The Norway spruce genome sequence and conifer genome evolution

Bjorn Nystedt; Nathaniel R. Street; Anna Wetterbom; Andrea Zuccolo; Yao-Cheng Lin; Douglas G. Scofield; Francesco Vezzi; Nicolas Delhomme; Stefania Giacomello; Andrey Alexeyenko; Riccardo Vicedomini; Kristoffer Sahlin; Ellen Sherwood; Malin Elfstrand; Lydia Gramzow; Kristina Holmberg; Jimmie Hallman; Olivier Keech; Lisa Klasson; Maxim Koriabine; Melis Kucukoglu; Max Kaller; Johannes Luthman; Fredrik Lysholm; Totte Niittyla; Ake Olson; Nemanja Rilakovic; Carol Ritland; Josep A. Rossello; Juliana Sena; Thomas Svensson; Carlos Talavera-Lopez; Guenter Theissen; Hannele Tuominen; Kevin Vanneste; Zhi-Qiang Wu; Bo Zhang; Philipp Zerbe; Lars Arvestad; Rishikesh Bhalerao; Joerg Bohlmann; Jean Bousquet; Rosario Garcia Gil; Torgeir R. Hvidsten; Pieter de Jong; John MacKay; Michele Morgante; Kermit Ritland; Bjorn Sundberg; Stacey Lee Thompson; Yves Van de Peer; Bjorn Andersson; Ove Nilsson; Par K. Ingvarsson; Joakim Lundeberg; Stefan Jansson; Sveriges lantbruksuniversitet

doi:10.1038/nature12211

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The Norway spruce genome sequence and conifer genome evolution

Journal article

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The Norway spruce genome sequence and conifer genome evolution

Bjorn Nystedt, Nathaniel R. Street, Anna Wetterbom, Andrea Zuccolo, Yao-Cheng Lin, Douglas G. Scofield, Francesco Vezzi, Nicolas Delhomme, Stefania Giacomello, Andrey Alexeyenko, …

Nature (London), Vol.497(7451), pp.579-584

2013

DOI: https://doi.org/10.1038/nature12211

PMID: 23698360

Abstract

Multidisciplinary Sciences

Science & Technology

Science & Technology - Other Topics

Conifers have dominated forests for more than 200 million years and are of huge ecological and economic importance. Here we present the draft assembly of the 20-gigabase genome of Norway spruce (Picea abies), the first available for any gymnosperm. The number of well-supported genes (28,354) is similar to the >100 times smaller genome of Arabidopsis thaliana, and there is no evidence of a recent whole-genome duplication in the gymnosperm lineage. Instead, the large genome size seems to result from the slow and steady accumulation of a diverse set of long-terminal repeat transposable elements, possibly owing to the lack of an efficient elimination mechanism. Comparative sequencing of Pinus sylvestris, Abies sibirica, Juniperus communis, Taxus baccata and Gnetum gnemon reveals that the transposable element diversity is shared among extant conifers. Expression of 24-nucleotide small RNAs, previously implicated in transposable element silencing, is tissue-specific and much lower than in other plants. We further identify numerous long (>10,000 base pairs) introns, gene-like fragments, uncharacterized long non-coding RNAs and short RNAs. This opens up new genomic avenues for conifer forestry and breeding.

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Title: The Norway spruce genome sequence and conifer genome evolution
Creators - without role: Bjorn Nystedt - Science for Life Laboratory
Nathaniel R. Street - Umeå Plant Science Centre
Anna Wetterbom - Science for Life Laboratory
Andrea Zuccolo - Istituto di Genomica Applicata
Yao-Cheng Lin - VIB-UGent Center for Plant Systems Biology
Douglas G. Scofield - Umeå Plant Science Centre
Francesco Vezzi - KTH Royal Institute of Technology
Nicolas Delhomme - Umeå Plant Science Centre
Stefania Giacomello - Istituto di Genomica Applicata
Andrey Alexeyenko - Science for Life Laboratory
Riccardo Vicedomini - Istituto di Genomica Applicata
Kristoffer Sahlin - KTH Royal Institute of Technology
Ellen Sherwood - Science for Life Laboratory
Malin Elfstrand - Swedish University of Agricultural Sciences
Lydia Gramzow - Friedrich Schiller University Jena
Kristina Holmberg - Science for Life Laboratory
Jimmie Hallman - Science for Life Laboratory
Olivier Keech - Umeå Plant Science Centre
Lisa Klasson - Uppsala University
Maxim Koriabine - Childrens Hosp Oakland, Res Inst, BACPAC Resources, Oakland, CA 94609 USA
Melis Kucukoglu - Umeå Plant Science Centre
Max Kaller - Science for Life Laboratory
Johannes Luthman - Science for Life Laboratory
Fredrik Lysholm - Science for Life Laboratory
Totte Niittyla - Umeå Plant Science Centre
Ake Olson - Swedish University of Agricultural Sciences
Nemanja Rilakovic - Science for Life Laboratory
Carol Ritland - University of British Columbia
Josep A. Rossello - Universitat de València
Juliana Sena - Université Laval
Thomas Svensson - Science for Life Laboratory
Carlos Talavera-Lopez - Science for Life Laboratory
Guenter Theissen - Univ Jena, Dept Genet, D-07743 Jena, Germany
Hannele Tuominen - Umeå Plant Science Centre
Kevin Vanneste - VIB-UGent Center for Plant Systems Biology
Zhi-Qiang Wu - Umeå University
Bo Zhang - Umeå Plant Science Centre
Philipp Zerbe - Canada's Michael Smith Genome Sciences Centre
Lars Arvestad - KTH Royal Institute of Technology
Rishikesh Bhalerao - Swedish University of Agricultural Sciences
Joerg Bohlmann - Canada's Michael Smith Genome Sciences Centre
Jean Bousquet - Université Laval
Rosario Garcia Gil - Umeå Plant Science Centre
Torgeir R. Hvidsten - Norwegian University of Life Sciences
Pieter de Jong - Childrens Hosp Oakland, Res Inst, BACPAC Resources, Oakland, CA 94609 USA
John MacKay - Université Laval
Michele Morgante - Istituto di Genomica Applicata
Kermit Ritland - University of British Columbia
Bjorn Sundberg - Umeå Plant Science Centre
Stacey Lee Thompson - Umeå Plant Science Centre
Yves Van de Peer - VIB-UGent Center for Plant Systems Biology
Bjorn Andersson - Science for Life Laboratory
Ove Nilsson - Umeå Plant Science Centre
Par K. Ingvarsson - Umeå Plant Science Centre
Joakim Lundeberg - Science for Life Laboratory
Stefan Jansson - Umeå Plant Science Centre
Sveriges lantbruksuniversitet
Publication Details: Nature (London), Vol.497(7451), pp.579-584
Publisher: Springer Nature
Number of pages: 6
Grant note: Government of Canada through Genome Canada; Genome Canada Genome Quebec Swedish Governmental Agency for Innovation Systems (Vinnova); Vinnova Genome British Columbia Science for Life Laboratory Swedish Research Council for Environment, Agricultural Sciences and Spatial Planning (Formas); Swedish Research Council Formas National Genomics Infrastructure (NGI), Sweden Swedish foundation for Strategic Research (SSF); Swedish Foundation for Strategic Research Swedish Research Council (VR); Swedish Research Council Knut and Alice Wallenberg Foundation; Knut & Alice Wallenberg Foundation
Identifiers: 9945811608331
Academic Unit: King Abdullah University of Science & Technology
Language: English
Resource Type: Journal article