Review
doi: 10.1016/j.tig.2023.01.005.
Epub 2023 Feb 16.
How genomics can help biodiversity conservation
Kathrin Theissinger
1
, Carlos Fernandes
2
, Giulio Formenti
3
, Iliana Bista
4
, Paul R Berg
5
, Christoph Bleidorn
6
, Aureliano Bombarely
7
, Angelica Crottini
8
, Guido R Gallo
9
, José A Godoy
10
, Sissel Jentoft
11
, Joanna Malukiewicz
12
, Alice Mouton
13
, Rebekah A Oomen
14
, Sadye Paez
3
, Per J Palsbøll
15
, Christophe Pampoulie
16
, María J Ruiz-López
17
, Simona Secomandi
9
, Hannes Svardal
18
, Constantina Theofanopoulou
19
, Jan de Vries
20
, Ann-Marie Waldvogel
21
, Guojie Zhang
22
, Erich D Jarvis
3
, Miklós Bálint
1
, Claudio Ciofi
23
, Robert M Waterhouse
24
, Camila J Mazzoni
25
, Jacob Höglund
26
; European Reference Genome Atlas Consortium
Collaborators,
Affiliations
Collaborators
-
European Reference Genome Atlas Consortium:
Sargis A Aghayan 27 , Tyler S Alioto 28 , Isabel Almudi 29 , Nadir Alvarez 30 , Paulo C Alves 31 , Isabel R Amorim do Rosario 32 , Agostinho Antunes 33 , Paula Arribas 34 , Petr Baldrian 35 , Giorgio Bertorelle 36 , Astrid Böhne 37 , Andrea Bonisoli-Alquati 38 , Ljudevit L Boštjančić 39 , Bastien Boussau 40 , Catherine M Breton 41 , Elena Buzan 42 , Paula F Campos 43 , Carlos Carreras 29 , L FIlipe C Castro 44 , Luis J Chueca 45 , Fedor Čiampor 46 , Elena Conti 47 , Robert Cook-Deegan 48 , Daniel Croll 49 , Mónica V Cunha 50 , Frédéric Delsuc 51 , Alice B Dennis 52 , Dimitar Dimitrov 53 , Rui Faria 54 , Adrien Favre 55 , Olivier D Fedrigo 56 , Rosa Fernández 57 , Gentile Francesco Ficetola 58 , Jean-François Flot 59 , Toni Gabaldón 60 , Dolores R Agius 61 , Alice M Giani 62 , M Thomas P Gilbert 63 , Tine Grebenc 64 , Katerina Guschanski 65 , Romain Guyot 66 , Bernhard Hausdorf 67 , Oliver Hawlitschek 67 , Peter D Heintzman 68 , Berthold Heinze 69 , Michael Hiller 70 , Martin Husemann 67 , Alessio Iannucci 71 , Iker Irisarri 67 , Kjetill S Jakobsen 72 , Peter Klinga 73 , Agnieszka Kloch 74 , Claudius F Kratochwil 75 , Henrik Kusche 76 , Kara K S Layton 77 , Jennifer A Leonard 78 , Emmanuelle Lerat 79 , Gianni Liti 80 , Tereza Manousaki 81 , Tomas Marques-Bonet 82 , Pável Matos-Maraví 83 , Michael Matschiner 84 , Florian Maumus 85 , Ann M Mc Cartney 86 , Shai Meiri 87 , José Melo-Ferreira 88 , Ximo Mengual 89 , Michael T Monaghan 90 , Matteo Montagna 91 , Robert W Mysłajek 92 , Marco T Neiber 93 , Violaine Nicolas 94 , Marta Novo 95 , Petar Ozretić 96 , Ferran Palero 97 , Lucian Pârvulescu 98 , Marta Pascual 29 , Octávio S Paulo 99 , Martina Pavlek 100 , Cinta Pegueroles 29 , Loïc Pellissier 101 , Graziano Pesole 102 , Craig R Primmer 103 , Ana Riesgo 104 , Lukas Rüber 105 , Diego Rubolini 106 , Daniele Salvi 107 , Ole Seehausen 108 , Matthias Seidel 109 , Bruno Studer 110 , Spyros Theodoridis 111 , Marco Thines 112 , Lara Urban 113 , Anti Vasemägi 114 , Adriana Vella 115 , Noel Vella 116 , Sonja C Vernes 117 , Cristiano Vernesi 118 , David R Vieites 119 , Christopher W Wheat 120 , Gert Wörheide 121 , Yannick Wurm 122 , Gabrielle Zammit 123
Affiliations
- 1 LOEWE Centre for Translational Biodiversity Genomics, Senckenberg Biodiversity and Climate Research Centre, Georg-Voigt-Str. 14-16, 60325 Frankfurt/Main, Germany.
- 2 CE3C - Centre for Ecology, Evolution and Environmental Changes & CHANGE - Global Change and Sustainability Institute, Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal; Faculdade de Psicologia, Universidade de Lisboa, Alameda da Universidade, 1649-013 Lisboa, Portugal.
- 3 The Rockefeller University, 1230 York Ave, New York, NY 10065, USA.
- 4 Naturalis Biodiversity Center, Darwinweg 2, 2333, CR, Leiden, The Netherlands; Wellcome Sanger Institute, Tree of Life, Wellcome Genome Campus, Hinxton, CB10 1SA, UK.
- 5 NIVA - Norwegian Institute for Water Research, Økernveien, 94, 0579 Oslo, Norway; Centre for Coastal Research, University of Agder, Gimlemoen 25j, 4630 Kristiansand, Norway; Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 6 University of Göttingen, Department of Animal Evolution and Biodiversity, Untere Karspüle, 2, 37073, Göttingen, Germany.
- 7 Universita degli Studi di Milano, Via Celoria 26, 20133, Milan, Italy.
- 8 CIBIO/InBio, Centro de Investigação em Biodiversidade e Recursos Genéticos, Rua Padre Armando Quintas, 7, 4485-661, Portugal; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661 Vairão, Portugal.
- 9 Department of Biosciences, University of Milan, Milan, Italy.
- 10 Estación Biológica de Doñana, CSIC, Calle Americo Vespucio 26, 41092, Sevillle, Spain.
- 11 Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 12 Primate Genetics Laborator, German Primate Center, Kellnerweg 4, 37077, Göttingen, Germany.
- 13 InBios - Conservation Genetics Lab, University of Liege, Chemin de la Vallée 4, 4000, Liege, Belgium.
- 14 Centre for Coastal Research, University of Agder, Gimlemoen 25j, 4630 Kristiansand, Norway; Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 15 Groningen Institute of Evolutionary Life Sciences, University of Groningen, Nijenborgh, 9747, AG, Groningen, The Netherlands; Center for Coastal Studies, 5 Holway Avenue, Provincetown, MA 02657, USA.
- 16 Marine and Freshwater Research Institute, Fornubúðir, 5,220, Hanafjörður, Iceland.
