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

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Date

2019-07-09

Author

Mosca, Elena
Cruz, Fernando
Gómez-Garrido, Jèssica
Bianco, Luca
Rellstab, Christian
Brodbeck, Sabine
Csilléry, Katalin
Fady, Bruno
Fladung, Matthias
Fussi, Barbara
Gömöry, Dušan
González-Martínez, Santiago C.
Grivet, Delphine
Gut, Marta
Hansen, Ole Kim
Heer, Katrin
Kaya, Zeki
Krutovsky, Konstantin V.
Kersten, Birgit
Liepelt, Sascha
Opgenoorth, Lars
Sperisen, Christoph
Ullrich, Kristian K.
Vendramin, Giovanni G.
Westergren, Marjana
Ziegenhagen, Birgit
Alioto, Tyler
Gugerli, Felix
Heinze, Berthold
Höhn, Maria
Troggio, Michela
Neale, David B.

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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 genomeenabling this important conifer, this resource will open the gate for new research and more precise genetic monitoring of European silver fir forests.

Subject Keywords

Abies alba, Annotation, Conifer genome, Genome assembly, Chloroplast genome

URI

https://hdl.handle.net/11511/38202

Journal

G3 (Bethesda, Md.)

DOI

https://doi.org/10.1534/g3.119.400083

Collections

Department of Biology, Article

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Citation Formats

E. Mosca et al., “A Reference Genome Sequence for the European Silver Fir (Abies alba Mill.): A Community-Generated Genomic Resource,” G3 (Bethesda, Md.), pp. 2039–2049, 2019, Accessed: 00, 2020. [Online]. Available: https://hdl.handle.net/11511/38202.