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The era of reference genomes in conservation genomics
Open accessAbstract
Progress in genome sequencing now enables the large-scale generation of reference genomes. Various international initiatives aim to generate reference genomes representing global biodiversity. These genomes provide unique insights into genomic diversity and architecture, thereby enabling comprehensive analyses of population and functional genomics, and are expected to revolutionize conservation genomics.
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“High-quality reference genome assemblies are increasingly recognized as an important foundation of conservation genomics84–91.”
From Chromosomal-level reference genome assembly of muskox (Ovibos moschatus) from Banks Island in the Canadian Arctic, a resource for conservation genomics (2024) · cites this paper as [89]
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Metadata
- Authors
- Formenti, G., Theissinger, K., Fernandes, C., Bista, I., Bombarely, A., Bleidorn, C., Ciofi, C., Crottini, A., Godoy, J. A., Höglund, J., Malukiewicz, J., Mouton, A., Oomen, R. A., Paez, S., Palsbøll, P. J., Pampoulie, C., Ruiz-López, M. J., Svardal, H., Theofanopoulou, C., de Vries, J., Waldvogel, A.-M., Zhang, G., Mazzoni, C. J., Jarvis, E. D., Bálint, M., Formenti, G., Theissinger, K., Fernandes, C., Bista, I., Bombarely, A., Bleidorn, C., Čiampor, F., Ciofi, C., Crottini, A., Godoy, J. A., Hoglund, J., Malukiewicz, J., Mouton, A., Oomen, R. A., Paez, S., Palsbøll, P., Pampoulie, C., Ruiz-López, M. J., Svardal, H., Theofanopoulou, C., de Vries, J., Waldvogel, A.-M., Zhang, G., Mazzoni, C. J., Jarvis, E., Bálint, M., Aghayan, S. A., Alioto, T. S., Almudi, I., Alvarez, N., Alves, P. C., Amorim, I. R., Antunes, A., Arribas, P., Baldrian, P., Berg, P. R., Bertorelle, G., Böhne, A., Bonisoli-Alquati, A., Boštjančić, L. L., Boussau, B., Breton, C. M., Buzan, E., Campos, P. F., Carreras, C., Castro, L. F., Chueca, L. J., Conti, E., Cook-Deegan, R., Croll, D., Cunha, M. V., Delsuc, F., Dennis, A. B., Dimitrov, D., Faria, R., Favre, A., Fedrigo, O. D., Fernández, R., Ficetola, G. F., Flot, J.-F., Gabaldón, T., Galea Agius, D. R., Gallo, G. R., Giani, A. M., Gilbert, M. T. P., Grebenc, T., Guschanski, K., Guyot, R., Hausdorf, B., Hawlitschek, O., Heintzman, P. D., Heinze, B., Hiller, M., Husemann, M., Iannucci, A., Irisarri, I., Jakobsen, K. S., Jentoft, S., Klinga, P., Kloch, A., Kratochwil, C. F., Kusche, H., Layton, K. K. S., Leonard, J. A., Lerat, E., Liti, G., Manousaki, T., Marques-Bonet, T., Matos-Maraví, P., Matschiner, M., Maumus, F., Mc Cartney, A. M., Meiri, S., Melo-Ferreira, J., Mengual, X., Monaghan, M. T., Montagna, M., Mysłajek, R. W., Neiber, M. T., Nicolas, V., Novo, M., Ozretić, P., Palero, F., Pârvulescu, L., Pascual, M., Paulo, O. S., Pavlek, M., Pegueroles, C., Pellissier, L., Pesole, G., Primmer, C. R., Riesgo, A., Rüber, L., Rubolini, D., Salvi, D., Seehausen, O., Seidel, M., Secomandi, S., Studer, B., Theodoridis, S., Thines, M., Urban, L., Vasemägi, A., Vella, A., Vella, N., Vernes, S. C., Vernesi, C., Vieites, D. R., Waterhouse, R. M., Wheat, C. W., Wörheide, G., Wurm, Y., & Zammit, G.
- Affiliations
- University of Copenhagen (DK)
- Center for Coastal Studies (US)
- University of Lisbon (PT)
- Consejo Superior de Investigaciones Científicas (ES)
- University of Liège (BE)
- Laboratoire de Biométrie et Biologie Evolutive (FR)
- Campus-Institut Data Science (CIDAS) (DE)
- University of Cambridge (GB)
- Rockefeller University (US)
- ORCID
- Zhang, Guojie
- Čiampor, Fedor
- Aghayan, Sargis A.
- Alioto, Tyler S.
- Alves, Paulo C.
- Amorim, Isabel R.
- Antunes, Agostinho
- Arribas, Paula
- Berg, Paul R.
- Bertorelle, Giorgio
- Böhne, Astrid
- Boštjančić, Ljudevit L.
- Boussau, Bastien
- Breton, Catherine M.
- Campos, Paula F.
- Carreras, Carlos
- Castro, L. FIlipe
- Chueca, Luis J.
- Conti, Elena
- Cook-Deegan, Robert
- Croll, Daniel
- Cunha, Mónica V.
- Delsuc, Frédéric
- Dennis, Alice B.