- 17 Estación Biológica de Doñana, CSIC, Calle Americo Vespucio 26, 41092, Sevillle, Spain; CIBER de Epidemiología y Salud Pública (CIBERESP), Spain.
- 18 Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Antwerp, Belgium.
- 19 The Rockefeller University, 1230 York Ave, New York, NY 10065, USA; Hunter College, City University of New York, NY, USA.
- 20 University of Goettingen, Institute for Microbiology and Genetics, Department of Applied Bioinformatics, Goettingen Center for Molecular Biosciences (GZMB), Campus Institute Data Science (CIDAS), Goldschmidtstr. 1, 37077, Goettingen, Germany.
- 21 Institute of Zoology, University of Cologne, Zülpicherstrasse 47b, D-50674, Cologne, Germany.
- 22 Evolutionary & Organismal Biology Research Center, Zhejiang University School of Medicine, Hangzhou, 310058, China; Villum Center for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Denmark; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China.
- 23 University of Florence, Department of Biology, Via Madonna del Piano 6, Sesto Fiorentino, (FI) 50019, Italy.
- 24 University of Lausanne, Department of Ecology and Evolution, Le Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland; Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.
- 25 Leibniz Institute for Zoo and Wildlife Research (IZW), Alfred-Kowalke-Str 17, 10315 Berlin, Germany; Berlin Center for Genomics in Biodiversity Research (BeGenDiv), Koenigin-Luise-Str 6-8, 14195 Berlin, Germany.
- 26 Department of Ecology and Genetics, Uppsala University, Norbyvägen 18D, 75246, Uppsala, Sweden. Electronic address: jacob.hoglund@ebc.uu.se.
- 27 Chair of Zoology, Yerevan State University 1 Alex Manoogian, Yerevan, 0025, Republic of Armenia Scientific Center of Zoology and Hydroecology, NAS, RA.
- 28 CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST) Baldiri i Reixac 4, 08028 Barcelona, Spain.
- 29 Department of Genetics, Microbiology and Statistics and IRBio, Universitat de Barcelona, Av. Diagonal 643, 08028 Barcelona, Spain.
- 30 Geneva Natural History Museum 1 route de Malagnou, 1208 Geneva, Switzerland; University of Geneva Department of Genetics & Evolution, University of Geneva, 4 Boulevard d'Yvoy, 1205 Geneva, Switzerland.
- 31 CIBIO/InBIO, BIOPOLIS Program in Genomics, Biodiversity and Land Planning, University of Porto Campus of Vairão, 4485-661, Vila do Conde, Portugal; Dep Biology, Faculty of Sciences, University of Porto R Campo Alegre, s/n, 4169-007 Porto, Portugal; EBM, Estação Biológica de Mértola Praça Luís de Camões, Mértola, 7750-329, Mértola, Portugal.
- 32 cE3c- Centre for Ecology, Evolution and Environmental Changes, Azorean Biodiversity Group, CHANGE - Global Change and Sustainability Institute, and University of the Azores Rua Capitão João d´Ávila, Pico da Urze, 9700-042, Angra do Heroísmo, Portugal.
- 33 CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos, s/n, 4450-208 Porto, Portugal; Department of Biology, Faculty of Sciences, University of Porto Rua do Campo Alegre, s/n, 4169-007 Porto, Portugal.
- 34 Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) S.C. La Laguna, Spain, 38206.
- 35 Institute of Microbiology of the Czech Academy of Sciences Videnska 1083, Praha 4, Czech Republic, 14220.
- 36 Department of Life Sciences and Biotechnology 46, via Borsari, Ferrara, Italy, 44121.
- 37 Centre for Molecular Biodiversity Research, Leibniz Institute for the Analysis of Biodiveristy Change, Museum Koenig Bonn Adenauerallee 127, 53113 Bonn, Germany.
- 38 California State Polytechnic University, Pomona 3801 W Temple Avenue, Pomona, CA, USA, 91767.
- 39 LOEWE Centre for Translational Biodiversity Genomics, Senckenberg Biodiversity and Climate Research Centre Georg-Voigt-Str. 14-16, 60325 Frankfurt/Main, Germany.
- 40 UMR5558, CNRS, Université Lyon 1, Université de Lyon Bât. Grégor Mendel, 43 bd du 11 novembre 1918, VILLEURBANNE, France 69622.
- 41 Alliance Bioiversity CIAT Europe - Montpellier Office, Bioversity International France, Parc Scientifique Agropolis II, 34397 Montpellier Cedex 5, | France; French Institute of Bioinformatics (IFB)-South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD, F-34398 Montpellier, France.
- 42 University of Primorska, Faculty of Mathematics, Natural Sciences and Information Technologies Glagoljaška 8, 6000 Koper, Slovenia Environmental Protection College Trg mladosti 7, 3320 Velenje, Slovenia.
- 43 CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, Matosinhos, Portugal, 4450-208.
- 44 Interdisciplinary Centre of Marine and Environmental Research, Avenida General Norton de Matos, S/N, Matosinhos, Portugal, 4450-208; Faculty of Sciences University of Porto Rua Campo Alegre s/n, Porto, Portugal 4169-007.
- 45 University of the Basque Country (UPV/EHU), Department of Genetics, Physical Anthropology and Animal Physiology Barrio Sarriena s/n, 48940, Leioa, (Spain).
- 46 Plant Science and Biodiversity Centre, Slovak Academy of Science Dúbravská cesta 9, 845 23, Bratislava.
- 47 University of Zurich, Department of Systematic and Evolutionary Botany 107 Zollikerstrasse, Zurich, Switzerland, 8008.
- 48 Arizona State University 1800 I (Eye) Street, NW, Washington, DC 20006.
- 49 University of Neuchatel 11, Emile-Argand, Neuchatel, Switzerland, CH-2000.
- 50 Centre for Ecology, Evolution and Environmental Changes (CE3C) Campus da Faculdade de Ciências da Universidade de Lisboa, C2 Building, Campo Grande, 1749-016 Lisboa, Portugal; BioISI- Biosystems and Integrative Sciences Institute Campus da Faculdade de Ciências da Universidade de Lisboa, Teclabs Building, Campo Grande, 1749-016 Lisboa, Portugal.
- 51 Institut des Sciences de l'Evolution de Montpellier (ISEM), CNRS, IRD, EPHE, Université de Montpellier Place Eugène Bataillon, 34095 Montpellier, France.
- 52 University of Namur URBE, Department of Biology, Université de Namur, Rue de Bruxelles 61, 5000 Namur, Belgium.
- 53 Department of Natural History, University Museum of Bergen, University of Bergen, P.O. Box 7800, 5020 Bergen.
- 54 CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, 4485-661, Portugal; Campus Agrário de Vairão, Rua Padre Armando Quintas N7, 4485-661 Vairão, Portugal; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, Universidade do Porto, Vairão, 4485-661, Portugal.
