Tom Gilbert
Professor
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The role of the gut microbiota in the dietary niche expansion of fishing bats
Aizpurua Arrieta, Ostaizka, Jessen, Lasse Nyholm, Morris, E., Chaverri, G., Montalvo, L. G. H., Flores-Martinez, J. J., Lin, A., Razgour, O., Gilbert, M Thomas P & Alberdi, Antton, 2021, In: BMC Animal Microbiome. 3, 14 p., 76.Research output: Contribution to journal › Journal article › Research › peer-review
- E-pub ahead of print
Field and laboratory guidelines for reliable bioinformatic and statistical analysis of bacterial shotgun metagenomic data
Aizpurua Arrieta, Ostaizka, Dunn, Rob, Hansen, Lars Hestbjerg, Gilbert, M Thomas P & Alberdi, Antton, 2024, (E-pub ahead of print) In: Critical Reviews in Biotechnology.Research output: Contribution to journal › Review › Research › peer-review
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Agriculture shapes the trophic niche of a bat preying on multiple pest arthropods across Europe: Evidence from DNA metabarcoding
Aizpurua Arrieta, Ostaizka, Budinski, I., Georgiakakis, P., Gopalakrishnan, Shyam, Ibanez, C., Mata, V., Rebelo, H., Russo, D., Szodoray-Paradi, F., Zhelyazkova, V., Zrncic, V., Gilbert, M Thomas P & Alberdi, Antton, 2018, In: Molecular Ecology. 27, 3, p. 815-825 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Do vertebrate gut metagenomes confer rapid ecological adaptation?
Alberdi, Antton, Aizpurua Arrieta, Ostaizka, Bohmann, Kristine, Zepeda Mendoza, M. L. & Gilbert, M Thomas P, Sep 2016, In: Trends in Ecology & Evolution. 31, 9, p. 689-699 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Contrasting population-level responses to Pleistocene climatic oscillations in an alpine bat revealed by complete mitochondrial genomes and evolutionary history inference
Alberdi, A., Gilbert, M Thomas P, Razgour, O., Aizpurua, O., Aihartza, J. & Garin, I., 2015, In: Journal of Biogeography. 42, 9, p. 1689-1700 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
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A guide to the application of Hill numbers to DNA-based diversity analyses
Alberdi, Antton & Gilbert, M Thomas P, 2019, In: Molecular Ecology Resources. 19, 4, p. 804-817 14 p.Research output: Contribution to journal › Review › Research › peer-review
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DNA metabarcoding and spatial modelling link diet diversification with distribution homogeneity in European bats
Alberdi, Antton, Razgour, O., Aizpurua Arrieta, Ostaizka, Novella-Fernandez, R., Aihartza, J., Budinski, I., Garin, I., Ibanez, C., Izagirre, E., Rebelo, H., Russo, D., Vlaschenko, A., Zhelyazkova, V., Zrncic, V. & Gilbert, M Thomas P, 2020, In: Nature Communications. 11, 8 p., 1154.Research output: Contribution to journal › Journal article › Research › peer-review
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Scrutinizing key steps for reliable metabarcoding of environmental samples
Alberdi, Antton, Aizpurua Arrieta, Ostaizka, Gilbert, M Thomas P & Bohmann, Kristine, 2018, In: Methods in Ecology and Evolution. 9, 1, p. 134-147 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Promises and pitfalls of using high-throughput sequencing for diet analysis
Alberdi, Antton, Aizpurua Arrieta, Ostaizka, Bohmann, Kristine, Gopalakrishnan, Shyam, Lynggaard, Christina Islas, Nielsen, M. & Gilbert, M Thomas P, Mar 2019, In: Molecular Ecology Resources. 19, 2, p. 327-348Research output: Contribution to journal › Review › Research › peer-review
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Non-invasive surveys of mammalian viruses using environmental DNA
Alfano, N., Dayaram, A., Axtner, J., Tsangaras, K., Kampmann, Marie-Louise, Mohamed, A., Wong, S. T., Gilbert, M Thomas P, Wilting, A. & Greenwood, A. D., 2021, In: Methods in Ecology and Evolution. 12, 10, p. 1941-1952Research output: Contribution to journal › Journal article › Research › peer-review
