, 71(9):964-976

Mead D, Ogden R, Meredith A, Peniche G, Smith M, Corton C, Oliver K, Skelton J, Betteridge E, Doulcan J (2021) The genome sequence of the European golden eagle, Aquila chrysaetos chrysaetos Linnaeus 1758. Wellcome Open Research, 6

Naito‐Liederbach AM, Sato Y, Nakajima N, Maeda T, Inoue T, Yamazaki T, Ogden R, Inoue‐Murayama M (2021) Genetic diversity of the endangered Japanese golden eagle at neutral and functional loci. Ecological Research, 36(5): 815-829

Moore MK, Baker BW, Bauman TL, Burnham-Curtis MK, Espinoza EO, Ferrell CS, Frankham GJ, Frazier K, Giles JL, Hawk D, Rovie-Ryan JJ, Johnson RN, Knott T, Kornfield IL, Lindquist C, Lord WD, Morgan KI, O’Brien RC, Ogden R, Prigge T, Schwenke P, Sitam FT, Trail P, Wictum E, Wilson PJ, Yates BC, Webster LMI (2021) The society for wildlife forensic science standards and guidelines Forensic Science International: Animals and Environments, 1: 100027

Morf NV, Kopps AM, Nater A, Lendvay B, Vasiljevic N, Webster LMI, Fautley RG, Ogden R, Kratzer A (2021) STRoe deer: A validated forensic STR profiling system for the European roe deer (Capreolus capreolus). Forensic Science International: Animals and Environments, 1: 100027

Hale C, Ogden R, Ciavaglia S A, Cook GT, Clarke G, Ogle S, Webster LMI (2021) Investigating the origins of ivory recovered in the United Kingdom. Forensic Science International: Animals and Environments, 1:100027

Laikre L, Hohenlohe PA, Allendorf FW, Bertola LD, Breed MF, Bruford MW, Funk WC, Gajardo G, González-Rodríguez A, Grueber CE, Ogden R et al. (2021) Correction to: Authors’ Reply to Letter to the Editor: Continued improvement to genetic diversity indicator for CBD. Conservation Genetics, 22(4):537-539

Ogden R, Vasilijevic N, Prost S (2021) Nanopore sequencing in non-human forensic genetics. Emerging Topics in Life Sciences DOI: 101042/ETLS20200287

Vasiljevic N., Lim M., Humble E., Seah A., Kratzer A., Morf N.V., Prost S., Ogden R. (2021) Developmental validation of Oxford Nanopore Technology MinION sequence data and the NGSpeciesID bioinformatic pipeline for forensic genetic species identification. Forensic Science International: Genetics 5: 102493. doi: https://doi.org/10.1016/j.fsigen.2021.102493

Hirst, C. (2021) Deer in a Changing Climate – How do Wild Deer Affect Carbon Sequestration in Scottish Woodlands? Edinburgh: University of Edinburgh. http://dx.doi.org/10.7488/era/977

Thomson A.I., Archer F.I, Coleman M.A, Gajardo G., Goodall-Copestake W.P., Hoban S., Laikre L., Miller A.D., O'Brien D., Perez-Espona, S., Segelbacher G., Serrão E.A., Sjøtun K., Stanley M.S. (2021) Charting a course for genetic diversity in the UN Decade of Ocean Science. Evolutionary Applications 00:1-22. doi: https://doi.org/10.1111/eva.13224

Perez-Espona, S. (2021) Eciton army ants - umbrella species for conservation in neotropical forests. Diversity 13(3): 136. doi: https://doi.org/10/3390/d13030136

Perez-Espona, S. and the CryoArks Consortium (2021) Conservation-focused biobanks: A valuable resource for wildlife DNA forensics. Forensic Science International: Animals and Environments 1:100017. doi: https://doi.org/10.1016/j.fsiae.2021.100017

Hoban, S., Campbell C.D., da Silvia J.M., Ekblom R., Funk C., Garner B.A., Godoy J.A., Kershaw F, MacDonald A.J., Mergay J., Minter M., O'Brien D., Paz-Viñas I., Pearson S.K., Perez-Espona, S. Potter K.M., Russo I.-R., Segelbacher G., Vernesi C., Hunter M. (2021) Genetic diversity is considered important but interpreted narrowly in country reports to the Convention on Biological Diversity: Current actions and indicators are insufficient. Biological Conservation 261: 109233. doi: https://doi.org/10.1016/j.biocon.2021.109233

2020

Hosegood J., Humble E., Ogden R., de Bruyn M., Creer S., Stevens G.M.W., Abudaya M., Bassos-Hull K., Bonfil R., Fernando D., Foote AD., Hipperson H., Jabado RW., Kaden J., Moazzam M., Lauren L.R., Pollett S., Ponzo A., Poortvliet M., Salah J., Senn H., Stewart J.D., Wintner S., Carvalho G. (2020) Phylogenomics and species delimitation for effective conservation of manta and devil rays. Molecular Ecology 2 (24), 4783-4796 doi: https://doi.org/10.1111/mec.15683

Tebbe J., Humble E., Stoffel M.A., Forcada J., Müller C., Caspers B.A. & Hoffman J.I. (2020) Chemical patterns of colony membership and mother-offspring similarity in Antarctic fur seals are reproducible. PeerJ. 8: e10131 doi: https://doi.org/10.7717/peerj.10131