- 55 Regional Nature Park of the Trient Valley La Place 24, 1922 Salvan, Switzerland.
- 56 The Rockefeller University 1230 York Avenue, New York, NY 10065, USA.
- 57 Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra) 37-49 Passeig marítim de la Barceloneta, Barcelona, Spain, 08003.
- 58 Università degli Studi di Milano Via Celoria 10, 20133, Milano, Italy; Univ. Grenoble-Alpes F-38000, Grenoble, France.
- 59 Université libre de Bruxelles (ULB) C.P. 160/12, Avenue F.D. Roosevelt 50, 1050 Brussels, Belgium.
- 60 Barcelona Supercomputing Centre (BSC-CNS) Jordi Girona, 29. 08034, Barcelona, Spain; Institute for Research in Biomedicine (IRB) Carrer de Baldiri Reixac, 10, 08028 Barcelona, Spain; Catalan Institution for Research and Advanced Studies (ICREA) Passeig Lluís Companys 23 08010, Barcelona, Spain.
- 61 Ġ.F. Abela Junior College Department of Biology, Ġuzè Debono Square, Msida, Malta Centre of Molecular Medicine and Biobanking University of Malta, Msida, Malta.
- 62 Weill Cornell Medicine 1300 York Ave, New York, NY 10065, USA.
- 63 Center for Evolutionary Hologenomics, The GLOBE Institute, The University of Copenhagen 5A, Oester Farimagsgade, Copenhagen, Denmark, 1353; University Museum, NTNU 47B, Erling Skakkes gate, Trondheim, Norway.
- 64 Slovenian Forestry Institute Večna pot 2, SI-1000 Ljubljana, Slovenia.
- 65 The University of Edinburgh, Institute of Evolutionary Biology, School of Biological Sciences Ash worth Laboratories, Charlotte Auerbach Road, Edinburgh, EH9 3FL, UK; Uppsala University, Department of Ecology and Genetics/Animal Ecology Norbyvägen 18D, SE-752 36 Uppsala, Sweden.
- 66 Institut de Recherche pour le Développement 911, ave Agropolis, Montpellier, France, 34394.
- 67 Leibniz Institute for the Analysis of Biodiversity Change (LIB) Martin-Luther-King-Platz 3, 20146 Hamburg, Germany.
- 68 The Arctic University Museum of Norway, UiT - The Arctic University of Norway P.O. Box 6050, Langnes, Tromsø, Norway, N-9037; Centre for Palaeogenetics Svante Arrhenius väg 20C, SE-10691 Stockholm, Sweden; Stockholm University, Department of Geological Sciences, SE-10691, Stockholm, Sweden.
- 69 Austrian Research Centre for Forests (BFW) 8, Seckendorff-Gudent Weg, Vienna, Austria, 1130.
- 70 LOEWE Centre for Translational Biodiversity Genomics Senckenberganlage 25, 60325 Frankfurt; Senckenberg Society for Nature Research Senckenberganlage 25, 60325 Frankfurt; Goethe-University, Faculty of Biosciences Max-von-Laue-Str. 9, 60438 Frankfurt.
- 71 University of Florence Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, (FI) 50019, Italy.
- 72 Centre for Ecological and Evolutionary Synthesis (CEES), Dept. Of Biosciences, University of Oslo, NORWAY PO Box 1066 Blindern, NO-0316 Oslo, NORWAY.
- 73 Technical University in Zvolen, Faculty of Forestry, Department of Phytology 24, T.G. Masaryka, Zvolen, 960 01, Slovak Republic; DIANA - Carpathian Wildlife Research 47, Mládežnícka, Banská Bystrica, 974 04, Slovak Republic.
- 74 Institute of Functional Biology and Ecology, Department of Ecology, Univeristy of Warsaw, Faculty of Biology Ilii, Miecznikowa 1, 02-096 Warszawa, Poland.
- 75 Institute of Biotechnology, HiLIFE, University of Helsinki 1, Viikinkaari, Helsinki, Finland, 00790.
- 76 Center of Natural History (CeNak), Universität Hamburg Martin-Luther-King-Platz 3, 20146 Hamburg, Germany; Ministry of Science, Research, Equality and Districts, Hamburg, Hamburg, Germany.
- 77 University of Aberdeen, Zoology Building, Tillydrone Ave, University of Aberdeen, Aberdeen, UK, AB24 2TZ.
- 78 Estación Biológica de Doñana; CSIC Calle Americo Vespucio 26, 41092, Seville, Spain.
- 79 Université de Lyon, Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive, UMR 5558 Bat. Mendel, 43 bd du 11 novembre 1918, 69622 Villeurbanne cedex, France.
- 80 Université Côte d'Azur, CNRS, INSERM, IRCAN 28 Avenue de Valombrose, 06107 NICE Cedex 2, France.
- 81 Hellenic Centre for Marine Research (HCMR), Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC) Former U.S. Base of Gournes, P.O. Box 2214, 71003, Heraklion, Crete, Greece.
- 82 CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST) Baldiri i Reixac 4, 08028 Barcelona, Spain; Institute of Evolutionary Biology (UPF-CSIC), PRBB Dr. Aiguader 88, 08003 Catalan Institution of Research and Advanced Studies (ICREA) Passeig de Lluís Companys, 23, 08010, Barcelona, Spain.
- 83 Biology Centre of the Czech Academy of Sciences, Institute of Entomology Branišovská 1160/31, 37005 České Budějovice, Czech Republic.
- 84 University of Oslo 1, Sars' gate, Oslo, Norway, 0562.
- 85 Université Paris-Saclay Université Paris-Saclay, INRAE, URGI, 78026, Versailles, France.
- 86 Genomics Institute, University of California Santa Cruz Santa Cruz, CA, 95060.
- 87 Tel Aviv University, School of Zoology, the Steinhardt Museum of Natural History 12 Klausner street, Tel Aviv, Israel 6997801.
- 88 CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Universidade do Porto 7, Rua Padre Armando Quintas, Vairão, Portugal, 4485-661; Departamento de Biologia, Faculdade de Ciências da Universidade do Porto s/n, Rua do Campo Alegre, Porto, Portugal, 4169-007; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO Campus de Vairão, 4485-661 Vairão, Portugal.
- 89 Centre for Taxonomy and Morphology, Koenig Museum, Leibniz Institute for Animal Biodiversity Adenauerallee 127, 53113 Bonn, Germany.
- 90 Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB) 301, Müggelseedamm, Berlin, Germany, 12587; Institut für Biologie, Freie Universität Berlin 2-4, Königin-Luise-Str., Berlin, Germany, 12489.
- 91 Dipartimento di Agraria - Università degli Studi di Napoli Federico II 100, Via Università, Portici, Italy, I-80055; BAT Center - Interuniversity Center for Studies on Bioinspired Agro-Environmental Technology, University of Napoli Federico II 100, Via Università, Portici, Italy, I-80055.
