Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

Autor: Airi Lamminmäki, Colin T. Kelleher, Petri Auvinen, Olga Blokhina, Peter J. Gollan, Jaakko Kangasjärvi, Pekka Heino, Hiroaki Fujii, Suvi K. Broholm, Mikael Brosché, Adrien Gauthier, Victor A. Albert, Juhana Kammonen, Suvi Sutela, Leila Pazouki, Olli-Pekka Smolander, Paula Elomaa, Tianying Lan, Ykä Helariutta, Sitaram Rajaraman, Risto Hagqvist, Ali Amiryousefi, Péter Poczai, Maija Sierla, Viivi Ahonen, Jorma Vahala, Fred O. Asiegbu, Enjun Xu, Leila Kauppinen, Jarkko Salojärvi, Ülo Niinemets, Sari Kontunen-Soppela, Alan H. Schulman, Arja Tervahauta, Aleksia Vaattovaara, Kristiina Himanen, Lars Paulin, Johanna Leppälä, E. Tapio Palva, Annikki Welling, Jaakko Tanskanen, Juha Mikola, Daniel Blande, Raili Ruonala, Teemu H. Teeri, Christiaan van der Schoot, Sanna Ehonen, Kaisa Nieminen, Fuqiang Cui, Kurt V. Fagerstedt, Katriina Mouhu, Michael Wrzaczek, Pezhman Safdari, Gugan Eswaran, Andriy Kovalchuk, Elina Oksanen, Lee Macpherson, Pauliina Halimaa, Anna Kärkönen, Kean-Jin Lim, Balamuralikrishna Jayaprakash, J. Patrik Koskinen, Chris Dardick, Matleena Punkkinen, Saijaliisa Kangasjärvi, Juan de Dios Barajas-López, Pasi Rastas, Ari Pekka Mähönen, Courtney A. Hollender, Tiina Blomster, Timo Sipilä, Lidia Vetchinnikova, Tuula Puhakainen, Moona Rahikainen, Sirpa Kärenlampi, Omid Safronov, Ville Pennanen, Alexey Shapiguzov, Matti Rousi, Sacha Escamez, Juha Immanen, Kirk Overmyer, Martin Lascoux, Juan Antonio Alonso Serra, Boy J.H.M. Possen
Přispěvatelé: Department of Plant Molecular Biology, Université de Lausanne (UNIL), SUNY Buffalo, Dept Biol Sci, Buffalo, NY 14260 USA, Université Paris Diderot - Paris 7 (UPD7), Department of Zoology [Cambridge], University of Cambridge [UK] (CAM), Ecophysiologie Végétale, Agronomie et Nutritions (EVA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Institut National de la Recherche Agronomique (INRA), Division of Plant Physiology, University of Helsinki, Plante - microbe - environnement : biochimie, biologie cellulaire et écologie (PMEBBCE), Etablissement National d'Enseignement Supérieur Agronomique de Dijon (ENESAD)-Institut National de la Recherche Agronomique (INRA)-Université de Bourgogne (UB)-Centre National de la Recherche Scientifique (CNRS), Molecular Plant Biology, University of Turku, University of Turku, University of Eastern Finland, Department of Forest Sciences [Helsinki], Faculty of Agriculture and Forestry [Helsinki], University of Helsinki-University of Helsinki, Estonian University of Life Sciences, Viikki Plant Science Centre (ViPS), Faculty of Biological and Environmental Sciences [Helsinki], Natural Resources Institute Finland, University of Oulu, Department of Ecology and Genetics [Uppsala] (EBC), Uppsala University, Department of Biological Sciences [Buffalo], University at Buffalo [SUNY] (SUNY Buffalo), State University of New York (SUNY)-State University of New York (SUNY), Institut National de la Recherche Agronomique (INRA)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU), Centre National de la Recherche Scientifique (CNRS)-Université de Bourgogne (UB)-Institut National de la Recherche Agronomique (INRA)-Etablissement National d'Enseignement Supérieur Agronomique de Dijon (ENESAD), Estonian University of Life Sciences (EMU), Natural resources institute Finland, Ympäristö- ja biotieteiden laitos / Toiminta, Biosciences, Institute of Biotechnology, Bioinformatics for Molecular Biology and Genomics (BMBG), Plant-Fungal Interactions Group, Plant ROS-Signalling, Department of Forest Sciences, Frederick Asiegbu / Principal Investigator, Forest Ecology and Management, Department of Agricultural Sciences, Plant stress and natural variation, Plant Biology, Ecosystem processes (INAR Forest Sciences), Asteraceae developmental biology and secondary metabolism, Plant Production Sciences, Pekka Heino / Principal Investigator, Tapio Palva Research Group, Genetics, Environmental Sciences, Terrestrial Interactions Research Group, Ari Pekka Mähönen / Principal Investigator, Finnish Museum of Natural History, Botany, Embryophylo, Teemu Teeri / Principal Investigator, Receptor-Ligand Signaling Group, Alan Schulman / Principal Investigator, DNA Sequencing and Genomics, Yrjö Helariutta / Principal Investigator
Jazyk: angličtina
Rok vydání: 2017
Předmět:
Zdroj: Nature Genetics
Nature Genetics, Nature Publishing Group, 2017, 49 (6), pp.904-912. ⟨10.1038/ng.3862⟩
ISSN: 1061-4036
1546-1718
DOI: 10.1038/ng.3862⟩
Popis: Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make birch an attractive model for forest biotechnology. We assembled and chromosomally anchored the nuclear genome of an inbred B. pendula individual. Gene duplicates from the paleohexaploid event were enriched for transcriptional regulation, whereas tandem duplicates were overrepresented by environmental responses. Population resequencing of 80 individuals showed effective population size crashes at major points of climatic upheaval. Selective sweeps were enriched among polyploid duplicates encoding key developmental and physiological triggering functions, suggesting that local adaptation has tuned the timing of and cross-talk between fundamental plant processes. Variation around the tightly-linked light response genes PHYC and FRS10 correlated with latitude and longitude and temperature, and with precipitation for PHYC. Similar associations characterized the growth-promoting cytokinin response regulator ARR1, and the wood development genes KAK and MED5A.
published version
peerReviewed
Databáze: OpenAIRE