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Further evidence of Chelonid herpesvirus 5 (ChHV5) latency: high levels of ChHV5 DNA detected in clinically healthy marine turtles
Alfaro Nuñez, L. A., Bojesen, Anders Miki, Bertelsen, Mads Frost, Wales, N., Balazs, G. H. & Gilbert, M Thomas P, 27 Jul 2016, In: PeerJ. 4, 16 p., e2274.Research output: Contribution to journal › Journal article › Research › peer-review
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Global distribution of Chelonid fibropapilloma-associated herpesvirus among clinically healthy sea turtles
Alfaro Nuñez, L. A., Bertelsen, Mads Frost, Bojesen, Anders Miki, Rasmussen, I., Zepeda Mendoza, M. L., Olsen, Morten Tange & Gilbert, M Thomas P, 2014, In: B M C Evolutionary Biology. 14, 11 p., 206.Research output: Contribution to journal › Journal article › Research › peer-review
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Validation of a sensitive PCR assay for the detection of Chelonid fibropapilloma-associated herpesvirus in latent turtle infections
Alfaro Nuñez, L. A. & Gilbert, M Thomas P, Sep 2014, In: Journal of Virological Methods. 206, p. 38-41 4 p.Research output: Contribution to journal › Letter › Research › peer-review
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Extinct New Zealand megafauna were not in decline before human colonization
Allentoft, Morten Erik, Heller, Rasmus, Oskam, C. L., Lorenzen, Eline, Hale, M. L., Gilbert, M Thomas P, Jacomb, C., Holdaway, R. N. & Bunce, M., 2014, In: Proceedings of the National Academy of Sciences USA (PNAS). 111, 13, p. 4922-4927 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils
Allentoft, Morten Erik, Collins, M., Harker, D., Haile, J., Oskam, C. L., Hale, M. L., Campos, P., Samaniego Castruita, J. A., Gilbert, M Thomas P, Willerslev, Eske, Zhang, G., Scofield, R. P., Holdaway, R. N. & Bunce, M., 2012, In: Proceedings of the Royal Society B: Biological Sciences. 279, 1748, p. 4724-4733 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Profiling the dead: generating microsatellite data from fossil bones of extinct megafauna—protocols, problems, and prospects
Allentoft, Morten Erik, Oskam, C. L., Houston, J., Hale, M. L., Gilbert, M Thomas P, Rasmussen, M., Spencer, P., Jacomb, C., Willerslev, Eske, Holdaway, R. N. & Bunce, M., 2011, In: PLoS ONE. 6, 1, 11 p., e16670.Research output: Contribution to journal › Journal article › Research › peer-review
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Identification of microsatellites from an extinct moa species using high-throughput (454) sequence data
Allentoft, Morten Erik, Schuster, S. C., Holdaway, R. N., Hale, M. L., McLay, E., Oskam, C. L., Gilbert, M Thomas P, Spencer, P., Willerslev, Eske & Bunce, M., 2009, In: BioTechniques. 46, 3, p. 195-200 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Whole genome identification, phylogeny and evolution of the cytochrome P450 family 2 (CYP2) sub-families in birds
Almeida, D., Maldonado, E., Khan, I., Silva, L., Gilbert, M Thomas P, KU, thw266, Jarvis, E. D., O'Brien, S. J., Johnson, W. E. & Antunes, A., 2016, In: Genome Biology and Evolution. 8, 4, p. 1115-1131 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Parallel adaptation of rabbit populations to myxoma virus
Alves, J. M., Carneiro, M., Cheng, J. Y., Matos, A. L. D., Rahman, M. M., Loog, L., Campos, P. F., Wales, N., Eriksson, A., Manica, A., Strive, T., Graham, S. C., Afonso, S., Bell, D. J., Belmont, L., Day, J. P., Fuller, S. J., Marchandeau, S., Palmer, W. J., Queney, G. & 8 others, , 2019, In: Science. 363, 6433Research output: Contribution to journal › Journal article › Research › peer-review
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Specialized sledge dogs accompanied Inuit dispersal across the North American Arctic