- 92 University of Warsaw, Faculty of Biology, Institute of Functional Biology and Ecology, Department of Ecology Biological and Chemical Research Centre, 101 Zwirki i Wigury, Warszawa, Poland, 02-089.
- 93 Center of Natural History (CeNak), Universität Hamburg Martin-Luther-King-Platz 3, 20146 Hamburg, Germany.
- 94 Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles CP51, 57 rue Cuvier, 75005 Paris, France.
- 95 Complutense University of Madrid José Antonio Nováis, 12, Madrid, Spain, 28040.
- 96 Ruđer Bošković Institute 54, Bijenička Road, Zagreb, Croatia, HR-10000.
- 97 Institut Cavanilles de Biodiversitat i Biologia Evolutiva (ICBIBE), Universitat de Valencia Carrer del Catedrátic José Beltrán Martinez 2, 46980 Paterna, Spain.
- 98 Department of Biology-Chemistry, Faculty of Chemistry, Biology, Geography, West University of Timisoara 16A Pestalozzi St., Timisoara, Romania, 300115; Environmental Advanced Research Institute, West University of Timisoara Vasile Pârvan 4 Bd., Timisoara, Romania, 300223.
- 99 cE3c - Centre for Ecology, Evolution and Environmental Changes Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, P-1749-016 Lisboa.
- 100 Ruder Boskovic Institute Bijenička cesta 54, Zagreb 10000, Croatia Croatian Biospeleological Society Rooseveltov trg 6, Zagreb, Croatia, 10000.
- 101 ETH Zürich Ecosystems and Landscape Evolution, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland; Swiss Federal Institute for Forest Snow and Landscape Research WSL Unit of Land Change Science, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland.
- 102 Department of Biosciences, Biotechnologies and Biopharmaceutics, University of Bari "A. Moro" Campus "E. Quagliariello", voa Orabona, 4, 70126 Bari; Institute of Biomembranes, Bioenergetics and Molecular Biotechnologies, Consiglio Nazionale delle Ricerche Campus "E. Quagliariello", voa Orabona, 4, 70126 Bari; Consorzio Interuniversitario Bioteconologie via Flavia, 23/1, 34148 Trieste.
- 103 Organismal and Evolutionary Biology Research Program, University of Helsinki, PO Box 56, 00014, University of Helsinki, FINLAND; Institute of Biotechnology (HiLIFE), University of Helsinki, PO Box 56, 00014, University of Helsinki, FINLAND.
- 104 Museo Nacional de Ciencias Naturales - CSIC C/ José Gutiérrez Abascal, 2, Madrid, 28028, Spain; Natural History Museum of London Cromwell Road, SW7 5BD, London, UK.
- 105 Naturhistorisches Museum Bern 15 Bernastrasse, Bern, Switzerland, 3005; Aquatic Ecology and Evolution, Institute of Ecology and Evolution, University of Bern 6 Balzerstrasse, Bern, Switzerland, 3012.
- 106 Dipartimento di Scienze e Politiche Ambientali, Università degli Studi di Milano Via Celoria 26, Milano, Italy, I-20133.
- 107 Department of Health, Life & Environmental Sciences - University of L'Aquila Via Vetoio snc, 67100 L'Aquila-Coppito, Italy.
- 108 Institute of Ecology and Evolution, University of Bern Baltzerstrasse 6, 3012 Bern, Switzerland; Swiss Federal Institute for Aquatic Science & Technology Seestrasse 79, 6047 Kastanienbaum, Switzerland.
- 109 Zweite Zoologische Abteilung, Naturhistorisches Museum Wien Burgring 7, 1010 Wien.
- 110 Molecular Plant Breeding, Institute of Agricultural Sciences, ETH Zurich Universitaetstrasse 2, 8092 Zurich, Switzerland.
- 111 Senckenberg Biodiversität und Klima Forschungszentrum: Frankfurt, DE, 25 Senckenberganlage, Frankfurt am Main, Germany, 60325.
- 112 Goethe University, Institute of Ecology, Evolution and Diversity Max-von-Laue-Str. 13, Frankfurt am Main, 60438, Germany; Senckenberg Biodiversity and Climate Research Centre (SBiK-F) Senckenberganlage 25, Frankfurt am Main, 60325, Germany; LOEWE Translational Biodiversity Genomics Georg-Voigt-Str. 14-16, Frankfurt am Main, 60325, Germany.
- 113 Helmholtz Pioneer Campus & Helmholtz AI Ingolstädter Landstraße 1, 85764, München, Germany.
- 114 Department of Aquatic Resources, Swedish University of Agricultural Sciences 2, Stångholmsvägen, Drottningholm, Sweden, 178 93; Chair of Aquaculture, Institute of Veterinary Medicine and Animal, Estonian Uiversity of Life Sciences 56A, Kreutzwaldi, Tartu, Estonia, 51006.
- 115 Conservation Biology Research Group, University of Malta Taq-Qroqq, Msida, MSD2080, MALTA.
- 116 Conservation Biology Research Group, University of Malta, Msida, MSD2080, Malta.
- 117 School of Biology, The University of St Andrews St Andrews, Fife, UK, Max Planck Institute for Psycholinguistics Wundtlaan 1, Nijmegen, The Netherlands.
- 118 Forest Ecology and Biogeochemical Fluxes Unit, Research and Innovation Centre-Fondazione Edmund Mach 1, via Edmund Mach, San Michele all'Adige, Italy, 38010.
- 119 Museo Nacional de Ciencias Naturales -CSIC Calle José Gutierrez Abascal 2, 28006, Madrid.
- 120 Department of Zoology, Stockholm University 18B, Svante Arrheniusväg, Stockholm, Sweden, S-10691.
- 121 Ludwig-Maximilians-Universität München, Dept. of Earth and Environmental Sciences, Paleontology & Geobiology Richard-Wagner-Str. 10, Munich, Germany, 80333; Ludwig-Maximilians-Universität München, GeoBio-Center Richard-Wagner-Str. 10, Munich, Germany, 80333; SNSB -, Bavarian, State Collections for Palaeontology and Geology Richard-Wagner-Str. 10, Munich, Germany, 80333.
- 122 Queen Mary University of London Mile End Road, London, United Kingdom, E1 4NS Alan Turing Institute London, United Kingdom, NW1 2DB.
- 123 Department of Biology, University of Malta Biomedical Sciences Building, MSD2080, Msida, Malta; Centre for Molecular Medicine and Biobanking Biomedical Sciences Building, MSD2080, Msida, Malta.
- PMID: 36801111
- DOI: 10.1016/j.tig.2023.01.005
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Review
How genomics can help biodiversity conservation
Kathrin Theissinger et al.
Trends Genet.
2023 Jul.
Free article
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Format
doi: 10.1016/j.tig.2023.01.005.
Epub 2023 Feb 16.