Humble E., Dobrynin P., Senn H., Chuven J., Scott A.F., Mohr D.W., Dudchenko O., Omer AD., Colaric Z., Aiden E.L., Al Dhaheri S.S., Wildt D., Oliaji S., Tamazian G., Pukazhenthi B., Ogden R., Koepfli K.P. (2020) Chromosomal-level genome assembly of the scimitar-horned oryx: Insights into diversity and demography of a species extinct in the wild. Molecular Ecology Resources 20 (6), 1668-1681 doi: https://doi.org/10.1111/1755-0998.13181

Humble E., Paijmans A.J., Forcada J ., Hoffman JI. (2020) An 85K SNP array uncovers inbreeding and cryptic relatedness in an Antarctic fur seal breeding colony. G3: Genes, Genomes and Genetics 10 (8), 2787-2799 doi: https://doi.org/10.1534/g3.120.401268

Hansen B.K., Farrant G.K., Ogden R., Humble E., Ólafsdóttir G., Bekkevold D, Knudsen S.W., Møller P.R., Nielsen E.E. (2020) From DNA to biomass: opportunities and challenges in species quantification of bulk fisheries products. ICES Journal of Marine Science fsaa115 doi: https://doi.org/10.1093/icesjms/fsaa115

Dures S.G., Carbone C., Savolainen V., Maude G., Gotteli D. (2020). Ecology rather than people restrict gene flow in Okavango-Kalahari lions. Animal Conservation 23 (5), 502-515 doi: https://doi.org/10.1111/acv.12562

Ewart K.M., Johnson R.N., Ogden R, Joseph L., Frankham G.J., Lo N. (2020) Museum specimens provide reliable SNP data for population genomic analysis of a widely distributed but threatened cockatoo species. Molecular Ecology Resources 19 (6), 1578-1592 doi: https://doi.org/10.1111/1755-0998.13082

Ewart K.M., Lo N., Ogden R., Joseph L., Ho S.Y.W., Frankham G.J., Eldridge M.D.B., Schodde R., Johnson R.N. (2020) Phylogeography of the iconic Australian red-tailed black-cockatoo (Calyptorhynchus banksii) and implications for its conservation. Heredity 125, 85–100 doi: 10.1038/s41437-020-0315-y

Hartvig I., So T., Changtragoon S., Tran H.T., Bouamanivong S., Ogden R., Senn H., Vieira F.G., Turner F., Talbot R., Theilade I., Nielsen L.R. & Kjaer E.D. (2020) Conservation genetics of the critically endangered Siamese rosewood (Dalbergia cochinchinensis): recommendations for management and sustainable use. Conservation Genetics, 21: 677–692 doi: https://doi.org/10.1007/s10592-020-01279-1

Hoban S., Bruford M., Jackson J.D., Lopes-Fernandes M., Heuertz M., Hohenlohe P.A., Paz-Vinas I., Sjögren-Gulve P., Segelbacher G., Vernesi C., Aitken S., Bertola L.D., Bloomer P., Breed M., Rodríguez-Correa H., Funk W.C., Grueber C.E., Hunter M.E., Jaffe R., Liggins L., Mergeay J., Moharrek F., O'Brien D., Ogden R., Palma-Silva C., Pierson J., Ramakrishnan U., Simo-Droissart M., Tani N., Waits L., Laikre L. (2020) Genetic diversity targets and indicators in the CBD post-2020 Global Biodiversity Framework must be improved. Biological Conservation, 248: 108654 doi https://doi.org/10.1016/j.biocon.2020.108654

Hoban, S., Campbell C., da Silva, J., Ekblom, R., Funk, C., Garner, B., Godoy, J.A., Kershaw, F., MacDonald, A., Mergeay, J., Minter, M., O'Brien, D., Paz-Viñas, I., Pearson, S.K., Perez-Espona, S., Potter, K., Russo, I.R., Segelbacher, G., Vernesis, C., Hunter, M.E. (2020). An analysis of genetic diversity actions, indicators and targets in 114 National Reports to the Convention on Biological Diversity. bioRxiv 2020.08.28.254672; doi: https://doi.org/10.1101/2020.08.28.254672

Ogden R., ChuvenJ., GilbertT., HoskingC., GharbiK., CraigM., Al DhaheriS.S., SennH. (2020) Benefits and pitfalls of captive conservation genetic management: evaluating diversity in scimitar-horned oryx to support reintroduction planning. Biological Conservation 241, 108244 doi: https://doi.org/10.1016/j.biocon.2019.108244

Ogden R., Fukuda T., Funo T., Komatsu M., Maeda T., Meredith A., Miura M., Natsukawa H., Onuma M., Osafune Y., Saito K., Sato Y., Thompson D., Inoue-Murayama M. (2020) Japanese golden eagle conservation science: current status and future needs. Japanese Journal of Zoo and Wildlife Medicine 25 (1): 9-28 https://www.jstage.jst.go.jp/article/jjzwm/25/1/25_9/_pdf

Sato Y., Ogden R., Kishida T., Nakajima N., Maeda T., Inoue-Murayama M. (2020) Population history of the golden eagle inferred from whole-genome sequencing of three of its subspecies. Biological Journal of the Linnean Society 130 (4) 826-838 doi: https://doi.org/10.1093/biolinnean/blaa068

Watsa M., Ekenswick G., Prost S., Davis E.O., Moore C., Kubiski S., Witte C., Ogden R., Meredith A., Ryder O.A. (2020) Rigorous wildlife disease surveillance. Science, 369 (6500): 145-47 doi: 10.1126/science.abc0017

