Tom Gilbert

Tom Gilbert

Professor

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    ORCID: 0000-0002-5805-7195

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    1. Published

      Ancient DNA reveals traces of Iberian Neolithic and Bronze Age lineages in modern Iberian horses

      Lira, J., Linderholm, A., Olaria, C., Brandström Durling, M., Gilbert, M Thomas P, Ellegren, H., Willerslev, Eske, Lidén, K., Arsuaga, J. L. & Götherström, A., Jan 2010, In: Molecular Ecology. 19, 1, p. 64-78 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    2. Published

      Ancient DNA reveals the timing and persistence of organellar genetic bottlenecks over 3,000 years of sunflower domestication and improvement

      Wales, N., Akman, M., Watson, R. H. B., Sánchez Barreiro, F., Smith, B. D., Gremillion, K. J., Gilbert, M Thomas P & Blackman, B. K., 1 Jan 2019, In: Evolutionary Applications. 12, 1, p. 38-53

      Research output: Contribution to journal › Journal article › Research › peer-review

    3. Published

      Ancient DNA reveals that bowhead whale lineages survived Late Pleistocene climate change and habitat shifts

      Foote, A. D., Kaschner, K., Schultze, S. E., Garilao, C., Ho, S. Y. W., Post, K., Higham, T. F. G., Stokowska, C., van der Es, H., Embling, C. B., Gregersen, K., Johansson, F., Willerslev, Eske & Gilbert, M Thomas P, 9 Apr 2013, In: Nature Communications. 4, 7 p., 1677.

      Research output: Contribution to journal › Journal article › Research › peer-review

    4. Published

      Ancient DNA reveals late survival of mammoth and horse in interior Alaska

      Haile, James Seymour, Froese, D. G., Macphee, R. D. E., Roberts, R. G., Arnold, L. J., Reyes, A. V., Rasmussen, M., Nielsen, Rasmus, Brook, B. W., Robinson, S., Demuro, M., Gilbert, M Thomas P, Munch, K., Austin, J. J., Cooper, A., Barnes, I., Möller, P. & Willerslev, Eske, 2009, In: Proceedings of the National Academy of Science of the United States of America. 106, 52, p. 22352-7 5 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    5. Published

      Ancient DNA reveals lack of continuity between neolithic hunter-gatherers and contemporary Scandinavians

      Malmström, H., Gilbert, M Thomas P, Thomas, M. G., Brandström, M., Storå, J., Molnar, P., Andersen, P. K., Bendixen, C., Holmlund, G., Götherström, A. & Willerslev, Eske, 2009, In: Current Biology. 19, 20, p. 1758-62 4 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    6. Published

      Ancient DNA reveals genetic admixture in China during tiger evolution

      Sun, X., Liu, Y. C., Tiunov, M. P., Gimranov, D. O., Zhuang, Y., Han, Y., Driscoll, C. A., Pang, Y., Li, C., Pan, Y., Velasco, M. S., Gopalakrishnan, S., Yang, R. Z., Li, B. G., Jin, K., Xu, X., Uphyrkina, O., Huang, Y., Wu, X. H., Gilbert, M. T. P. & 3 others, O’Brien, S. J., Yamaguchi, N. & Luo, S., 2023, In: Nature Ecology and Evolution. 7, 11, p. 1914-1929 29 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    7. Published

      Ancient DNA from a lost Negev Highlands desert grape reveals a Late Antiquity wine lineage

      Cohen, P., Bacilieri, R., Ramos Madrigal, Jazmin, Privman, E., Boaretto, E., Weber, A., Fuks, D., Weiss, E., Erickson-Gini, T., Bucking, S., Tepper, Y., Cvikel, D., Schmidt, J., Gilbert, M Thomas P, Wales, N., Bar-Oz, G. & Meiri, M., 2023, In: PNAS. 120, 17, 8 p., e2213563120.