Authors
Kathrin Theissinger
1
, Carlos Fernandes
2
, Giulio Formenti
3
, Iliana Bista
4
, Paul R Berg
5
, Christoph Bleidorn
6
, Aureliano Bombarely
7
, Angelica Crottini
8
, Guido R Gallo
9
, José A Godoy
10
, Sissel Jentoft
11
, Joanna Malukiewicz
12
, Alice Mouton
13
, Rebekah A Oomen
14
, Sadye Paez
3
, Per J Palsbøll
15
, Christophe Pampoulie
16
, María J Ruiz-López
17
, Simona Secomandi
9
, Hannes Svardal
18
, Constantina Theofanopoulou
19
, Jan de Vries
20
, Ann-Marie Waldvogel
21
, Guojie Zhang
22
, Erich D Jarvis
3
, Miklós Bálint
1
, Claudio Ciofi
23
, Robert M Waterhouse
24
, Camila J Mazzoni
25
, Jacob Höglund
26
; European Reference Genome Atlas Consortium
Collaborators
-
European Reference Genome Atlas Consortium:
Sargis A Aghayan 27 , Tyler S Alioto 28 , Isabel Almudi 29 , Nadir Alvarez 30 , Paulo C Alves 31 , Isabel R Amorim do Rosario 32 , Agostinho Antunes 33 , Paula Arribas 34 , Petr Baldrian 35 , Giorgio Bertorelle 36 , Astrid Böhne 37 , Andrea Bonisoli-Alquati 38 , Ljudevit L Boštjančić 39 , Bastien Boussau 40 , Catherine M Breton 41 , Elena Buzan 42 , Paula F Campos 43 , Carlos Carreras 29 , L FIlipe C Castro 44 , Luis J Chueca 45 , Fedor Čiampor 46 , Elena Conti 47 , Robert Cook-Deegan 48 , Daniel Croll 49 , Mónica V Cunha 50 , Frédéric Delsuc 51 , Alice B Dennis 52 , Dimitar Dimitrov 53 , Rui Faria 54 , Adrien Favre 55 , Olivier D Fedrigo 56 , Rosa Fernández 57 , Gentile Francesco Ficetola 58 , Jean-François Flot 59 , Toni Gabaldón 60 , Dolores R Agius 61 , Alice M Giani 62 , M Thomas P Gilbert 63 , Tine Grebenc 64 , Katerina Guschanski 65 , Romain Guyot 66 , Bernhard Hausdorf 67 , Oliver Hawlitschek 67 , Peter D Heintzman 68 , Berthold Heinze 69 , Michael Hiller 70 , Martin Husemann 67 , Alessio Iannucci 71 , Iker Irisarri 67 , Kjetill S Jakobsen 72 , Peter Klinga 73 , Agnieszka Kloch 74 , Claudius F Kratochwil 75 , Henrik Kusche 76 , Kara K S Layton 77 , Jennifer A Leonard 78 , Emmanuelle Lerat 79 , Gianni Liti 80 , Tereza Manousaki 81 , Tomas Marques-Bonet 82 , Pável Matos-Maraví 83 , Michael Matschiner 84 , Florian Maumus 85 , Ann M Mc Cartney 86 , Shai Meiri 87 , José Melo-Ferreira 88 , Ximo Mengual 89 , Michael T Monaghan 90 , Matteo Montagna 91 , Robert W Mysłajek 92 , Marco T Neiber 93 , Violaine Nicolas 94 , Marta Novo 95 , Petar Ozretić 96 , Ferran Palero 97 , Lucian Pârvulescu 98 , Marta Pascual 29 , Octávio S Paulo 99 , Martina Pavlek 100 , Cinta Pegueroles 29 , Loïc Pellissier 101 , Graziano Pesole 102 , Craig R Primmer 103 , Ana Riesgo 104 , Lukas Rüber 105 , Diego Rubolini 106 , Daniele Salvi 107 , Ole Seehausen 108 , Matthias Seidel 109 , Bruno Studer 110 , Spyros Theodoridis 111 , Marco Thines 112 , Lara Urban 113 , Anti Vasemägi 114 , Adriana Vella 115 , Noel Vella 116 , Sonja C Vernes 117 , Cristiano Vernesi 118 , David R Vieites 119 , Christopher W Wheat 120 , Gert Wörheide 121 , Yannick Wurm 122 , Gabrielle Zammit 123
Affiliations
- 1 LOEWE Centre for Translational Biodiversity Genomics, Senckenberg Biodiversity and Climate Research Centre, Georg-Voigt-Str. 14-16, 60325 Frankfurt/Main, Germany.
- 2 CE3C - Centre for Ecology, Evolution and Environmental Changes & CHANGE - Global Change and Sustainability Institute, Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal; Faculdade de Psicologia, Universidade de Lisboa, Alameda da Universidade, 1649-013 Lisboa, Portugal.
- 3 The Rockefeller University, 1230 York Ave, New York, NY 10065, USA.
- 4 Naturalis Biodiversity Center, Darwinweg 2, 2333, CR, Leiden, The Netherlands; Wellcome Sanger Institute, Tree of Life, Wellcome Genome Campus, Hinxton, CB10 1SA, UK.
- 5 NIVA - Norwegian Institute for Water Research, Økernveien, 94, 0579 Oslo, Norway; Centre for Coastal Research, University of Agder, Gimlemoen 25j, 4630 Kristiansand, Norway; Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 6 University of Göttingen, Department of Animal Evolution and Biodiversity, Untere Karspüle, 2, 37073, Göttingen, Germany.
- 7 Universita degli Studi di Milano, Via Celoria 26, 20133, Milan, Italy.
- 8 CIBIO/InBio, Centro de Investigação em Biodiversidade e Recursos Genéticos, Rua Padre Armando Quintas, 7, 4485-661, Portugal; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661 Vairão, Portugal.
- 9 Department of Biosciences, University of Milan, Milan, Italy.
- 10 Estación Biológica de Doñana, CSIC, Calle Americo Vespucio 26, 41092, Sevillle, Spain.
- 11 Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 12 Primate Genetics Laborator, German Primate Center, Kellnerweg 4, 37077, Göttingen, Germany.
- 13 InBios - Conservation Genetics Lab, University of Liege, Chemin de la Vallée 4, 4000, Liege, Belgium.
- 14 Centre for Coastal Research, University of Agder, Gimlemoen 25j, 4630 Kristiansand, Norway; Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO BOX 1066 Blinderm, 0316 Oslo, Norway.
- 15 Groningen Institute of Evolutionary Life Sciences, University of Groningen, Nijenborgh, 9747, AG, Groningen, The Netherlands; Center for Coastal Studies, 5 Holway Avenue, Provincetown, MA 02657, USA.
- 16 Marine and Freshwater Research Institute, Fornubúðir, 5,220, Hanafjörður, Iceland.