2019

Barendse J., Roel A., Longo C., Andriessen L., Webster L.M.I., Ogden R., Neat F. (2019) DNA barcoding validates species labelling of certified seafood. Current Biology 29 (6), R198-R199 doi: 10.1016/j.cub.2019.02.014

Dures S.G., Carbone C., Loveridge A., Maude G., Midlane N., Aschenborn O. & Gottelli D. (2019) A century of decline: loss of genetic diversity in the Kavango-Zambezi lion stronghold. Diversity and Distributions 25:870-879 doi: https://doi.org/10.1111/ddi.12905

Turvey S.T., Marr M. M., Barnes I., Brace S., Tapley B., Murphy R.W., Zhao E., Cunnigham A. (2019). Historical museum collections clarify the evolutionary history of cryptic species radiations in the world's largest amphibians. Ecology and Evolution 9, 10070-10084 doi: https://doi.org/10.1002/ece3.5257

Marr M.M., MacLeod N. (2019). Geographical variation in Eurasian red squirrel (Sciurus vulgaris L., 1758) mandibles and the issue of subspecies-level organization: a failure of history? Biological Journal of the Linnean Society 128, 337-359 doi: https://doi.org/10.1093/biolinnean/blz089

Martinsohn J.T., Raymond P., Knott T., Glover K.A., Nielsen E.E., Eriksen L.B., Casey J., Guillan J (2019) DNA‐analysis to monitor fisheries and aquaculture: Too costly? Fish and Fisheries 20 (2), 391-401 doi: https://doi.org/10.1111/faf.12343

Masters A., Ogden R., Wetton J.H., Dawnay N. (2019) Defining end user requirements for a field-based molecular detection system for wildlife forensic investigations. Forensic Science International 301, 231-239 doi: https://doi.org/10.1016/j.forsciint.2019.05.041

Perez-Espona, S., Goodall-Copestake, W.P., Hollyman, P., Belchier, M. (2019). Preliminary assessment of genetic diversity in bycatch-caught darbelly skate (Bathyraja meridionalis) from South Georgia. ommission for the Conservation of Antarctic Marine Living Resources (CCAMLR) report. WG-FSA-2019/19. https://www.ccamlr.org/en/wg-fsa-2019/19

Robertson J., Roodbol M., Bowles M.D., Dures S.G., Rowcliffe, M. (2019) Environmental Predictors of Livestock Predation: A Lions Tale. Oryx 1-10 doi: https://doi.org/10.1017/S0030605318001217

Robinson, A.L., Williamsom, H., Guere, M., Tharaldsen, H., Baker, K., Smith, S.L., Perez-Espona, S., Krojerova-Prokesova, J., Pemberton, J.M., Goldmann, W., Houston, F. (2019). Variation in the prion protein gene (PRNP) sequence of wild deer in Great Britain and mainland Europe. BMC Veterinary Research 50:59 doi: https://doi.org/10.1186/s13567-019-0675-6

Perez-Espona, S., Goodall-Copestake, W.P., Savirina, A., Bobovikova, J., Molina-Rubio, C., Perez-Barberia, F.J. (2019). First assessment of diversity at an important gene involved in immune response in Scottish red deer populations. Deer, Summer, p. 40-43 doi: 10.1007/s10344-019-1254-x

2018

Stoffel M., Humble E., Paijmans A.J., Acevedo-Whitehouse K., Chilvers B.L., Dickerson B., Galimberti F., Gemmell N.J., Goldsworthy S.D., Nichols H.J., Krüger O., Negro S., Osborne A., Pastor T., Robertson B.C., Sanvito S., Schultz J.K., Shafer A.B.A., Wolf J.B.W., Hoffman J.I. (2018) Demographic histories and genetic diversity across pinnipeds are shaped by human exploitation, ecology and life-history. Nature Communications 9, 4836, doi: https://doi.org/10.1038/s41467-018-06695-z

Bourgeois S., Kaden J., Senn H., Bunnefeld N., Jeffery K.J., Akomo-Okoue E.F., Ogden R., McEwing R. (2018) Improving cost-efficiency of faecal genotyping: New tools for elephant species. PLoS ONE 14 (1), e0210811 doi: https://doi.org/10.1371/journal.pone.0210811

Hoffman, J. I. ,Bauer, E. , Paijmans, A. J., Humble, E., Beckmann, L. M., Kubetschek, C. , Christaller, F. , Kröcker, N. , Fuchs, B. , Moreras, A. , Shihlomule, Y. D., Bester, M. N., Cleary, A. C., De Bruyn, P. J. N. . Forcada, J, Goebel, M. E., Goldsworthy, S. D. , Guinet, C. , Hoelzel, A. R., Lydersen, C. , Kovacs, K. M., Lowther, A. (2018). Royal Society Open Science. A global cline in a colour polymorphism suggests a limited contribution of gene flow towards the recovery of a heavily exploited marine mammal . Royal Society Open Science. 5, 181227 doi: 10.1098/rsos.181227

Goodall-Copestake, W.P. , Perez-Espona, S., Hollyman, P. , Belchier., E. (2018). Genetic analysis of skates (Amblyraja spp.) caught as by-catch around South Georgia and the South Sandwich Islands. Commission for the Conservation of Antarctic Marine Living Resources (CCAMLR) report. WG-FSA-18/73 https://www.ccamlr.org/en/wg-fsa-18/73

