Shyam Gopalakrishnan

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• 2024

  A Genomic Exploration of the Possible De-Extirpation of the Zanzibar Leopard

  Sun, X., Cavill, E. L., Margaryan, A., Lin, J., Thingaard, S., Said, TA., Gopalakrishnan, S. & Gilbert, M. TP., 2024, (E-pub ahead of print) In: Molecular Ecology. 10 p.

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• A systematic literature review: deep learning techniques for synthetic medical image generation and their applications in radiotherapy

  Sherwani, M. K. & Gopalakrishnan, S., 2024, In: Frontiers in Radiology. 4, 28 p., 1385742.

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• Beyond population size: Whole-genome data reveal bottleneck legacies in the peninsular Italian wolf

  Battilani, D., Gargiulo, R., Caniglia, R., Fabbri, E., Ramos-Madrigal, J., Fontsere, C., Ciucani, M. M., Gopalakrishnan, S., Girardi, M., Fracasso, I., Mastroiaco, M., Ciucci, P. & Vernesi, C., 27 Aug 2024, (E-pub ahead of print) In: The Journal of Heredity. 14 p.

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• When birds of a feather flock together: Severe genomic erosion and the implications for genetic rescue in an endangered island passerine

  Cavill, E. L., Morales, H. E., Sun, X., Westbury, M. V., van Oosterhout, C., Accouche, W., Zora, A., Schulze, M. J., Shah, N., Adam, P. A., Brooke, M. D. L., Sweet, P., Gopalakrishnan, S. & Gilbert, M. T. P., 2024, In: Evolutionary Applications. 17, 7, 16 p., e13739.

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• 2023

  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-J., 2023, In: Nature Ecology and Evolution. 7, 11, p. 1914-1929 29 p.

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• Conservation implications of elucidating the Korean wolf taxonomic ambiguity through whole-genome sequencing

  Hernández-Alonso, G., Ramos-Madrigal, J., Sun, X., Scharff-Olsen, C. H., Sinding, M. H. S., Martins, N. F., Ciucani, M. M., Mak, S. S. T., Lanigan, L. T., Clausen, C. G., Bhak, J., Jeon, S., Kim, C., Eo, K. Y., Cho, S. H., Boldgiv, B., Gantulga, G., Unudbayasgalan, Z., Kosintsev, P. A., Stenøien, H. K. & 2 others, Gilbert, M. T. P. & Gopalakrishnan, S., 2023, In: Ecology and Evolution. 13, 8, 15 p., e10404.

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• Dealing with dimensionality: the application of machine learning to multi-omics data

  Feldner-Busztin, D., Nisantzis, P. F., Edmunds, S. J., Boza, G., Racimo, F., Gopalakrishnan, S., Limborg, M. T., Lahti, L. & de Polavieja, G. G., 2023, In: Bioinformatics. 39, 2, 8 p., btad021.

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• HaploCart: Human mtDNA haplogroup classification using a pangenomic reference graph

  Rubin, J. D., Vogel, N. A., Gopalakrishnan, S., Sackett, P. W. & Renaud, G., 2023, In: PLOS Computational Biology. 19, 6, 27 p., e1011148.

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• Redefining the Evolutionary History of the Rock Dove, Columba livia, Using Whole Genome Sequences

  Hernández-Alonso, G., Ramos-Madrigal, J., van Grouw, H., Ciucani, M. M., Cavill, E. L., Sinding, M-H. S., Gopalakrishnan, S., Pacheco, G. & P. Gilbert, M. T., 2023, In: Molecular Biology and Evolution. 40, 11, 17 p., msad243.

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• The ancestry and geographical origins of St Helena's liberated Africans: [incl. erratum]

  Sandoval-Velasco, M., Jagadeesan, A., Ramos-Madrigal, J., Ávila-Arcos, M. C., Fortes-Lima, C. A., Watson, J., Johannesdóttir, E., Cruz-Dávalos, D. I., Gopalakrishnan, S., Moreno-Mayar, J. V., Niemann, J., Renaud, G., Brown, K. A. R., Bennett, H., Pearson, A., Helgason, A., Gilbert, M. T. P. & Schroeder, H., 2023, In: American Journal of Human Genetics. 110, 9, p. 1590-1599 10 p.