- Dimitrov, Dimitar
- Faria, Rui
- Favre, Adrien
- Fedrigo, Olivier D.
- Fernández, Rosa
- Ficetola, Gentile Francesco
- Flot, Jean-François
- Gabaldón, Toni
- Gallo, Guido R.
- Giani, Alice M.
- Gilbert, M. Thomas P.
- Grebenc, Tine
- Guschanski, Katerina
- Guyot, Romain
- Hausdorf, Bernhard
- Hawlitschek, Oliver
- Heintzman, Peter D.
- Heinze, Berthold
- Hiller, Michael
- Husemann, Martin
- Iannucci, Alessio
- Irisarri, Iker
- Jakobsen, Kjetill S.
- Jentoft, Sissel
- Klinga, Peter
- Kloch, Agnieszka
- Kratochwil, Claudius F.
- Kusche, Henrik
- Layton, Kara K.S.
- Leonard, Jennifer A.
- Lerat, Emmanuelle
- Liti, Gianni
- Manousaki, Tereza
- Matschiner, Michael
- Maumus, Florian
- Meiri, Shai
- Mengual, Ximo
- Monaghan, Michael T.
- Montagna, Matteo
- Mysłajek, Robert W.
- Neiber, Marco T.
- Nicolas, Violaine
- Novo, Marta
- Ozretić, Petar
- Palero, Ferran
- Pârvulescu, Lucian
- Pascual, Marta
- Paulo, Octávio S.
- Pavlek, Martina
- Pegueroles, Cinta
- Pellissier, Loïc
- Pesole, Graziano
- Primmer, Craig R.
- Riesgo, Ana
- Rüber, Lukas
- Rubolini, Diego
- Salvi, Daniele
- Seidel, Matthias
- Secomandi, Simona
- Studer, Bruno
- Theodoridis, Spyros
- Thines, Marco
- Urban, Lara
- Vasemägi, Anti
- Vella, Adriana
- Vella, Noel
- Vernes, Sonja C.
- Vernesi, Cristiano
- Vieites, David R.
- Waterhouse, Robert M.
- Wheat, Christopher W.
- Wörheide, Gert
- Wurm, Yannick
- Zammit, Gabrielle
- Venue
- Trends in Ecology & Evolution
- Publisher
- Elsevier BV
- Published
- 2022-03
- Volume
- 37
- Issue
- 3
- Pages
- 197-202
- ISSN
- 0169-5347 (ISSN-L)
- PMC
- PMC13065249
- OpenAlex
- W4207054657
- Cited by
- 340
- References
- 14
- Citations by year
- 2026: 52 · 2025: 69 · 2024: 112 · 2023: 77 · 2022: 28
- FWCI
- 23.72
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
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- Trends in Ecology & Evolution (publishedVersion, cc-by)
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- ETH Zürich Research Collection
- Zurich Open Repository and Archive (University of Zurich)
- Funders
- Howard Hughes Medical Institute
- Arizona State University
- Institute for Research in Biomedicine
- Helsingin Yliopisto
- University of Otago
- Villum Fonden (00025900)
- University of Bern
- Queen Mary University of London
- Università degli Studi di Milano
- Institut de Recherche pour le Développement
- Fondazione Edmund Mach
- Universitat Pompeu Fabra
- University of St Andrews
- University of Edinburgh
- University of Aberdeen
- Institut National de la Santé et de la Recherche Médicale
- Universidad Complutense de Madrid
- Eidgenössische Technische Hochschule Zürich
- Euskal Herriko Unibertsitatea
- Institució Catalana de Recerca i Estudis Avançats
- Universität Potsdam
- Akademie Věd České Republiky
- Sveriges Lantbruksuniversitet
- Tel Aviv University
- Università degli Studi di Firenze
- Consiglio Nazionale delle Ricerche
- Centre National de la Recherche Scientifique (UMR 5558)
- Universitetet i Bergen
- Université de Neuchâtel
- Universitetet i Oslo
- Ludwig-Maximilians-Universität München
- Universidade de Lisboa
- Universitat de Barcelona
- Università degli Studi dell'Aquila
- Université de Lausanne
- Uniwersytet Warszawski
- Universität Zürich
- Universidade do Porto
- Uppsala Universitet
- Université Paris-Saclay
- Institut Ruđer Bošković
- Muséum National d'Histoire Naturelle
- Freie Universität Berlin
- Eesti Maaülikool
- Université de Montpellier
- Stockholms Universitet
- Senckenberg Biodiversität und Klima Forschungszentrum
- Université de Lyon
- Swiss Federal Institute for Forest, Snow and Landscape Research
- Centro Interdisciplinar de Investigação Marinha e Ambiental
- Sorbonne Université
- Nature
- Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
- Max Planck Instituut voor Psycholinguïstiek
- Directorate for Biological Sciences
- Weill Cornell Medical College
- Helsinki Institute of Life Science, Helsingin Yliopisto
- Biotechnology and Biological Sciences Research Council (BB/T015683/1)
- Leibniz-Gemeinschaft
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
- Keywords
- reference genome, conservation genomics, genome sequencing, genomic diversity, population genomics, functional genomics, biodiversity, genome organization
- MeSH terms
- Genome, Genomics, Biodiversity
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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