Prado, F. D. D., Vera, M., Hermida, M., Bouza, C., Pardo, B. G., Vilas, R., Blanco, A., Fernández, C., Maroso, F., Maes, G. E., Turan, C., Volckaert, F. A. M., Taggart, J. B., Carr, A., Ogden, R., Nielsen, E. E. & Martínez, P. (2018). Parallel evolution and adaptation to environmental factors in a marine flatfish: implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus).Evolutionary Applications. 11, 8, p. 1322-1341 doi: https://doi.org/10.1111/eva.12628

Humble, E., Dasmahapatra, K. K., Martinez-Barrio, A., Gregório, I., Forcada, J., Polikeit, A. C., Goldsworthy, S. D., Goebel, M. E., Kalinowski, J., Wolf, J. B. W. & Hoffman, J. (2018). RAD sequencing and a hybrid antarctic fur seal genome assembly reveal rapidly decaying linkage disequilibrium, global population structure and evidence for inbreeding.G3: Genes, Genomes, Genetics. 8, 8, p. 2709-2722 doi: 10.1534/g3.118.200171

Ogden, R., Ghazali, M., Hopper, J. S., Culik, L. & King, T. (2018). Genetic assessments for antelope reintroduction planning in four European breeding programmes. Journal of Zoo and Aquarium Research doi: https://doi.org/10.19227/jzar.v6i3.359

Maroso, F., Hillen, J. E. J., Pardo, B. G., Gkagkavouzis, K., Coscia, I., Hermida, M., Franch, R., Hellemans, B., Van Houdt, J. K. J., Simionati, B., Taggart, J. B., Nielsen, E. E., Maes, G. E., Ciavaglia, S. A., Webster, L. M. I., Volckaert, F. A. M., Martinez, P., Bargelloni, L., Ogden, R. & AquaTrace Consortium (2018). Performance and precision of double digestion RAD (ddRAD) genotyping in large multiplexed datasets of marine fish species. Marine Genomics. 39, p. 64-72 https://pesquisa.bvsalud.org/portal/resource/esSiqueira/mdl-29496460

Marr M.M., Brace S., Schreve S., Barnes I. (2018). Identifying source populations for the reintroduction of the Eurasian beaver, Castor fiber L. 1758, into Britain: evidence from ancient DNA. Scientific Reports 8 (1), 2708 doi: https://doi.org/10.1038/s41598-018-21173-8

Smith, S. L., Senn, H. V., Perez-Espona, S., Wyman, M. T., Heap, E. & Pemberton, J. M. (2018). Introgression of exotic Cervus (nippon and canadensis) into red deer (Cervus elaphus) populations in Scotland and the English Lake District. Ecology and Evolution. 8, 4, p. 2122-2134 doi: 10.1002/ece3.3767

Bourgeois, S., Senn, H., Kaden, J., Taggart, J., Ogden, R., Jeffery, K., Bunnefeld, N., Abernethy, K. & McEwing, R.  (2018). Single-nucleotide polymorphism discovery and panel characterization in the African forest elephant. Ecology and Evolution. 8, 4, p. 2207-2217 doi: 10.1002/ece3.3854

2017

Hudson L. N., Newbold T., Contu S., Hill S. L. L., Lysenko I., Palma D., … Dures S.G…. Fernando A. B. (2017). The database of the PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) project. Ecology and Evolution 7:145-188 doi: https://doi.org/10.1002/ece3.2579

Woods R., Marr M.M., Brace S., Barnes I. (2017). The small and the dead: a review of ancient DNA studies analysing micromammal species. Genes 8 (11), 312 doi: https://doi.org/10.3390/genes8110312

Perez-Espona, S., Goodall-Copestake, W. P., Berghoff, S. M., Edwards, K. J. & Franks, N. R. (2017). Army imposters: diversification of army ant-mimicking beetles with their Eciton hosts. Insectes sociaux. 65, 1, p. 59-75 doi: https://doi.org/10.1007/s00040-017-0588-1

Sato, Y., Ogden, R., Komatsu, M., Maeda, T. & Inoue-Murayama, M. (2017). Integration of wild and captive genetic management approaches to support conservation of the endangered Japanese golden eagle. Biological conservation. 213, Part A, p. 175-184 doi: 10.1016/j.biocon.2017.07.008

Turvey S., Barnes I., Marr M.M., Brace S. (2017). Imperial trophy or island relict? A new extinction paradigm for Pere David's deer: a Chinese conservation icon. Royal Society Open Science 4 (10), 171096 doi: 10.1098/rsos.171096

Murray-dickson, G., Ghazali, M., Ogden, R., Brown, R., Auliya, M. (2017). Phylogeography of the reticulated python (Malayopython reticulatus ssp.): Conservation implications for the worlds’ most traded snake species . PLoS One. 12, 8, p. e0182049 doi: 10.1016/j.biocon.2017.07.008

Perez-Espona, S. & ConGRESS Consortium (2017). Conservation genetics in the European Union - Biases, gaps and future directions. Biological conservation. 209, p. 130-136 doi: https://doi.org/10.1016/j.biocon.2017.01.020

Adenyo, C., Ogden, R., Kayang, B., Onuma, M., Nakajima, N. & Inoue-Murayama, M. (2017). Genome-wide DNA markers to support genetic management for domestication and commercial production in a large rodent, the Ghanaian grasscutter (Thryonomys swinderianus). Animal Genetics. 48, 1, p. 113-115 doi: https://doi.org/10.1111/age.12478

Ito, H., Ogden, R., Langenhorst, T. & Inoue-Murayama, M. (2017). Contrasting Results From Molecular and Pedigree-Based Population Diversity Measures in Captive Zebra Highlight Challenges Facing Genetic Management of Zoo Populations. Zoo Biology. 36, 1, p. 87-94 doi: https://doi.org/10.1002/zoo.21342

2016

Perez-Espona, S. & Perez-Barberia, F. J. (2016). The Major Histocompatibility Complex: using genetic tools to assess adaptation and resilience of Scottish red deer populations. Deer. 17, p. 40-43.