Ameen, C., Feuerborn, T. R., Brown, S. K., Linderholm, A., Hulme-Beaman, A., Lebrasseur, O., Sinding, M-H. S., Lounsberry, Z. T., Lin, A. T., Appelt, M., Bachmann, L., Betts, M., Britton, K., Darwent, J., Dietz, R., Fredholm, M., Gopalakrishnan, S., Goriunova, O. I., Grønnow, B., Haile, J. & 39 others, , 2019, In: Proceedings. Biological sciences. 286, 1916, p. 20191929Research output: Contribution to journal › Journal article › Research › peer-review
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Meta-barcoding of 'dirt' DNA from soil reflects vertebrate biodiversity
Andersen, K., Bird, K. L., Rasmussen, M., Haile, James Seymour, Breuning-Madsen, H., Kjær, Kurt H., Orlando, L. A. A., Gilbert, M Thomas P & Willerslev, Eske, 2012, In: Molecular Ecology. 21, 8, p. 1966-1979 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Molecular parallelisms between pigmentation in the avian iris and the integument of ectothermic vertebrates
Andrade, P., Gazda, M. A., Araújo, P. M., Afonso, S., Rasmussen, Jacob Agerbo, Marques, C. I., Lopes, R. J., Gilbert, M Thomas P & Carneiro, M., 2021, In: PLOS Genetics. 17, 2, 16 p., 1009404.Research output: Contribution to journal › Journal article › Research › peer-review
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Dirt, dates and DNA: OSL and radiocarbon chronologies of perennially-frozen sediments in Siberia, and their implications for sedimentary ancient DNA studies
Arnold, L. J., Roberts, R. G., MacPhee, R. D. E., Haile, James Seymour, Brock, F., Möller, P., Froese, D. G., Tikhonov, A. N., Chivas, A. R., Gilbert, M Thomas P & Willerslev, Eske, 2011, In: Boreas. 40, 3, p. 417-445 29 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Comparative performance of two whole-genome capture methodologies on ancient DNA Illumina libraries
Avila Arcos, M. D. C., Sandoval-Velasco, Marcela, Schroeder, Hannes, Carpenter, M. L., Malaspinas, A. S., Wales, N., Peñaloza, F., Bustamante, C. D. & Gilbert, M Thomas P, 2015, In: Methods in Ecology and Evolution. 6, 6, p. 725-734 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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One hundred twenty years of koala retrovirus evolution determined from museum skins
Avila Arcos, M. D. C., Ho, S. Y. W., Ishida, Y., Nikolaidis, N., Tsangaras, K., Hönig, K., Medina, R., Rasmussen, M., Fordyce, S. L., Calvignac-Spencer, S., Willerslev, Eske, Gilbert, M Thomas P, Helgen, K. M., Roca, A. L. & Greenwood, A. D., Feb 2013, In: Molecular Biology and Evolution. 30, 2, p. 299-304 6 p.Research output: Contribution to journal › Letter › Research › peer-review
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Application and comparison of large-scale solution-based DNA capture-enrichment methods on ancient DNA
Avila Arcos, M. D. C., Cappellini, Enrico, Romero-Navarro, J. A., Wales, N., Moreno Mayar, J. Víctor, Rasmussen, M., Fordyce, S. L., Montiel, R., Vielle-Calzada, J., Willerslev, Eske & Gilbert, M Thomas P, 2011, In: Scientific Reports. 1, 5 p., 74.Research output: Contribution to journal › Journal article › Research › peer-review
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The effect of ancient DNA damage on inferences of demographic histories
Axelsson, E., Willerslev, Eske, Gilbert, M Thomas P & Nielsen, Rasmus, 2008, In: Molecular Biology and Evolution. 25, 10, p. 2181-7 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Feasibility of applying shotgun metagenomic analyses to grapevine leaf, rhizosphere and soil microbiome characterisation
Azevedo-Silva, D., Rasmussen, Jacob Agerbo, Carneiro, M., Gilbert, M Thomas P & Azevedo, H., 2021, In: Australian Journal of Grape and Wine Research. 27, 4, p. 519-526 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens
Barnett, R., Westbury, M. V., Sandoval-Velasco, M., Vieira, F. G., Jeon, S., Zazula, G., Martin, M. D., Ho, S. Y. W., Mather, N., Gopalakrishnan, S., Ramos-Madrigal, J., de Manuel, M., Zepeda-Mendoza, M. L., Antunes, A., Baez, A. C., De Cahsan, B., Larson, G., O’Brien, S. J., Eizirik, E., Johnson, W. E. & 11 others, , 2020, In: Current Biology. 30, p. 5018-5025Research output: Contribution to journal › Journal article › Research › peer-review