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• The extinct Sicilian wolf shows a complex history of isolation and admixture with ancient dogs

  Ciucani, M. M., Ramos-Madrigal, J., Hernández-Alonso, G., Carmagnini, A., Aninta, S. G., Sun, X., Scharff-Olsen, C. H., Lanigan, L. T., Fracasso, I., Clausen, C. G., Aspi, J., Kojola, I., Baltrūnaitė, L., Balčiauskas, L., Moore, J., Åkesson, M., Saarma, U., Hindrikson, M., Hulva, P., Bolfíková, B. Č. & 19 others, Nowak, C., Godinho, R., Smith, S., Paule, L., Nowak, S., Mysłajek, R. W., Lo Brutto, S., Ciucci, P., Boitani, L., Vernesi, C., Stenøien, H. K., Smith, O., Frantz, L., Rossi, L., Angelici, F. M., Cilli, E., Sinding, M. H. S., Gilbert, M. T. P. & Gopalakrishnan, S., 2023, In: iScience. 26, 8, 22 p., 107307.

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• The genetic history of Scandinavia from the Roman Iron Age to the present

  Rodríguez-Varela, R., Moore, K. H. S., Ebenesersdóttir, S. S., Kilinc, G. M., Kjellström, A., Papmehl-Dufay, L., Alfsdotter, C., Berglund, B., Alrawi, L., Kashuba, N., Sobrado, V., Lagerholm, V. K., Gilbert, E., Cavalleri, G. L., Hovig, E., Kockum, I., Olsson, T., Alfredsson, L., Hansen, T. F., Werge, T. & 24 others, Munters, A. R., Bernhardsson, C., Skar, B., Christophersen, A., Turner-Walker, G., Gopalakrishnan, S., Daskalaki, E., Omrak, A., Pérez-Ramallo, P., Skoglund, P., Girdland-Flink, L., Gunnarsson, F., Hedenstierna-Jonson, C., Gilbert, M. T. P., Lidén, K., Jakobsson, M., Einarsson, L., Victor, H., Krzewińska, M., Zachrisson, T., Storå, J., Stefánsson, K., Helgason, A. & Götherström, A., 2023, In: Cell. 186, 1, p. 32-46.e19

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• The history of Coast Salish “woolly dogs” revealed by ancient genomics and Indigenous Knowledge

  Lin, A. T., Hammond-Kaarremaa, L., Liu, H-L., Stantis, C., McKechnie, I., Pavel, M., Pavel, S. S. M., Wyss, S. S., Sparrow, D. Q., Carr, K., Aninta, S. G., Perri, A., Hartt, J., Bergström, A., Carmagnini, A., Charlton, S., Dalén, L., Feuerborn, T. R., France, C. A. M., Gopalakrishnan, S. & 13 others, Grimes, V., Harris, A., Kavich, G., Sacks, B. N., Sinding, M. H. S., Skoglund, P., Stanton, D. W. G., Ostrander, E. A., Larson, G., Armstrong, C. G., Frantz, L. A. F., Hawkins, M. T. R. & Kistler, L., 2023, In: Science. 382, 6676, p. 1303-1309 7 p.

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• Uncovering neutral and adaptive genomic differentiation among European perch with brackish water and freshwater origin in the western Baltic Sea region

  Skovrind, M., Pacheco, G., Christensen, E. A. F., Gopalakrishnan, S., Fietz, K., Holm-Hansen, T. H., Vieira, F. G., Krag, M. A., Carl, H., Gilbert, M. T. P., Olsen, M. T. & Møller, P. R., 2023, In: Fisheries Research. 268, 11 p., 106846.

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• 2022

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

  Rasmussen, J. A., Villumsen, K. R., Ernst, M., Hansen, M., Forberg, T., Gopalakrishnan, S., Gilbert, M. T. P., Bojesen, A. M., Kristiansen, K. & Limborg, M. T., 2022, In: Microbiome. 10, 19 p., 21.

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• Analysis of independent cohorts of outbred CFW mice reveals novel loci for behavioral and physiological traits and identifies factors determining reproducibility

  Zou, J., Gopalakrishnan, S., Parker, C. C., Nicod, J., Mott, R., Cai, N., Lionikas, A., Davies, R. W., Palmer, A. A. & Flint, J., 2022, In: G3: Genes, Genomes, Genetics. 12, 1, 13 p., jkab394.