Cammen, K. M., Andrews, K. R., Carroll, E. L., Foote, A. D., Humble, E., Khudyakov, J. I., Louis, M., McGowen, M. R., Olsen, M. T. & Van Cise, A. M. (2016). Genomic methods take the plunge: recent advances in high-throughput sequencing of marine mammals. Journal of Heredity. 107, 6, p. 481-495.

Stoffel, M. A., Esser, M., Kardos, M., Humble, E., Nichols, H., David, P. & Hoffman, J. I. (2016). inbreedR: an R package for the analysis of inbreeding based on genetic markers. Methods in ecology and evolution. 7, 11, p. 1331-1339.

Jones, K. E., Perez-Espona, S., Reyes-Betancort, J. A., Pattinson, D., Caujape-Castells, J., Hiscock, S. J. & Carine, M. A. (2016). Why do different oceanic archipelagos harbour contrasting levels of species diversity? The macaronesian endemic genus Pericallis (Asteraceae) provides insight into explaining the 'Azores diversity Enigma'. BMC Evolutionary Biology. 16, 202.

Ciezarek, A. G., Dunning, L. T., Jones, C. S., Noble, L. R., Humble, E., Stefanni, S. S. & Savolainen, V. (2016). Substitutions in the glycogenin-1 gene are associated with the evolution of endothermy in sharks and tunas. Genome Biology and Evolution. 8, 9, p. 3011-3021.

Humble, E., Thorne, M. A. S., Forcada, J. & Hoffman, J. I. (2016). Transcriptomic SNP discovery for custom genotyping arrays: impacts of sequence data, SNP calling method and genotyping technology on the probability of validation success. BMC Research Notes. 9, 1, 418.

Peters, L., Humble, E., Kröcker, N., Fuchs, B., Forcada, J. & Hoffman, J. I. (2016). Born blonde: a recessive loss-of-function mutation in the melanocortin 1 receptor is associated with cream coat coloration in Antarctic fur seals. Ecology and Evolution. 6, 16, p. 5705-17.

Humble, E., Martinez-Barrio, A., Forcada, J., Trathan, P. N., Thorne, M. A. S., Hoffmann, M., Wolf, J. B. W. & Hoffman, J. I. (2016). A draft fur seal genome provides insights into factors affecting SNP validation and how to mitigate them. Molecular Ecology Resources. 16, 4, p. 909-21.

Swift, D. G., Dunning, L. T., Igea, J., Brooks, E. J., Jones, C. S., Noble, L. R., Ciezarek, A., Humble, E. & Savolainen, V. (2016). Evidence of positive selection associated with placental loss in tiger sharks. BMC Evolutionary Biology. 16, 1, p. 126.

Bylemans, J., Maes, G. E., Diopere, E., Cariani, A., Senn, H., Taylor, M. I., Helyar, S., Bargelloni, L., Bonaldo, A., Carvalho, G., Guarniero, I., Komen, H., Martinsohn, J. T., Nielsen, E. E., Tinti, F., Volckaert, F. A. M. & Ogden, R. (2016). Evaluating genetic traceability methods for captive-bred marine fish and their applications in fisheries management and wildlife forensics. Aquaculture environment interactions. 8, p. 131-145.

2015

Boscari, E., Vidotto, M., Martini, D., Papetti, C., Ogden, R. & Congiu, L. (2015). Microsatellites from the genome and the transcriptome of the tetraploid Adriatic sturgeon, Acipenser naccarii (Bonaparte, 1836) and cross-species applicability to the diploid beluga sturgeon, Huso huso (Linnaeus, 1758). Journal of Applied Ichthyology. 31, 6, p. 977-983.

Ogden, R., Heap, E., McEwing, R., Tingay, R. & Whitfield, D. P. (2015). Population structure and dispersal patterns in Scottish Golden Eagles Aquila chrysaetos revealed by molecular genetic analysis of territorial birds. Ibis. 157, 4, p. 837-848.

Ogden, R. & Linacre, A. (2015). Wildlife forensic science: A review of genetic geographic origin assignment. Forensic Science International: Genetics. 18, p. 152-159.

Ito, H., Langenhorst, T., Ogden, R. & Inoue-Murayama, M. (2015). Population genetic diversity and hybrid detection in captive zebras. Scientific Reports. 5, 13171.

Sato Y., Ito H., Onuma M., Maeda T., Ogden R., Inoue-Murayama M., (2015). Development of 20 microsatellite markers for the endangered Japanese golden eagle (Aquila chrysaetos japonica) using next generation sequencing. Conservation Genetics Resources. 7(4):917–944

Shafer, A. B. A. , Wolf, J. B. W. , Alves, P. C. , Bergstrom, L. , Bruford, M. W. , Brannstrom, I. , Colling, G. , Dalen, L. , De Meester, L. , Ekblom, R. , Fawcett, K. D. , Fior, S. , Hajibabaei, M. , Hill, J. A. , Hoezel, A. R. , Hoglund, J. , Jensen, E. L. , Krause, J. , Kristensen, T. N. , Kruetzen, M. & 25 others (2015) .Genomics and the challenging translation into conservation practice. Trends in Ecology & Evolution. 30, 2, p. 78-87.