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No longer locally extinct? Tracing the origins of a lion (Panthera leo) living in Gabon
Barnett, R., Sinding, M. S., Vieira, Filipe Garrett, Mendoza, M. L. Z., Bonnet, M., Araldi, A., Kienast, I., Zambarda, A., Yamaguchi, N., Henschel, P. & Gilbert, M Thomas P, 2018, In: Conservation Genetics. 19, 3, p. 611-618 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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DNA from keratinous tissue. Part I: hair and nail
Bengtsson, C. F., Olsen, M. E., Brandt, Luise Ørsted, Bertelsen, Mads Frost, Willerslev, Eske, Tobin, D. J., Wilson, A. S. & Gilbert, M Thomas P, 2012, In: Annals of Anatomy. 194, 1, p. 17-25 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Evolution of the germline mutation rate across vertebrates
Bergeron, Lucie Adrienne, Besenbacher, S., Zheng, J., Li, P., Bertelsen, Mads Frost, Quintard, B., Hoffman, J. I., Li, Z., Leger, J. S., Shao, C., Stiller, Josefin, Gilbert, M Thomas P, Schierup, M. H. & KU, thw266, 2023, In: Nature. 615, p. 285-291Research output: Contribution to journal › Journal article › Research › peer-review
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The germline mutational process in rhesus macaque and its implications for phylogenetic dating
Bergeron, Lucie Adrienne, Besenbacher, S., Bakker, J., Zheng, J., Li, P., Antunes Pacheco, George, Sinding, Mikkel Holger Strander, Kamilari, M., Gilbert, M Thomas P, Schierup, M. H. & KU, thw266, 2021, In: GigaScience. 10, 5, 14 p., giab029.Research output: Contribution to journal › Journal article › Research › peer-review
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Grey wolf genomic history reveals a dual ancestry of dogs
Bergström, A., Stanton, D. W. G., Taron, U. H., Frantz, L., Sinding, M. H. S., Ersmark, E., Pfrengle, S., Cassatt-Johnstone, M., Lebrasseur, O., Girdland-Flink, L., Fernandes, D. M., Ollivier, M., Speidel, L., Gopalakrishnan, S., Westbury, M. V., Ramos-Madrigal, J., Feuerborn, T. R., Reiter, E., Gretzinger, J., Münzel, S. C. & 61 others, , 2022, In: Nature. 607, 7918, p. 313-320Research output: Contribution to journal › Journal article › Research › peer-review
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Uncovering the genomic basis of an extraordinary plant invasion
Bieker, V. C., Battlay, P., Petersen, B., Sun, X., Wilson, J., Brealey, J. C., Bretagnolle, F., Nurkowski, K., Lee, C., Barreiro, F. S., Owens, G. L., Lee, J. Y., Kellner, F. L., van Boheeman, L., Gopalakrishnan, S., Gaudeul, M., Mueller-Schaerer, H., Lommen, S., Karrer, G., Chauvel, B. & 8 others, , 2022, In: Science Advances. 8, 34, 18 p., eabo5115.Research output: Contribution to journal › Journal article › Research › peer-review
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Assessing the fidelity of ancient DNA sequences amplified from nuclear genes
Binladen, J., Wiuf, C. H., Gilbert, M Thomas P, Bunce, M., Barnett, R., Larson, G., Greenwood, A. D., Haile, James Seymour, Ho, S. Y. W., Hansen, Anders Johannes & Willerslev, Eske, 2006, In: Genetics. 172, 2, p. 733-41Research output: Contribution to journal › Journal article › Research › peer-review
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The use of coded PCR primers enables high-throughput sequencing of multiple homolog amplification products by 454 parallel sequencing.
Binladen, J., Gilbert, M Thomas P, Bollback, J. P., Panitz, F., Bendixen, C., Nielsen, Rasmus & Willerslev, Eske, 2007, In: PLoS ONE. 2, 2, p. e197Research output: Contribution to journal › Journal article › Research › peer-review
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5'-tailed sequencing primers improve sequencing quality of PCR products.