      Research output: Contribution to journal › Journal article › Research › peer-review

    8. Published

      Ancient DNA analysis of Scandinavian medieval drinking horns and the horn of the last aurochs bull

      Bro-Jørgensen, M. H., Carøe, C., Vieira, Filipe Garrett, Nestor, S., Hallström, A., Gregersen, K. M., Etting, V., Gilbert, M Thomas P & Sinding, Mikkel Holger Strander, 1 Nov 2018, In: Journal of Archaeological Science. 99, p. 47-54 8 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    9. Published

      Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics

      Campos, P., Willerslev, Eske, Sher, A., Orlando, L. A. A., Axelsson, E. G., Tikhonov, A., Aaris-Sørensen, Kim, Greenwood, A. D., Kahlke, R., Kosintsev, P., Krakhmalnaya, T., Kuznetsova, T., Lemey, P., MacPhee, R., Norris, C. A., Shepherd, K., Suchard, M. A., Zazula, G. D., Shapiro, B. & Gilbert, M Thomas P, 23 Mar 2010, In: National Academy of Sciences. Proceedings. 107, 12, p. 5675-5680 6 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    10. Published

      Analysis of complete mitochondrial genomes from extinct and extant rhinoceroses reveals lack of phylogenetic resolution

      Willerslev, Eske, Gilbert, M Thomas P, Binladen, J., Ho, S. Y. W., Campos, P. F., Ratan, A., Tomsho, L. P., da Fonseca, R. R., Sher, A., Kuznetsova, T. V., Nowak-Kemp, M., Roth, T. L., Miller, W. & Schuster, S. C., 2009, In: BMC Evolutionary Biology. 9, p. 95

      Research output: Contribution to journal › Journal article › Research › peer-review

    11. Published

      An ‛aukward’ tale: a genetic approach to discover the whereabouts of the last Great Auks

      Thomas, J. E., Carvalho, G. R., Haile, James Seymour, Martin, M. D., Samaniego Castruita, J. A., Niemann, Jonas, Sinding, Mikkel Holger Strander, Sandoval-Velasco, Marcela, Rawlence, N. J., Fuller, E., Fjeldså, Jon, Hofreiter, M., Stewart, J. R., Gilbert, M Thomas P & Knapp, M., 15 Jun 2017, In: Genes. 8, 6, 12 p., 164.

      Research output: Contribution to journal › Journal article › Research › peer-review

    12. Published

      An invertebrate stomach's view on vertebrate ecology: certain invertebrates could be used as "vertebrate samplers'' and deliver DNA-based information on many aspects of vertebrate ecology

      Calvignac-Spencer, S., Leendertz, F. H., Gilbert, M Thomas P & Schubert, G., 1 Nov 2013, In: BioEssays. 35, 11, p. 1004-1013 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    13. Published

      An integrated morphological-molecular approach reveals new insights on the systematics of the octocoral Telestula humilis (Thomson, 1927) (Octocorallia: Alcyonacea : Clavulariidae)

      Poliseno, A., Altuna, A., Puetz, Lara Christine, Mak, Sarah Siu Tze, Rios, P., Petroni, E., McFadden, C. S., Sørensen, Martin Vinther & Gilbert, M Thomas P, 2021, In: Invertebrate Systematics. 35, 3, p. 261-281 21 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    14. Published

      An improved PCR method for endogenous DNA retrieval in contaminated Neandertal samples based on the usage of blocking primers

      Gigli, E., Rasmussen, M., Civit, S., Rosas, A., de la Rasilla, M., Fortea, J., Gilbert, M Thomas P, Willerslev, Eske & Lalueza-Fox, C., 2009, In: Journal of Archaeological Science. 36, p. 2676-2679

      Research output: Contribution to journal › Journal article › Research › peer-review

    15. Published

      An expanded mammal mitogenome dataset from Southeast Asia

      Mohd Salleh, F. B., Ramos Madrigal, Jazmin, Peñaloza, F., Liu, Shanlin, Sinding, Mikkel Holger Strander, Patel, R. P., Martins, R., Lenz, D., Fickel, J., Roos, C., Shamsir, M. S., Azman, M. S., Lim, B. K., Rossiter, S. J., Wilting, A. & Gilbert, M Thomas P, Aug 2017, In: GigaScience. 6, 8, p. 1–8 8 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    16. Published