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• Ancient Maltese genomes and the genetic geography of Neolithic Europe

  Ariano, B., Mattiangeli, V., Breslin, E. M., Parkinson, E. W., McLaughlin, T. R., Thompson, J. E., Power, R. K., Stock, J. T., Mercieca-Spiteri, B., Stoddart, S., Malone, C., Gopalakrishnan, S., Cassidy, L. M. & Bradley, D. G., 2022, In: Current Biology. 32, 12, p. 2668-2680.e6

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• Benchmarking freely available HLA typing algorithms across varying genes, coverages and typing resolutions

  Thuesen, N. H., Klausen, M. S., Gopalakrishnan, S., Trolle, T. & Renaud, G., 2022, In: Frontiers in Immunology. 13, 15 p., 987655.

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• Conservation genomics of the endangered Seychelles Magpie-Robin (Copsychus sechellarum): a unique insight into the history of a precious endemic bird

  Cavill, E. L., Gopalakrishnan, S., Puetz, L. C., Ribeiro, Â. M., Mak, S. S. T., da Fonseca, R. R., Pacheco, G., Dunlop, B., Accouche, W., Shah, N., Zora, A., Calabrese, L., Genner, M., Jones, G., Guo, C., Zhang, G. & Gilbert, M. T. P., 2022, In: Ibis. 164, 2, p. 396-410 15 p.

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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, Swali, P., Conard, N. J., Carøe, C., Haile, J., Linderholm, A., Androsov, S., Barnes, I., Baumann, C., Benecke, N., Bocherens, H., Brace, S., Carden, R. F., Drucker, D. G., Fedorov, S., Gasparik, M., Germonpré, M., Grigoriev, S., Groves, P., Hertwig, S. T., Ivanova, V. V., Janssens, L., Jennings, R. P., Kasparov, A. K., Kirillova, I. V., Kurmaniyazov, I., Kuzmin, Y. V., Kosintsev, P. A., Lázničková-Galetová, M., Leduc, C., Nikolskiy, P., Nussbaumer, M., O’Drisceoil, C., Orlando, L., Outram, A., Pavlova, E. Y., Perri, A. R., Pilot, M., Pitulko, V. V., Plotnikov, V. V., Protopopov, A. V., Rehazek, A., Sablin, M., Seguin-Orlando, A., Storå, J., Verjux, C., Zaibert, V. F., Zazula, G., Crombé, P., Hansen, A. J., Willerslev, E., Leonard, J. A., Götherström, A., Pinhasi, R., Schuenemann, V. J., Hofreiter, M., Gilbert, M. T. P., Shapiro, B., Larson, G., Krause, J., Dalén, L. & Skoglund, P., 2022, In: Nature. 607, 7918, p. 313-320

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• Pervasive Phylogenomic Incongruence Underlies Evolutionary Relationships in Eyebrights (Euphrasia, Orobanchaceae)

  Garrett, P., Becher, H., Gussarova, G., dePamphilis, C. W., Ness, R. W., Gopalakrishnan, S. & Twyford, A. D., 2022, In: Frontiers in Plant Science. 13, 16 p., 869583.

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• Probing the genomic limits of de-extinction in the Christmas Island rat

  Lin, J., Duchêne, D., Carøe, C., Smith, O., Ciucani, M. M., Niemann, J., Richmond, D., Greenwood, A. D., MacPhee, R., Zhang, G., Gopalakrishnan, S. & Gilbert, M. T. P., 2022, In: Current Biology. 32, 7, p. 1650-1656.e3

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• The population genomic legacy of the second plague pandemic