Binladen, J., Gilbert, M Thomas P, Campos, P. F. & Willerslev, Eske, 2007, In: BioTechniques. 42, 2, p. 174-176Research output: Contribution to journal › Journal article › Research › peer-review
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800,000 year old mammoth DNA, modern elephant DNA or PCR artefact?
Binladen, J., Gilbert, M Thomas P & Willerslev, Eske, 2007, In: Biology Letters. 3, 1, p. 55-6; discussion 60-3Research output: Contribution to journal › Journal article › Research › peer-review
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Reconsidering domestication from a process archaeology perspective
Bogaard, A., Allaby, R., Arbuckle, B. S., Bendrey, R., Crowley, S., Cucchi, T., Denham, T., Frantz, L., Fuller, D., Gilbert, M Thomas P, Karlsson, E., Manin, A., Marshall, F., Mueller, N., Peters, J., Stépanoff, C., Weide, A. & Larson, G., 2021, In: World Archaeology. 53, 1, p. 56-77 22 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Environmental DNA for wildlife biology and biodiversity monitoring
Bohmann, Kristine, Evans, A., Gilbert, M Thomas P, Carvalho, G. R., Creer, S., Knapp, M., Yu, D. W. & de Bruyn, M., 2014, In: Trends in Ecology & Evolution. 29, 6, p. 358-367 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Beyond DNA barcoding: The unrealized potential of genome skim data in sample identification
Bohmann, Kristine, Mirarab, S., Bafna, V. & Gilbert, M Thomas P, 2020, In: Molecular Ecology. 29, 14, p. 2521-2534Research output: Contribution to journal › Journal article › Research › peer-review
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Using DNA metabarcoding for simultaneous inference of common vampire bat diet and population structure
Bohmann, Kristine, Gopalakrishnan, Shyam, Nielsen, M., Santos-Bay, Luisa, Jones, G., Streicker, D. G. & Gilbert, M Thomas P, 2018, In: Molecular Ecology Resources. 18, 5, p. 1050-1063 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Molecular diet analysis of two African free-tailed bats (Molossidae) using high throughput sequencing
Bohmann, Kristine, Monadjem, A., Noer, Christina, Rasmussen, M., Zeale, M. R. K., Clare, E., Jones, G., Willerslev, Eske & Gilbert, M Thomas P, 2011, In: PLoS ONE. 6, 6, p. e21441 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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When bugs reveal biodiversity
Bohmann, Kristine, Schnell, I. B. & Gilbert, M Thomas P, 13 Feb 2013, In: Molecular Ecology. 22, 4, p. 909-911 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds
Borges, R., Khan, I., Johnson, W. E., Gilbert, M Thomas P, KU, thw266, Jarvis, E. D., O'Brien, S. J. & Antunes, A., 2015, In: B M C Genomics. 16, 13 p., 751 .Research output: Contribution to journal › Journal article › Research › peer-review
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Avian Binocularity and Adaptation to Nocturnal Environments: Genomic Insights from a Highly Derived Visual Phenotype
Borges, R., Fonseca, J., Gomes, C., Johnson, W. E., O'Brien, S. J., KU, thw266, Gilbert, M Thomas P, Jarvis, E. D. & Antunes, A., 2019, In: Genome Biology and Evolution. 11, 8, p. 2244-2255Research output: Contribution to journal › Journal article › Research › peer-review
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A simplified protocol for DNA extraction from FTA cards for faecal microbiome studies
Botnen, A. B., Bjørnsen, Mads Bjørn, Alberdi, Antton, Gilbert, M Thomas P & Aizpurua Arrieta, Ostaizka, 2023, In: Heliyon. 9, 1, 10 p., e12861.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 12980
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6186
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Reconstructing genome evolution in historic samples of the Irish potato famine pathogen
Research output: Contribution to journal › Journal article › Research › peer-review
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5638
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Deep sequencing of RNA from ancient maize kernels
Research output: Contribution to journal › Journal article › Research › peer-review
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True single-molecule DNA sequencing of a pleistocene horse bone
Research output: Contribution to journal › Journal article › Research › peer-review
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