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A Reference Genome Sequence for the European Silver Fir (Abies alba Mill.): A Community-Generated Genomic Resource

Elena Mosca 1 Fernando Cruz 2 Jessica Gómez-Garrido 2 Luca Bianco 3 Christian Rellstab 4 Sabine Brodbeck 4 Katalin Csilléry 5, 4 Bruno Fady 6 Matthias Fladung 7 Barbara Fussi 8 Dušan Gömöry 9 Santiago Gonzalez Martinez 10 Delphine Grivet 11 Marta Gut 2 Ole Kim Hansen 12 Katrin Heer 13 Zeki Kaya 14 Konstantin V. Krutovsky 15, 16, 17 Birgit Kersten 7 Sascha Liepelt 13 Lars Opgenoorth 13 Christoph Sperisen 18 Kristian K. Ullrich 14 Giovanni G. Vendramin 19 Marjana Westergren 20 Birgit Ziegenhagen 21 Tyler Alioto 2 Felix Gugerli 4 Berthold Heinze 22 Maria Höhn 23 Michela Troggio 3 David B. Neale 24
Abstract : Silver fir (Abies alba Mill.) is a keystone conifer of European montane forest ecosystems that has experienced large fluctuations in population size during during the Quaternary and, more recently, due to land-use change. To forecast the species' future distribution and survival, it is important to investigate the genetic basis of adaptation to environmental change, notably to extreme events. For this purpose, we here provide a first draft genome assembly and annotation of the silver fir genome, established through a community-based initiative. DNA obtained from haploid megagametophyte and diploid needle tissue was used to construct and sequence Illumina paired-end and mate-pair libraries, respectively, to high depth. The assembled A. alba genome sequence accounted for over 37 million scaffolds corresponding to 18.16 Gb, with a scaffold N50 of 14,051 bp. Despite the fragmented nature of the assembly, a total of 50,757 full-length genes were functionally annotated in the nuclear genome. The chloroplast genome was also assembled into a single scaffold (120,908 bp) that shows a high collinearity with both the A. koreana and A. sibirica complete chloroplast genomes. This first genome assembly of silver fir is an important genomic resource that is now publicly available in support of a new generation of research. By genome-enabling this important conifer, this resource will open the gate for new research and more precise genetic monitoring of European silver fir forests.
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Elena Mosca, Fernando Cruz, Jessica Gómez-Garrido, Luca Bianco, Christian Rellstab, et al.. A Reference Genome Sequence for the European Silver Fir (Abies alba Mill.): A Community-Generated Genomic Resource. G3, Genetics Society of America, 2019, 9 (7), pp.2039 - 2049. ⟨10.1534/g3.119.400083⟩. ⟨hal-02619994⟩

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