      An Aboriginal Australian genome reveals separate human dispersals into Asia

      Rasmussen, M., Guo, X., Wang, Y., Lohmueller, K. E., Rasmussen, S., Albrechtsen, A., Skotte, L., Lindgreen, S., Metspalu, M., Jombart, T., Kivisild, T., Zhai, W., Eriksson, A., Manica, A., Orlando, L., De La Vega, F. M., Tridico, S., Metspalu, E., Nielsen, K., Avila Arcos, M. D. C. & 38 others, Moreno Mayar, J. Víctor, Muller, C., Dortch, J., Gilbert, M Thomas P, Lund, O., Wesolowska, A., Karmin, M., Weinert, L. A., Wang, B., Li, J., Tai, S., Xiao, F., Hanihara, T., van Driem, G., Jha, A. R., Ricaut, F., de Knijff, P., Migliano, A. B., Gallego Romero, I., Kristiansen, Karsten, Lambert, D. M., Brunak, Søren, Forster, P., Brinkmann, B., Nehlich, O., Bunce, M., Richards, M., Gupta, R., Bustamante, C. D., Krogh, Anders, Foley, R. A., Lahr, M. M., Balloux, F., Sicheritz-Pontén, T., Villems, R., Nielsen, Rasmus, Wang, J. & Willerslev, Eske, 2011, In: Science. 334, 6052, p. 94-98 5 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    17. Published

      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

    18. Published

      Adaptive venom evolution and toxicity in octopods is driven by extensive novel gene formation, expansion, and loss

      Whitelaw, B. L., Cooke, I. R., Finn, J., Rodrigues da Fonseca, Rute Andreia, Ritschard, E. A., Gilbert, M Thomas P, Simakov, O. & Strugnell, J. M., 2020, In: GigaScience. 9, 11, 15 p., giaa120.

      Research output: Contribution to journal › Journal article › Research › peer-review

    19. Published

      Abscence of Yersinia pestis-specific dna in human teeth from five European excavations of putative plague victims

      Gilbert, M Thomas P, Cuccui, J., White, W., Lynnerup, Niels, Titball, R., Cooper, A. & Prentice, M., 2004, In: Microbiology. 150, 2, p. 341-354

      Research output: Contribution to journal › Journal article › Research › peer-review

    20. Published

      A towering genome: Experimentally validated adaptations to high blood pressure and extreme stature in the giraffe

      Liu, C., Gao, J., Cui, X., Li, Z., Chen, L., Yuan, Y., Zhang, Y., Mei, L., Zhao, L., Cai, D., Hu, M., Zhou, B., Li, Z., Qin, T., Si, H., Li, G., Lin, Z., Xu, Y., Zhu, C., Yin, Y. & 9 others, Zhang, C., Xu, W., Li, Q., Wang, K., Gilbert, M Thomas P, Heller, Rasmus, Wang, W., Huang, J. & Qiu, Q., 2021, In: Science Advances. 7, 12, 13 p., eabe9459.

      Research output: Contribution to journal › Journal article › Research › peer-review

    21. Published

      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

    22. Published

      A simplified DNA extraction protocol for unsorted bulk arthropod samples that maintains exoskeletal integrity

      Nielsen, M., Gilbert, M Thomas P, Pape, Thomas & Bohmann, Kristine, 2019, In: Environmental DNA. 1, 2, p. 144-154

      Research output: Contribution to journal › Journal article › Research › peer-review

    23. Published

      A simple method for the parallel deep sequencing of full influenza A genomes

      Kampmann, Marie-Louise, Fordyce, S. L., Avila Arcos, M. D. C., Rasmussen, M., Willerslev, Eske, Nielsen, L. P. & Gilbert, M Thomas P, Dec 2011, In: Journal of Virological Methods. 178, 1-2, p. 243-248 6 p.

      Research output: Contribution to journal › Letter › Research › peer-review

    24. Published

      A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

      Ribeiro, Â. M., Zepeda Mendoza, M. L., Bertelsen, Mads Frost, Kristensen, Annemarie T., Jarvis, E. D., Gilbert, M Thomas P & Rodrigues da Fonseca, Rute Andreia, 2015, In: B M C Evolutionary Biology. 15, 8 p., 124.

      Research output: Contribution to journal › Journal article › Research › peer-review

    25. Published

      A preliminary analysis of the DNA and diet of the extinct Beothuk: a systematic approach to ancient human DNA.