  Gopalakrishnan, S., Ebenesersdóttir, S. S., Lundstrøm, I. K. C., Turner-Walker, G., Moore, K. H. S., Luisi, P., Margaryan, A., Martin, M. D., Ellegaard, M. R., Magnússon, Ó., Sigurðsson, Á., Snorradóttir, S., Magnúsdóttir, D. N., Laffoon, J. E., van Dorp, L., Liu, X., Moltke, I., Ávila-Arcos, M. C., Schraiber, J. G., Rasmussen, S. & 40 others, Juan, D., Gelabert, P., de-Dios, T., Fotakis, A. K., Iraeta-Orbegozo, M., Vågene, Å. J., Denham, S. D., Christophersen, A., Stenøien, H. K., Vieira, F. G., Liu, S., Günther, T., Kivisild, T., Moseng, O. G., Skar, B., Cheung, C., Sandoval-Velasco, M., Wales, N., Schroeder, H., Campos, P. F., Guðmundsdóttir, V. B., Sicheritz-Ponten, T., Petersen, B., Halgunset, J., Gilbert, E., Cavalleri, G. L., Hovig, E., Kockum, I., Olsson, T., Alfredsson, L., Hansen, T. F., Werge, T., Willerslev, E., Balloux, F., Marques-Bonet, T., Lalueza-Fox, C., Nielsen, R., Stefánsson, K., Helgason, A. & Gilbert, M. T. P., 2022, In: Current Biology. 32, 21, p. 4743-4751.e6

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• The rise of genomics in snake venom research: recent advances and future perspectives

  Rao, W. Q., Kalogeropoulos, K., Allentoft, M. E., Gopalakrishnan, S., Zhao, W., Workman, C. T., Knudsen, C., Jiménez-Mena, B., Seneci, L., Mousavi-Derazmahalleh, M., Jenkins, T. P., Rivera-de-Torre, E., Liu, S. Q. & Laustsen, A. H., 2022, In: GigaScience. 11, 16 p., giac024.

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• Travel Tales of a Worldwide Weed: Genomic Signatures of Plantago major L. Reveal Distinct Genotypic Groups With Links to Colonial Trade Routes

  Iwanycki Ahlstrand, N., Gopalakrishnan, S., Vieira, F. G., Bieker, V. C., Meudt, H. M., Dunbar-Co, S., Rothfels, C. J., Martinez-Swatson, K. A., Maldonado, C., Hassemer, G., Shipunov, A., Bowers, M. D., Gardner, E., Xu, M., Ghorbani, A., Amano, M., Grace, O. M., Pringle, J. S., Bishop, M., Manzanilla, V. & 18 others, Cotrim, H., Blaney, S., Zubov, D., Choi, H-K., Yesil, Y., Bennett, B., Vimolmangkang, S., El-Seedi, H. R., Staub, P. O., Li, Z., Boldbaatar, D., Hislop, M., Caddy, L. J., Muasya, A. M., Saslis-Lagoudakis, C. H., Gilbert, M. T. P., Zerega, N. J. C. & Rønsted, N., 2022, In: Frontiers in Plant Science. 13, 16 p., 838166.

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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, Sun, Y., Kostantinovic, B., Dalén, L., Poczai, P., Rieseberg, L. H., Gilbert, M. T. P., Hodgins, K. A. & Martin, M. D., 2022, In: Science Advances. 8, 34, 18 p., eabo5115.

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• 2021

  Ancient and modern genomes unravel the evolutionary history of the rhinoceros family

  Liu, S., Westbury, M. V., Dussex, N., Mitchell, K. J., Sinding, M. H. S., Heintzman, P. D., Duchêne, D. A., Kapp, J. D., von Seth, J., Heiniger, H., Sánchez-Barreiro, F., Margaryan, A., André-Olsen, R., De Cahsan, B., Meng, G., Yang, C., Chen, L., van der Valk, T., Moodley, Y., Rookmaaker, K. & 19 others, Bruford, M. W., Ryder, O., Steiner, C., Sonsbeek, L. G. R. B., Vartanyan, S., Guo, C., Cooper, A., Kosintsev, P., Kirillova, I., Lister, A. M., Marques-Bonet, T., Gopalakrishnan, S., Dunn, R. R., Lorenzen, E. D., Shapiro, B., Zhang, G., Antoine, P. O., Dalén, L. & Gilbert, M. T. P., 2021, In: Cell. 184, 19, p. 4874-4885.e16

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• Biodiversity Soup II: A bulk-sample metabarcoding pipeline emphasizing error reduction

  Yang, C., Bohmann, K., Wang, X., Cai, W., Wales, N., Ding, Z., Gopalakrishnan, S. & Yu, D. W., 2021, In: Methods in Ecology and Evolution. 12, 7, p. 1252-1264 13 p.