- 17 Estación Biológica de Doñana, CSIC, Calle Americo Vespucio 26, 41092, Sevillle, Spain; CIBER de Epidemiología y Salud Pública (CIBERESP), Spain.
- 18 Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Antwerp, Belgium.
- 19 The Rockefeller University, 1230 York Ave, New York, NY 10065, USA; Hunter College, City University of New York, NY, USA.
- 20 University of Goettingen, Institute for Microbiology and Genetics, Department of Applied Bioinformatics, Goettingen Center for Molecular Biosciences (GZMB), Campus Institute Data Science (CIDAS), Goldschmidtstr. 1, 37077, Goettingen, Germany.
- 21 Institute of Zoology, University of Cologne, Zülpicherstrasse 47b, D-50674, Cologne, Germany.
- 22 Evolutionary & Organismal Biology Research Center, Zhejiang University School of Medicine, Hangzhou, 310058, China; Villum Center for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Denmark; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China.
- 23 University of Florence, Department of Biology, Via Madonna del Piano 6, Sesto Fiorentino, (FI) 50019, Italy.
- 24 University of Lausanne, Department of Ecology and Evolution, Le Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland; Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.
- 25 Leibniz Institute for Zoo and Wildlife Research (IZW), Alfred-Kowalke-Str 17, 10315 Berlin, Germany; Berlin Center for Genomics in Biodiversity Research (BeGenDiv), Koenigin-Luise-Str 6-8, 14195 Berlin, Germany.
- 26 Department of Ecology and Genetics, Uppsala University, Norbyvägen 18D, 75246, Uppsala, Sweden. Electronic address: jacob.hoglund@ebc.uu.se.
- 27 Chair of Zoology, Yerevan State University 1 Alex Manoogian, Yerevan, 0025, Republic of Armenia Scientific Center of Zoology and Hydroecology, NAS, RA.
- 28 CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST) Baldiri i Reixac 4, 08028 Barcelona, Spain.
- 29 Department of Genetics, Microbiology and Statistics and IRBio, Universitat de Barcelona, Av. Diagonal 643, 08028 Barcelona, Spain.
- 30 Geneva Natural History Museum 1 route de Malagnou, 1208 Geneva, Switzerland; University of Geneva Department of Genetics & Evolution, University of Geneva, 4 Boulevard d'Yvoy, 1205 Geneva, Switzerland.
- 31 CIBIO/InBIO, BIOPOLIS Program in Genomics, Biodiversity and Land Planning, University of Porto Campus of Vairão, 4485-661, Vila do Conde, Portugal; Dep Biology, Faculty of Sciences, University of Porto R Campo Alegre, s/n, 4169-007 Porto, Portugal; EBM, Estação Biológica de Mértola Praça Luís de Camões, Mértola, 7750-329, Mértola, Portugal.
- 32 cE3c- Centre for Ecology, Evolution and Environmental Changes, Azorean Biodiversity Group, CHANGE - Global Change and Sustainability Institute, and University of the Azores Rua Capitão João d´Ávila, Pico da Urze, 9700-042, Angra do Heroísmo, Portugal.
- 33 CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos, s/n, 4450-208 Porto, Portugal; Department of Biology, Faculty of Sciences, University of Porto Rua do Campo Alegre, s/n, 4169-007 Porto, Portugal.
- 34 Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) S.C. La Laguna, Spain, 38206.
- 35 Institute of Microbiology of the Czech Academy of Sciences Videnska 1083, Praha 4, Czech Republic, 14220.
- 36 Department of Life Sciences and Biotechnology 46, via Borsari, Ferrara, Italy, 44121.
- 37 Centre for Molecular Biodiversity Research, Leibniz Institute for the Analysis of Biodiveristy Change, Museum Koenig Bonn Adenauerallee 127, 53113 Bonn, Germany.
- 38 California State Polytechnic University, Pomona 3801 W Temple Avenue, Pomona, CA, USA, 91767.
- 39 LOEWE Centre for Translational Biodiversity Genomics, Senckenberg Biodiversity and Climate Research Centre Georg-Voigt-Str. 14-16, 60325 Frankfurt/Main, Germany.
- 40 UMR5558, CNRS, Université Lyon 1, Université de Lyon Bât. Grégor Mendel, 43 bd du 11 novembre 1918, VILLEURBANNE, France 69622.
- 41 Alliance Bioiversity CIAT Europe - Montpellier Office, Bioversity International France, Parc Scientifique Agropolis II, 34397 Montpellier Cedex 5, | France; French Institute of Bioinformatics (IFB)-South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD, F-34398 Montpellier, France.
- 42 University of Primorska, Faculty of Mathematics, Natural Sciences and Information Technologies Glagoljaška 8, 6000 Koper, Slovenia Environmental Protection College Trg mladosti 7, 3320 Velenje, Slovenia.
- 43 CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, Matosinhos, Portugal, 4450-208.
- 44 Interdisciplinary Centre of Marine and Environmental Research, Avenida General Norton de Matos, S/N, Matosinhos, Portugal, 4450-208; Faculty of Sciences University of Porto Rua Campo Alegre s/n, Porto, Portugal 4169-007.
- 45 University of the Basque Country (UPV/EHU), Department of Genetics, Physical Anthropology and Animal Physiology Barrio Sarriena s/n, 48940, Leioa, (Spain).
- 46 Plant Science and Biodiversity Centre, Slovak Academy of Science Dúbravská cesta 9, 845 23, Bratislava.
- 47 University of Zurich, Department of Systematic and Evolutionary Botany 107 Zollikerstrasse, Zurich, Switzerland, 8008.
- 48 Arizona State University 1800 I (Eye) Street, NW, Washington, DC 20006.
- 49 University of Neuchatel 11, Emile-Argand, Neuchatel, Switzerland, CH-2000.
- 50 Centre for Ecology, Evolution and Environmental Changes (CE3C) Campus da Faculdade de Ciências da Universidade de Lisboa, C2 Building, Campo Grande, 1749-016 Lisboa, Portugal; BioISI- Biosystems and Integrative Sciences Institute Campus da Faculdade de Ciências da Universidade de Lisboa, Teclabs Building, Campo Grande, 1749-016 Lisboa, Portugal.
- 51 Institut des Sciences de l'Evolution de Montpellier (ISEM), CNRS, IRD, EPHE, Université de Montpellier Place Eugène Bataillon, 34095 Montpellier, France.
- 52 University of Namur URBE, Department of Biology, Université de Namur, Rue de Bruxelles 61, 5000 Namur, Belgium.
- 53 Department of Natural History, University Museum of Bergen, University of Bergen, P.O. Box 7800, 5020 Bergen.
- 54 CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, 4485-661, Portugal; Campus Agrário de Vairão, Rua Padre Armando Quintas N7, 4485-661 Vairão, Portugal; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, Universidade do Porto, Vairão, 4485-661, Portugal.
- 55 Regional Nature Park of the Trient Valley La Place 24, 1922 Salvan, Switzerland.