Brooks, T. M., Cuttelod, A., Faith, D. P., Garcia-Moreno, J., Langhammer, P. & Perez-Espona, S. (2015). Why and how might genetic and phylogenetic diversity be reflected in the identification of key biodiversity areas? Philosophical Transactions of the Royal Society B: Biological Sciences. 370, 1662, 20140019 2014.

2014

Hudson L. N., Newbold T., Contu S., Hill S. L. L., Lysenko I., Palma D., … Dures S.G…. Fernando A. B. (2014). The PREDICTS database : a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution 1–35.

Senn, H., Banfield, L., Wacher, T., Newby, J., Rabeil, T., Kaden, J., Kitchener, A. C., Abaigar, T., Silva, T. L., Maunder, M. & Ogden, R. (2014). Splitting or Lumping? A Conservation Dilemma Exemplified by the Critically Endangered Dama Gazelle (Nanger dama). PLoS One. 9, 6, 98693

Senn, H., Ogden, R., Frosch, C., Syrůčková, A., Campbell-Palmer, R., Munclinger, P., Durka, W., Kraus, R. H. S., Saveljev, A. P., Nowak, C., Stubbe, A., Stubbe, M., Michaux, J., Lavrov, V., Samiya, R., Ulevicius, A. & Rosell, F. (2014). Nuclear and mitochondrial genetic structure in the Eurasian beaver (Castor fiber) - implications for future reintroductions. Evolutionary Applications. 7, 6, p. 645-662.

Senn, H., O'Donoghue, P., McEwing, R. & Ogden, R. (2014). Hundreds of SNPs for the Endangered pygmy hippopotamus (Choeropsis liberiensis). Conservation Genetics Resources. 6, 3, p. 535-538.

Milano, I., Babbucci, M., Cariani, A., Atanassova, M., Bekkevold, D., Carvalho, G. R., Espineira, M., Fiorentino, F., Garofalo, G., Geffen, A. J., Hansen, J. H., Helyar, S. J., Nielsen, E. E., Ogden, R., Patarnello, T., Stagioni, M., Consortium, F., Tinti, F. & Bargelloni, L. (2014). Outlier SNP markers reveal fine-scale genetic structuring across European hake populations (Merluccius merluccius). Molecular Ecology. 23, 1, p. 118-135.

2013

Shephard, J. M., Ogden, R., Tryjanowski, P., Olsson, O. & Galbusera, P.I (2013). Is population structure in the European white stork determined by flyway permeability rather than translocation history?Ecology and Evolution. 3, 15, p. 4881-4895.

Hoban, S. , Arntzen, J. W. , Bertorelle, G. , Bryja, J. , Fernandes, M. , Frith, K. , Gaggiotti, O. , Galbusera, P. , Godoy, J. A. , Hauffe, H. C. , Hoelzel, A. R. , Nichols, R. A. , Perez-Espona, S. , Primmer, C. , Russo, I-R. M. , Segelbacher, G. , Siegismund, H. R. , Sihvonen, M. , Sjogren-Gulve, P. , Vernesi, C. & 2 others (2013). Conservation Genetic Resources for Effective Species Survival (ConGRESS): Bridging the divide between conservation research and practice. Journal for nature conservation. 21, 6, p. 433-437.

Perez-Espona, S., Hall, R. J., Perez-Barberia, F. J., Bell, B., Ward, J. F. & Pemberton, J. (2013). The impact of introductions on the genetic make-up of Scottish red deer. Deer. 13, p. 19-22.

Hoffman, J. I., Thorne, M. A. S., McEwing, R., Forcada, J. & Ogden, R. (2013). Cross-Amplification and Validation of SNPs Conserved over 44 Million Years between Seals and Dogs. PLoS One. 8, 7, 68365.

Nielsen, E. E. , Cariani, A. , Mac Aoidh, E. , Maes, G. E. , Milano, I. , Ogden, R. , Taylor, M. , Hemmer-Hansen, J. , Babbucci, M. , Bargelloni, L. , Bekkevold, D. , Diopere, E. , Grenfell, L. , Helyar, S. , Limborg, M. T. , Martinsohn, J. T. , McEwing, R. , Panitz, F. , Patarnello, T. , Tinti, F. & 5 others (2013). Gene-associated markers provide tools for tackling illegal fishing and false eco-certification. Nature Communications. 4, 1975.

Ogden, R., Mcewing, R., Gharbi, K., Eland, C., Mugue, N., Sergeev, A., Martinsohn, J., Senn, H., Davey, J. W., Pourkazemi, M., Vidotto, M. & Congiu, L. (2013). Sturgeon conservation genomics: SNP discovery and validation using RAD sequencing. Molecular Ecology. 22, 11, p. 3112-3123.

Hemmer-Hansen, J., Nielsen, E. E., Therkildsen, N. O., Taylor, M. I., Ogden, R., Geffen, A. J., Bekkevold, D., Helyar, S., Pampoulie, C., Johansen, T., Carvalho, G. R. & Fishpoptrace Consortium (2013). A genomic island linked to ecotype divergence in Atlantic cod. Molecular Ecology. 22, 10, p. 2653-2667.

Hoban, S. M., Hauffe, H. C., Perez-Espona, S., Arntzen, J. W., Bertorelle, G., Bryja, J., Frith, K., Gaggiotti, O. E., Galbusera, P., Godoy, J. A., Hoelzel, A. R., Nichols, R. A., Primmer, C. R., Russo, I-R., Segelbacher, G., Siegismund, H. R., Sihvonen, M., Vernesi, C., Vila, C. & Bruford, M. W. (2013). Bringing genetic diversity to the forefront of conservation policy and management. Conservation Genetics Resources. 5, 2, p. 593-598.