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• Circumpolar phylogeography and demographic history of beluga whales reflect past climatic fluctuations

  Skovrind, M., Louis, M., Westbury, M. V., Garilao, C., Kaschner, K., Castruita, J. A. S., Gopalakrishnan, S., Knudsen, S. W., Haile, J. S., Dalén, L., Meshchersky, I. G., Shpak, O. V., Glazov, D. M., Rozhnov, V. V., Litovka, D. I., Krasnova, V. V., Chernetsky, A. D., Bel'kovich, V. M., Lydersen, C., Kovacs, K. M. & 4 others, Heide-Jørgensen, M. P., Postma, L., Ferguson, S. H. & Lorenzen, E. D., Jun 2021, In: Molecular Ecology. 30, 11, p. 2543-2559 17 p.

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• Contrasting genetic signal of recolonization after rainforest fragmentation in African trees with different dispersal abilities

  Piñeiro, R., Hardy, O. J., Tovar, C., Gopalakrishnan, S., Vieira, F. G. & Gilbert, M. T. P., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 27, 9 p., e2013979118.

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• Dire wolves were the last of an ancient New World canid lineage

  Perri, A. R., Mitchell, K. J., Mouton, A., Alvarez-Carretero, S., Hulme-Beaman, A., Haile, J., Jamieson, A., Meachen, J., Lin, A. T., Schubert, B. W., Ameen, C., Antipina, E. E., Bover, P., Brace, S., Carmagnini, A., Carøe, C., Samaniego Castruita, J. A., Chatters, J. C., Dobney, K., dos Reis, M. & 29 others, Evin, A., Gaubert, P., Gopalakrishnan, S., Gower, G., Heiniger, H., Helgen, K. M., Kapp, J., Kosintsev, P. A., Linderholm, A., Ozga, A. T., Presslee, S., Salis, A. T., Saremi, N. F., Shew, C., Skerry, K., Taranenko, D. E., Thompson, M., Sablin, M. V., Kuzmin, Y. V., Collins, M. J., Sinding, M-H. S., Gilbert, M. T. P., Stone, A. C., Shapiro, B., Van Valkenburgh, B., Wayne, R. K., Larson, G., Cooper, A. & Frantz, L. A. F., 2021, In: Nature. 591, p. 87-91

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• eDNA‐based biomonitoring at an experimental German vineyard to characterize how management regimes shape ecosystem diversity

  Rasmussen, J. A., Nielsen, M., Mak, S. S. T., Döring, J., Klincke, F., Gopalakrishnan, S., Dunn, R., Kauer, R. & Gilbert, M. T. P., 2021, In: Environmental DNA. 3, 1, p. 70-82 12 p.

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• Evolutionary history of the extinct Sardinian dhole

  Ciucani, M. M., Jensen, J. K., Sinding, M-H. S., Smith, O., Lucenti, S. B., Rosengren, E., Rook, L., Tuveri, C., Arca, M., Cappellini, E., Galaverni, M., Randi, E., Guo, C., Zhang, G., Sicheritz-Pontén, T., Dalén, L., Gilbert, M. T. P. & Gopalakrishnan, S., 2021, In: Current Biology. 31, 24, p. 5571-5579.e6 16 p.

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• Extended survival of Pleistocene Siberian wolves into the early 20th century on the island of Honshu

  Niemann, J., Gopalakrishnan, S., Yamaguchi, N., Ramos-Madrigal, J., Wales, N., Gilbert, M. T. P. & Sinding, M-H. S., 2021, In: iScience. 24, 25 p., 101904.

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• Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum)

  Sánchez-Barreiro, F., Gopalakrishnan, S., Ramos-Madrigal, J., Westbury, M. V., de Manuel, M., Margaryan, A., Ciucani, M. M., Vieira, F. G., Patramanis, Y., Kalthoff, D. C., Timmons, Z., Sicheritz-Pontén, T., Dalén, L., Ryder, O. A., Zhang, G., Marques-Bonet, T., Moodley, Y. & Gilbert, M. T. P., 2021, In: Molecular Ecology. 30, 23, p. 6355-6369 15 p.