      Kuch, M., Gröcke, D. R., Knyf, M. C., Gilbert, M Thomas P, Younghusband, B., Young, T., Marshall, I., Willerslev, Eske, Stoneking, M. & Poinar, H., 2007, In: American Journal of Physical Anthropology. 132, 4, p. 594-604 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    26. Published

      A pangenome graph reference of 30 chicken genomes allows genotyping of large and complex structural variants

      Rice, E. S., Alberdi, A., Alfieri, J., Athrey, G., Balacco, J. R., Bardou, P., Blackmon, H., Charles, M., Cheng, H. H., Fedrigo, O., Fiddaman, S. R., Formenti, G., Frantz, L. A. F., Gilbert, M. T. P., Hearn, C. J., Jarvis, E. D., Klopp, C., Marcos, S., Mason, A. S., Velez-Irizarry, D. & 2 others, Xu, L. & Warren, W. C., 2023, In: BMC Biology. 21, 17 p., 267.

      Research output: Contribution to journal › Journal article › Research › peer-review

    27. Published

      A multidisciplinary study of archaeological grape seeds

      Cappellini, Enrico, Gilbert, M Thomas P, Geuna, F., Fiorentino, G., Hall, A., Thomas-Oates, J., Ashton, P. D., Ashford, D. A., Arthur, P., Campos, P., Kool, J., Willerslev, Eske & Collins, M. J., 1 Feb 2010, In: Naturwissenschaften. 97, 2, p. 205-217 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    28. Published

      A multi-omics approach unravels metagenomic and metabolic alterations of a probiotic and synbiotic additive in rainbow trout (Oncorhynchus mykiss)

      Rasmussen, Jacob Agerbo, Villumsen, Kasper Rømer, Ernst, M., Hansen, M., Forberg, T., Gopalakrishnan, Shyam, Gilbert, M Thomas P, Bojesen, Anders Miki, Kristiansen, Karsten & Limborg, Morten Tønsberg, 2022, In: Microbiome. 10, 19 p., 21.

      Research output: Contribution to journal › Journal article › Research › peer-review

    29. Published

      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

    30. Published

      A genomic exploration of the early evolution of extant cats and their sabre-toothed relatives: [version 1; peer review: 2 approved]

      Westbury, Michael Vincent, Barnett, R., Sandoval-Velasco, Marcela, Gower, Graham, Vieira, Filipe Garrett, de Manuel, M., Hansen, Anders Johannes, Yamaguchi, N., Werdelin, L., Marques-Bonet, T., Gilbert, M Thomas P & Lorenzen, Eline, 2021, In: Open Research Europe. 1, 15 p., 25.

      Research output: Contribution to journal › Journal article › Research › peer-review

    31. Published

      A genomic exploration of the early evolution of extant cats and their sabre-toothed relatives: [version 2; peer review: 2 approved]

      Westbury, Michael Vincent, Barnett, R., Sandoval-Velasco, Marcela, Gower, Graham, Vieira, Filipe Garrett, de Manuel, M., Hansen, Anders Johannes, Yamaguchi, N., Werdelin, L., Marques-Bonet, T., Gilbert, M Thomas P & Lorenzen, Eline, 2021, In: Open Research Europe. 1, 16 p., 25.

      Research output: Contribution to journal › Journal article › Research › peer-review

    32. Published

      A flock of Genomes

      KU, thw266, Jarvis, E. D. & Gilbert, M Thomas P, 2014, In: Science. 346, 6215, p. 1308-1309 2 p.

      Research output: Contribution to journal › Editorial › Research › peer-review

    33. Published

      A draft genome sequence of the elusive giant squid, Architeuthis dux

      da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H-J., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, B., Peñaloza, F., Musacchia, F., Alexander, G. C. & 24 others, Osório, H., Winkelmann, I., Simakov, O., Rasmussen, Simon, Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., KU, thw266, Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Pontén, Thomas, Nielsen, Rasmus & Gilbert, M Thomas P, 2020, In: GigaScience. 9, 1, 12 p., giz152.