- 56 The Rockefeller University 1230 York Avenue, New York, NY 10065, USA.
- 57 Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra) 37-49 Passeig marítim de la Barceloneta, Barcelona, Spain, 08003.
- 58 Università degli Studi di Milano Via Celoria 10, 20133, Milano, Italy; Univ. Grenoble-Alpes F-38000, Grenoble, France.
- 59 Université libre de Bruxelles (ULB) C.P. 160/12, Avenue F.D. Roosevelt 50, 1050 Brussels, Belgium.
- 60 Barcelona Supercomputing Centre (BSC-CNS) Jordi Girona, 29. 08034, Barcelona, Spain; Institute for Research in Biomedicine (IRB) Carrer de Baldiri Reixac, 10, 08028 Barcelona, Spain; Catalan Institution for Research and Advanced Studies (ICREA) Passeig Lluís Companys 23 08010, Barcelona, Spain.
- 61 Ġ.F. Abela Junior College Department of Biology, Ġuzè Debono Square, Msida, Malta Centre of Molecular Medicine and Biobanking University of Malta, Msida, Malta.
- 62 Weill Cornell Medicine 1300 York Ave, New York, NY 10065, USA.
- 63 Center for Evolutionary Hologenomics, The GLOBE Institute, The University of Copenhagen 5A, Oester Farimagsgade, Copenhagen, Denmark, 1353; University Museum, NTNU 47B, Erling Skakkes gate, Trondheim, Norway.
- 64 Slovenian Forestry Institute Večna pot 2, SI-1000 Ljubljana, Slovenia.
- 65 The University of Edinburgh, Institute of Evolutionary Biology, School of Biological Sciences Ash worth Laboratories, Charlotte Auerbach Road, Edinburgh, EH9 3FL, UK; Uppsala University, Department of Ecology and Genetics/Animal Ecology Norbyvägen 18D, SE-752 36 Uppsala, Sweden.
- 66 Institut de Recherche pour le Développement 911, ave Agropolis, Montpellier, France, 34394.
- 67 Leibniz Institute for the Analysis of Biodiversity Change (LIB) Martin-Luther-King-Platz 3, 20146 Hamburg, Germany.
- 68 The Arctic University Museum of Norway, UiT - The Arctic University of Norway P.O. Box 6050, Langnes, Tromsø, Norway, N-9037; Centre for Palaeogenetics Svante Arrhenius väg 20C, SE-10691 Stockholm, Sweden; Stockholm University, Department of Geological Sciences, SE-10691, Stockholm, Sweden.
- 69 Austrian Research Centre for Forests (BFW) 8, Seckendorff-Gudent Weg, Vienna, Austria, 1130.
- 70 LOEWE Centre for Translational Biodiversity Genomics Senckenberganlage 25, 60325 Frankfurt; Senckenberg Society for Nature Research Senckenberganlage 25, 60325 Frankfurt; Goethe-University, Faculty of Biosciences Max-von-Laue-Str. 9, 60438 Frankfurt.
- 71 University of Florence Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, (FI) 50019, Italy.
- 72 Centre for Ecological and Evolutionary Synthesis (CEES), Dept. Of Biosciences, University of Oslo, NORWAY PO Box 1066 Blindern, NO-0316 Oslo, NORWAY.
- 73 Technical University in Zvolen, Faculty of Forestry, Department of Phytology 24, T.G. Masaryka, Zvolen, 960 01, Slovak Republic; DIANA - Carpathian Wildlife Research 47, Mládežnícka, Banská Bystrica, 974 04, Slovak Republic.
- 74 Institute of Functional Biology and Ecology, Department of Ecology, Univeristy of Warsaw, Faculty of Biology Ilii, Miecznikowa 1, 02-096 Warszawa, Poland.
- 75 Institute of Biotechnology, HiLIFE, University of Helsinki 1, Viikinkaari, Helsinki, Finland, 00790.
- 76 Center of Natural History (CeNak), Universität Hamburg Martin-Luther-King-Platz 3, 20146 Hamburg, Germany; Ministry of Science, Research, Equality and Districts, Hamburg, Hamburg, Germany.
- 77 University of Aberdeen, Zoology Building, Tillydrone Ave, University of Aberdeen, Aberdeen, UK, AB24 2TZ.
- 78 Estación Biológica de Doñana; CSIC Calle Americo Vespucio 26, 41092, Seville, Spain.
- 79 Université de Lyon, Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive, UMR 5558 Bat. Mendel, 43 bd du 11 novembre 1918, 69622 Villeurbanne cedex, France.
- 80 Université Côte d'Azur, CNRS, INSERM, IRCAN 28 Avenue de Valombrose, 06107 NICE Cedex 2, France.
- 81 Hellenic Centre for Marine Research (HCMR), Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC) Former U.S. Base of Gournes, P.O. Box 2214, 71003, Heraklion, Crete, Greece.
- 82 CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST) Baldiri i Reixac 4, 08028 Barcelona, Spain; Institute of Evolutionary Biology (UPF-CSIC), PRBB Dr. Aiguader 88, 08003 Catalan Institution of Research and Advanced Studies (ICREA) Passeig de Lluís Companys, 23, 08010, Barcelona, Spain.
- 83 Biology Centre of the Czech Academy of Sciences, Institute of Entomology Branišovská 1160/31, 37005 České Budějovice, Czech Republic.
- 84 University of Oslo 1, Sars' gate, Oslo, Norway, 0562.
- 85 Université Paris-Saclay Université Paris-Saclay, INRAE, URGI, 78026, Versailles, France.
- 86 Genomics Institute, University of California Santa Cruz Santa Cruz, CA, 95060.
- 87 Tel Aviv University, School of Zoology, the Steinhardt Museum of Natural History 12 Klausner street, Tel Aviv, Israel 6997801.
- 88 CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Universidade do Porto 7, Rua Padre Armando Quintas, Vairão, Portugal, 4485-661; Departamento de Biologia, Faculdade de Ciências da Universidade do Porto s/n, Rua do Campo Alegre, Porto, Portugal, 4169-007; BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO Campus de Vairão, 4485-661 Vairão, Portugal.
- 89 Centre for Taxonomy and Morphology, Koenig Museum, Leibniz Institute for Animal Biodiversity Adenauerallee 127, 53113 Bonn, Germany.
- 90 Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB) 301, Müggelseedamm, Berlin, Germany, 12587; Institut für Biologie, Freie Universität Berlin 2-4, Königin-Luise-Str., Berlin, Germany, 12489.
- 91 Dipartimento di Agraria - Università degli Studi di Napoli Federico II 100, Via Università, Portici, Italy, I-80055; BAT Center - Interuniversity Center for Studies on Bioinspired Agro-Environmental Technology, University of Napoli Federico II 100, Via Università, Portici, Italy, I-80055.