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• Mitochondrial genomes of Danish vertebrate species generated for the national DNA reference database, DNAmark

  Margaryan, A., Noer, C. L., Richter, S. R., Restrup, M. E., Bülow‐hansen, J. L., Leerhøi, F., Langkjær, E. M. R., Gopalakrishnan, S., Carøe, C., Gilbert, M. T. P. & Bohmann, K., 2021, In: Environmental DNA. 3, 2, p. 472-480

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• Modern Siberian dog ancestry was shaped by several thousand years of Eurasian-wide trade and human dispersal

  Feuerborn, T. R., Carmagnini, A., Losey, R. J., Nomokonova, T., Askeyev, A., Askeyev, I., Askeyev, O., Antipina, E. E., Appelt, M., Bachura, O. P., Beglane, F., Bradley, D. G., Daly, K. G., Gopalakrishnan, S., Gregersen, K. M., Guo, C., Gusev, A. V., Jones, C., Kosintsev, P. A., Kuzmin, Y. V. & 17 others, Mattiangeli, V., Perri, A. R., Plekhanov, A. V., Ramos-Madrigal, J., Schmidt, A. L., Shaymuratova, D., Smith, O., Yavorskaya, L. V., Zhang, G., Willerslev, E., Meldgaard, M., Gilbert, M. T. P., Larson, G., Dalén, L., Hansen, A. J., Sinding, M. H. S. & Frantz, L., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 39, e2100338118.

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• The genome sequence of the grey wolf, Canis lupus Linnaeus 1758

  Sinding, M. H. S., Gopalakrishnan, S., Raundrup, K., Dalén, L., Threlfall, J., Gilbert, T., Darwin Tree of Life Barcoding collective, Wellcome Sanger Institute Tree of Life programme, Wellcome Sanger Institute Scientific Operations: DNA Pipelines collective & Tree of Life Core Informatics collective, Darwin Tree of Life Consortium, 2021, In: Wellcome Open Research. 6, 12 p., 310.

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• 2020

  Adapting Genotyping-by-Sequencing and Variant Calling for Heterogeneous Stock Rats

  Gileta, A. F., Gao, J., Chitre, A. S., Bimschleger, H., St Pierre, C. L., Gopalakrishnan, S. & Palmer, A. A., 2020, In: G3: Genes, Genomes, Genetics (Bethesda). 10, 7, p. 2195-2205 11 p.

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  12 Citations (Scopus)

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• Arctic-adapted dogs emerged at the Pleistocene-Holocene transition

  Sinding, M. H. S., Gopalakrishnan, S., Ramos-Madrigal, J., de Manuel, M., Pitulko, V. V., Kuderna, L., Feuerborn, T. R., Frantz, L. A. F., Vieira, F. G., Niemann, J., Samaniego Castruita, J. A., Carøe, C., Andersen-Ranberg, E. U., Jordan, P. D., Pavlova, E. Y., Nikolskiy, P. A., Kasparov, A. K., Ivanova, V. V., Willerslev, E., Skoglund, P. & 15 others, Fredholm, M., Wennerberg, S. E., Heide-Jørgensen, M. P., Dietz, R., Sonne, C., Meldgaard, M., Dalén, L., Larson, G., Petersen, B., Sicheritz-Pontén, T., Bachmann, L., Wiig, Ø., Marques-Bonet, T., Hansen, A. J. & Gilbert, M. T. P., 2020, In: Science (New York, N.Y.). 368, 6498, p. 1495-1499 5 p.