      Research output: Contribution to journal › Journal article › Research › peer-review

    34. Published

      A comparison of storage methods for gut microbiome studies in teleosts: insights from rainbow trout (Oncorhynchus mykiss)

      Hildonen, M., Kodama, M., Puetz, Lara Christine, Gilbert, M Thomas P & Limborg, Morten Tønsberg, 2019, In: Journal of Microbiological Methods. 160, p. 42-48

      Research output: Contribution to journal › Journal article › Research › peer-review

    35. Published

      A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long-term vegetational stability

      Jørgensen, Tina, Haile, James Seymour, Möller, P., Andreev, A., Boessenkool, S., Rasmussen, M., Kienast, F., Coissac, E., Taberlet, P., Brochmann, C., Bigelow, N. H., Andersen, K., Orlando, L. A. A., Gilbert, M Thomas P & Willerslev, Eske, 2012, In: Molecular Ecology. 21, 8, p. 1989-2003 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    36. Published

      A common genetic origin for early farmers from Mediterranean Cardial and Central European LBK cultures

      Olalde, I., Schroeder, Hannes, Sandoval-Velasco, Marcela, Vinner, Lasse, Lobón, I., Ramirez, O., Civit, S., Borja, P. G., Salazar-García, D. C., Talamo, S., Fullola, J. M., Oms, F. X., Pedro, M., Martínez, P., Sanz, M., Daura, J., Zilhão, J., Marquès-Bonet, T., Gilbert, M Thomas P & Lalueza-Fox, C., 2015, In: Molecular Biology and Evolution. 32, 12, p. 3132-3142 11 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    37. Published

      A 5700 year-old human genome and oral microbiome from chewed birch pitch

      Jensen, T. Z. T., Niemann, J., Iversen, K. H., Fotakis, A. K., Gopalakrishnan, S., Vågene, Å. J., Pedersen, M. W., Sinding, M-H. S., Ellegaard, M. R., Allentoft, M. E., Lanigan, L. T., Taurozzi, A. J., Nielsen, S. H., Dee, M. W., Mortensen, M. N., Christensen, M. C., Sørensen, S. A., Collins, M. J., Gilbert, M. T. P., Sikora, M. & 2 others, Rasmussen, Simon & Schroeder, Hannes, 2019, In: Nature Communications. 10, 10 p., 5520.

      Research output: Contribution to journal › Journal article › Research › peer-review

    38. Published

      Yersinia pestis: one pandemic, two pandemics, three pandemics, more?

      Gilbert, M Thomas P, Apr 2014, In: The Lancet Infectious Diseases. 14, 4, p. 264-265 2 p.

      Research output: Contribution to journal › Comment/debate › Research

    39. Published

      Plasmodium falciparum erythrocyte membrane protein 1 domain cassettes 8 and 13 are associated with severe malaria in children

      Lavstsen, Thomas, Turner, Louise, Saguti, F., Magistrado, P. A., Rask, T. S., Jespersen, Jakob Schmidt, Wang, Christian William, Berger, S. S., Baraka, V., Marquard, A. M., Seguin-Orlando, A., Willerslev, Eske, Gilbert, M Thomas P, Lusingu, J. P. A. & Theander, Thor Grundtvig, 2012, In: Proceedings of the National Academy of Sciences of the United States of America. 109, 26, p. E1791-E1800 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    40. Published

      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 60-3

      Research output: Contribution to journal › Journal article › Research › peer-review

    41. Published

      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. 174-176

      Research output: Contribution to journal › Journal article › Research › peer-review

    42. Published

      31º South: The physiology of adaptation to arid conditions in a passerine bird

      Ribeiro, Â. M., Puetz, Lara Christine, Pattinson, N. B., Dalén, L., Deng, Y., KU, thw266, Rodrigues da Fonseca, Rute Andreia, Smit, B. & Gilbert, M Thomas P, 2019, In: Molecular Ecology. 28, 16, p. 3709-3721 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    43. Published

      31° South: Dietary niche of an arid‐zone endemic passerine

      Ribeiro, Â. M., Smit, B. & Gilbert, M Thomas P, 2019, In: Environmental Engineering. 1, 2, p. 109-118

      Research output: Contribution to journal › Journal article › Research › peer-review

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