- 92 University of Warsaw, Faculty of Biology, Institute of Functional Biology and Ecology, Department of Ecology Biological and Chemical Research Centre, 101 Zwirki i Wigury, Warszawa, Poland, 02-089.
- 93 Center of Natural History (CeNak), Universität Hamburg Martin-Luther-King-Platz 3, 20146 Hamburg, Germany.
- 94 Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles CP51, 57 rue Cuvier, 75005 Paris, France.
- 95 Complutense University of Madrid José Antonio Nováis, 12, Madrid, Spain, 28040.
- 96 Ruđer Bošković Institute 54, Bijenička Road, Zagreb, Croatia, HR-10000.
- 97 Institut Cavanilles de Biodiversitat i Biologia Evolutiva (ICBIBE), Universitat de Valencia Carrer del Catedrátic José Beltrán Martinez 2, 46980 Paterna, Spain.
- 98 Department of Biology-Chemistry, Faculty of Chemistry, Biology, Geography, West University of Timisoara 16A Pestalozzi St., Timisoara, Romania, 300115; Environmental Advanced Research Institute, West University of Timisoara Vasile Pârvan 4 Bd., Timisoara, Romania, 300223.
- 99 cE3c - Centre for Ecology, Evolution and Environmental Changes Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, P-1749-016 Lisboa.
- 100 Ruder Boskovic Institute Bijenička cesta 54, Zagreb 10000, Croatia Croatian Biospeleological Society Rooseveltov trg 6, Zagreb, Croatia, 10000.
- 101 ETH Zürich Ecosystems and Landscape Evolution, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland; Swiss Federal Institute for Forest Snow and Landscape Research WSL Unit of Land Change Science, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland.
- 102 Department of Biosciences, Biotechnologies and Biopharmaceutics, University of Bari "A. Moro" Campus "E. Quagliariello", voa Orabona, 4, 70126 Bari; Institute of Biomembranes, Bioenergetics and Molecular Biotechnologies, Consiglio Nazionale delle Ricerche Campus "E. Quagliariello", voa Orabona, 4, 70126 Bari; Consorzio Interuniversitario Bioteconologie via Flavia, 23/1, 34148 Trieste.
- 103 Organismal and Evolutionary Biology Research Program, University of Helsinki, PO Box 56, 00014, University of Helsinki, FINLAND; Institute of Biotechnology (HiLIFE), University of Helsinki, PO Box 56, 00014, University of Helsinki, FINLAND.
- 104 Museo Nacional de Ciencias Naturales - CSIC C/ José Gutiérrez Abascal, 2, Madrid, 28028, Spain; Natural History Museum of London Cromwell Road, SW7 5BD, London, UK.
- 105 Naturhistorisches Museum Bern 15 Bernastrasse, Bern, Switzerland, 3005; Aquatic Ecology and Evolution, Institute of Ecology and Evolution, University of Bern 6 Balzerstrasse, Bern, Switzerland, 3012.
- 106 Dipartimento di Scienze e Politiche Ambientali, Università degli Studi di Milano Via Celoria 26, Milano, Italy, I-20133.
- 107 Department of Health, Life & Environmental Sciences - University of L'Aquila Via Vetoio snc, 67100 L'Aquila-Coppito, Italy.
- 108 Institute of Ecology and Evolution, University of Bern Baltzerstrasse 6, 3012 Bern, Switzerland; Swiss Federal Institute for Aquatic Science & Technology Seestrasse 79, 6047 Kastanienbaum, Switzerland.
- 109 Zweite Zoologische Abteilung, Naturhistorisches Museum Wien Burgring 7, 1010 Wien.
- 110 Molecular Plant Breeding, Institute of Agricultural Sciences, ETH Zurich Universitaetstrasse 2, 8092 Zurich, Switzerland.
- 111 Senckenberg Biodiversität und Klima Forschungszentrum: Frankfurt, DE, 25 Senckenberganlage, Frankfurt am Main, Germany, 60325.
- 112 Goethe University, Institute of Ecology, Evolution and Diversity Max-von-Laue-Str. 13, Frankfurt am Main, 60438, Germany; Senckenberg Biodiversity and Climate Research Centre (SBiK-F) Senckenberganlage 25, Frankfurt am Main, 60325, Germany; LOEWE Translational Biodiversity Genomics Georg-Voigt-Str. 14-16, Frankfurt am Main, 60325, Germany.
- 113 Helmholtz Pioneer Campus & Helmholtz AI Ingolstädter Landstraße 1, 85764, München, Germany.
- 114 Department of Aquatic Resources, Swedish University of Agricultural Sciences 2, Stångholmsvägen, Drottningholm, Sweden, 178 93; Chair of Aquaculture, Institute of Veterinary Medicine and Animal, Estonian Uiversity of Life Sciences 56A, Kreutzwaldi, Tartu, Estonia, 51006.
- 115 Conservation Biology Research Group, University of Malta Taq-Qroqq, Msida, MSD2080, MALTA.
- 116 Conservation Biology Research Group, University of Malta, Msida, MSD2080, Malta.
- 117 School of Biology, The University of St Andrews St Andrews, Fife, UK, Max Planck Institute for Psycholinguistics Wundtlaan 1, Nijmegen, The Netherlands.
- 118 Forest Ecology and Biogeochemical Fluxes Unit, Research and Innovation Centre-Fondazione Edmund Mach 1, via Edmund Mach, San Michele all'Adige, Italy, 38010.
- 119 Museo Nacional de Ciencias Naturales -CSIC Calle José Gutierrez Abascal 2, 28006, Madrid.
- 120 Department of Zoology, Stockholm University 18B, Svante Arrheniusväg, Stockholm, Sweden, S-10691.
- 121 Ludwig-Maximilians-Universität München, Dept. of Earth and Environmental Sciences, Paleontology & Geobiology Richard-Wagner-Str. 10, Munich, Germany, 80333; Ludwig-Maximilians-Universität München, GeoBio-Center Richard-Wagner-Str. 10, Munich, Germany, 80333; SNSB -, Bavarian, State Collections for Palaeontology and Geology Richard-Wagner-Str. 10, Munich, Germany, 80333.
- 122 Queen Mary University of London Mile End Road, London, United Kingdom, E1 4NS Alan Turing Institute London, United Kingdom, NW1 2DB.
- 123 Department of Biology, University of Malta Biomedical Sciences Building, MSD2080, Msida, Malta; Centre for Molecular Medicine and Biobanking Biomedical Sciences Building, MSD2080, Msida, Malta.
- PMID: 36801111
- DOI: 10.1016/j.tig.2023.01.005
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Abstract
The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics.
Keywords: Anthropocene; European Reference Genome Atlas (ERGA); biodiversity genomics; conservation applications; genomic toolbox; reference genomes.
Copyright © 2023 The Author(s). Published by Elsevier Ltd.. All rights reserved.
Conflict of interest statement
Declaration of interests No interests are declared.