Senn, H., Ogden, R., Mcewing, R., Cezard, T., Gharbi, K., Iqbal, Z., Johnson, E., Kamps-Hughes, N. & Rosell, F. (2013). Reference-free SNP discovery for the Eurasian beaver from restriction site-associated DNA paired-end data. Molecular Ecology.

2012

Hoban, S. , Gaggiotti, O. , Bertorelle, G. , Arntzen, P. , Bryja, J. , Fernandes, M. , Frith, K. , Galbusera, P. , Godoy, J. A. , Hauffe, H. C. , Hoelzel, R. , Nichols, R. , Perez-Espona, S. , Primmer, C. , Russo, I-R. M. , Segelbacher, G. , Siegismund, H. R. , Sihvonen, M. , Sjoegren-Gulve, P. , Vernesi, C. & 3 others (2012). Sample Planning Optimization Tool for conservation and population Genetics (SPOTG): a software for choosing the appropriate number of markers and samples 27 Dec 2012 In : Methods in ecology and evolution. 4, 3, p. 299-303.

Perez-Espona, S., Mcleod, J. E. & Franks, N. R. (2012). Landscape genetics of a top neotropical predator. Molecular Ecology. 21, 24, p. 5969-5985.

Helyar, S. J., Limborg, M. T., Bekkevold, D., Babbucci, M., van Houdt, J., Maes, G. E., Bargelloni, L., Nielsen, R. O., Taylor, M. I., Ogden, R., Cariani, A., Carvalho, G. R., Panitz, F. & FishPopTrace Consortium (2012). SNP Discovery Using Next Generation Transcriptomic Sequencing in Atlantic Herring (Clupea harengus). PLoS One. 7, 8, 11 p., 42089.

Limborg, M. T., Helyar, S. J., de Bruyn, M., Taylor, M. I., Nielsen, E. E., Ogden, R., Carvalho, G. R., Bekkevold, D. & FPT Consortium (2012). Environmental selection on transcriptome-derived SNPs in a high gene flow marine fish, the Atlantic herring (Clupea harengus). Molecular Ecology. 21, 15, p. 3686-3703.

McEwing, R., Ouitavon, K., Rovie-Ryan, J. J., Wulansari, Sitam, F. T. & Ogden, R. (2012). Molecular sexing of tigers, Panthera tigris. Conservation Genetics Resources. 4, 2, p. 299-301.

Ogden, R., Baird, J., Senn, H. & McEwing, R. (2012). The use of cross-species genome-wide arrays to discover SNP markers for conservation genetics: a case study from Arabian and scimitar-horned oryx. Conservation Genetics Resources. 4, 2, p. 471-473.

Nielsen, E. E. , Cariani, A. , Mac Aoidh, E. , Maes, G. E. , Milano, I. , Ogden, R. , Taylor, M. , Hemmer-Hansen, J. , Babbucci, M. , Bargelloni, L. , Bekkevold, D. , Diopere, E. , Grenfell, L. , Helyar, S. , Limborg, M. T. , Martinsohn, J. T. , McEwing, R. , Panitz, F. , Patarnello, T. , Tinti, F. & 31 others (2012). Gene-associated markers provide tools for tackling illegal fishing and false eco-certification. Nature Communications. 3, 6 p., 851.

El Alqamy, H., Senn, H., Roberts, M-F., McEwing, R. & Ogden, R. (2012). Genetic assessment of the Arabian oryx founder population in the Emirate of Abu Dhabi, UAE: an example of evaluating unmanaged captive stocks for reintroduction. Conservation genetics. 13, 1, p. 79-88.

2011

Zelenina, D. A., Martinsohn, J. T., Ogden, R., Volkov, A. A., Zelenina, I. A. & Carvalho, G. R. (2011). Advanced approaches to studying the population diversity of marine fishes: New opportunities for fisheries control and management. Russian journal of genetics. 47, 12, p. 1444-1455.

Haanes, H., Roed, K. H., Perez-Espona, S. & Rosef, O. (2011). Low genetic variation support bottlenecks in Scandinavian red deer. European Journal of Wildlife Research. 57, 6, p. 1137-1150.

Perez-Espona, S., Perez-Barberia, F. J. & Pemberton, J. M. (2011). Assessing the impact of past wapiti introductions into Scottish Highland red deer populations using a Y chromosome marker. Mammalian biology. 76, 5, p. 640-643.

2010

Dures S.G & Cumming, G.S. (2010). The confounding influence of a homogenizing invasive species in a globally endangered and largely urban biome: does habitat quality dominate avian biodiversity? Biological Conservation 413: 768-777.

Goodall-Copestake, W. P., Perez-Espona, S., Harris, D. J. & Hollingsworth, P. M. (2010). The early evolution of the mega-diverse genus Begonia (Begoniaceae) inferred from organelle DNA phylogenies. Biological Journal of the Linnean Society. 101, 2, p. 243-250.

Perez-Espona, S., Perez-Barberia, F. J., Gordon, I. J., Jiggins, C. D. & Pemberton, J.  (2010). Do stags disperse more than hinds? Deer. 10, p. 20-23.

Perez-Espona, S., Perez-Barberia, F. J., Jiggins, C. D., Gordon, I. J. & Pemberton, J. M. (2010). Variable extent of sex-biased dispersal in a strongly polygynous mammal. Molecular Ecology. 19, 15, p. 3101-3113.