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  64 Citations (Scopus)

• Genomes of Pleistocene Siberian Wolves Uncover Multiple Extinct Wolf Lineages

  Ramos-Madrigal, J., Sinding, M-H. S., Carøe, C., Mak, S. S. T., Niemann, J., Samaniego Castruita, J. A., Fedorov, S., Kandyba, A., Germonpré, M., Bocherens, H., Feuerborn, T. R., Pitulko, V. V., Pavlova, E. Y., Nikolskiy, P. A., Kasparov, A. K., Ivanova, V. V., Larson, G., Frantz, L. A. F., Willerslev, E., Meldgaard, M. & 7 others, Petersen, B., Sicheritz-Ponten, T., Bachmann, L., Wiig, Ø., Hansen, A. J., Gilbert, M. T. P. & Gopalakrishnan, S., 2020, In: Current biology : CB. 31, p. 198-206

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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, Koepfli, K-P., Wilting, A., Fickel, J., Dalén, L., Lorenzen, E. D., Marques-Bonet, T., Hansen, A. J., Zhang, G., Bhak, J., Yamaguchi, N. & Gilbert, M. T. P., 2020, In: Current Biology. 30, p. 5018-5025

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• Holo-Omics: Integrated Host-Microbiota Multi-omics for Basic and Applied Biological Research

  Nyholm, L., Koziol, A., Marcos, S., Botnen, A. B., Aizpurua, O., Gopalakrishnan, S., Limborg, M. T., Gilbert, M. T. P. & Alberdi, A., 2020, In: iScience. 23, 8, p. 1-16 101414.

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• Influence of past climate change on phylogeography and demographic history of narwhals, Monodon monoceros

  Louis, M., Skovrind, M., Samaniego Castruita, J. A., Garilao, C., Kaschner, K., Gopalakrishnan, S., Haile, J. S., Lydersen, C., Kovacs, K. M., Garde, E., Heide-Jørgensen, M. P., Postma, L., Ferguson, S. H., Willerslev, E. & Lorenzen, E. D., 2020, In: Proceedings of the Royal Society B: Biological Sciences. 287, 1925, 9 p., 20192964.

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  41 Citations (Scopus)

• Interspecific Gene Flow and the Evolution of Specialization in Black and White Rhinoceros

  Moodley, Y., Westbury, M., Russo, I-R. M., Gopalakrishnan, S., Rakotoarivelo, A., Olsen, R-A., Prost, S., Tunstall, T., Ryder, O. A., Dalén, L. & Bruford, M. W., 2020, In: Molecular Biology and Evolution. 37, 11, p. 3105-3117 13 p.

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  18 Citations (Scopus)

• Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus

  Fotakis, A. K., Denham, S. D., Mackie, M., Orbegozo, M. I., Mylopotamitaki, D., Gopalakrishnan, S., Sicheritz-Pontén, T., Olsen, J. V., Cappellini, E., Zhang, G., Christophersen, A., Gilbert, M. T. P. & Vågene, Å. J., 2020, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 375, 1812, 10 p., 20190584.

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• Plasmodium vivax Malaria Viewed through the Lens of an Eradicated European Strain

  van Dorp, L., Gelabert, P., Rieux, A., de Manuel, M., de-Dios, T., Gopalakrishnan, S., Caroe, C., Sandoval-Velasco, M., Fregel, R., Olalde, I., Escosa, R., Aranda, C., Huijben, S., Mueller, I., Marques-Bonet, T., Balloux, F., Gilbert, M. T. P. & Lalueza-Fox, C., 2020, In: MOLECULAR BIOLOGY AND EVOLUTION . 37, 3, p. 773-785 13 p.

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• The evolutionary history of extinct and living lions

  de Manuel, M., Barnett, R., Sandoval-Velasco, M., Yamaguchi, N., Vieira, F. G., Mendoza, M. L. Z., Liu, S., Martin, M. D., Sinding, M-H. S., Mak, S. S. T., Caroe, C., Liu, S., Guo, C., Zheng, J., Zazula, G., Baryshnikov, G., Eizirik, E., Koepfli, K-P., Johnson, W. E., Antunes, A. & 9 others, Sicheritz-Ponten, T., Gopalakrishnan, S., Larson, G., Yang, H., O'Brien, S. J., Hansen, A. J., Zhang, G., Marques-Bonet, T. & Gilbert, M. T. P., 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 20, p. 10927-10934 8 p.

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• 2019

  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, S. & Schroeder, H., 2019, In: Nature Communications. 10, 10 p., 5520.

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• Contrasting dates of rainforest fragmentation in Africa inferred from trees with different dispersal abilities

  Pineiro, R., Hardy, O. J., Tovar, C., Gopalakrishnan, S., Vieira, F. G. & Gilbert, M. T. P., 2019, 19 p. (bioRxiv).

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