Peppin, L., McEwing, R., Ogden, R., Hermes, R., Harper, C., Guthrie, A. & Carvalho, G. R. (2010). Molecular sexing of African rhinoceros. Conservation genetics. 11, 3, p. 1181-1184.

Genomic Hotspots for Adaptation: The Population Genetics of Mullerian Mimicry in the Heliconius melpomene Clade Baxter, S. W., Nadeau, N. J., Maroja, L. S., Wilkinson, P., Counterman, B. A., Dawson, A., Beltran, M., Perez-Espona, S., Chamberlain, N., Ferguson, L., Clark, R., Davidson, C., Glithero, R., Mallet, J., McMillan, W. O., Kronforst, M., Joron, M., Ffrench-Constant, R. H. & Jiggins, C. D. (2010). PLoS Genetics. 6, 2, 1000794.

Goodall-Copestake, W. P., Perez-Espona, S., Clark, M. S., Murphy, E. J., Seear, P. J. & Tarling, G. A. (2010). Swarms of diversity at the gene cox1 in Antarctic krill. Heredity. 104, 5, p. 513-518.

2009

Nielsen, E. E., Hemmer-Hansen, J., Poulsen, N. A., Loeschcke, V., Moen, T., Johansen, T., Mittelholzer, C., Taranger, G-L., Ogden, R. & Carvalho, G. R.  (2009). Genomic signatures of local directional selection in a high gene flow marine organism; the Atlantic cod (Gadus morhua). BMC Evolutionary Biology. 9, 276.

Dawnay, N., Ogden, R., Wetton, J. H., Thorpe, R. S. & McEwing, R. (2009). Genetic data from 28 STR loci for forensic individual identification and parentage analyses in 6 bird of prey species. Forensic Science International: Genetics. 3, 2, p. E63-E69.

Perez-Espona, S., Perez-Barberia, F. J., Goodall-Copestake, W. P., Gordon, I. J., Jiggins, C. D. & Pemberton, J. (2009). Are there any native red deer left in mainland Scotland? Deer. 9, p. 22-25.

Perez-Espona, S., Perez-Barberia, F. J., Goodall-Copestake, W. P., Jiggins, C. D., Gordon, I. J. & Pemberton, J. M. (2009). Genetic diversity and population structure of Scottish Highland red deer (Cervus elaphus) populations: a mitochondrial survey. Heredity. 102, 2, p. 199-210.

2008

Ogden, R. (2008). Fisheries forensics: the use of DNA tools for improving compliance, traceability and enforcement in the fishing industry. Fish and fisheries. 9, 4, p. 462-472.

Peppin, L., McEwing, R., Carvalho, G. R. & Ogden, R. (2008). A DNA-Based Approach for the Forensic Identification of Asiatic Black Bear (Ursus thibetanus) in a Traditional Asian Medicine. Journal of Forensic Sciences. 53, 6, p. 1358-1362.

Dawnay, N., McEwing, R., Thorpe, R. S. & Ogden, R. (2008). Preliminary data suggests genetic distinctiveness of gyr and saker falcons. Conservation genetics. 9, 3, p. 703-707.

Perez-Espona, S., Perez-Barberia, F. J., McLeod, J. E., Gordon, I. J., Jiggins, C. D. & Pemberton, J. (2008). How do landscape features affect gene exchange among Scottish red deer populations? Deer. 8, p. 38-41.

Perez-Espona, S., Perez-Barberia, F. J., Mcleod, J. E., Jiggins, C. D., Gordon, I. J. & Pemberton, J. M. (2008). Landscape features affect gene flow of Scottish Highland red deer (Cervus elaphus). Molecular Ecology. 17, 4, p. 981-996.

Dawnay, N., Ogden, R., Thorpe, R. S., Pope, L. C., Dawson, D. A. & McEwing, R. A. (2008). Forensic STR profiling system for the Eurasian badger: A framework for developing profiling systems for wildlife species. Forensic Science International: Genetics. 2, 1, p. 47-53.

2007

Dawnay, N., Ogden, R., McEwing, R., Carvalho, G. R. & Thorpe, R. S. (2007). Validation of the barcoding gene COI for use in forensic genetic species identification. Forensic Science International. 173, 1, p. 1-6.

2005

Ogden, R., Shuttleworth, C., McEwing, R. & Cesarini, S. (2007). Genetic management of the red squirrel, Sciurus vulgaris: a practical approach to regional conservation. Conservation genetics. 6, 4, p. 511-525.

Perez-Espona, S., Sales, F., Hedge, I. & Moller, M. (2007). Phylogeny and Species relationships of Jasione (Campanulaceae) with emphasis on the ‘montana-complex’. Edinburgh Journal of Botany. 62, p. 29-51.

2002

Ogden, R. & Thorpe, RS. (2002). Molecular evidence for ecological speciation in tropical habitats. Proceedings of the National Academy of Sciences. 99, 21, p. 13612-13615.

Ogden, R. & Thorpe, RS. (2002). The usefulness of amplified fragment length polymorphism markers for taxon discrimination across graduated fine evolutionary levels in Caribbean Anolis lizards. Molecular Ecology. 11, 3, p. 437-445.

Ogden, R., Griffiths, TJ. & Thorpe, RS. (2009). Eight microsatellite loci in the Caribbean lizard, Anolis roquet. Conservation genetics. 3, 3, p. 345-346.

This article was published on 2024-09-02