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dc.contributor.author
Izuno, Ayako
dc.contributor.author
Wicker, Thomas
dc.contributor.author
Hatakeyama, Masaomi
dc.contributor.author
Copetti, Dario
dc.contributor.author
Shimizu, Kentaro K.
dc.date.accessioned
2019-11-14T09:20:57Z
dc.date.available
2019-11-14T03:41:11Z
dc.date.available
2019-11-14T09:20:57Z
dc.date.issued
2019-11
dc.identifier.issn
2160-1836
dc.identifier.other
10.1534/g3.119.400643
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/377531
dc.identifier.doi
10.3929/ethz-b-000377531
dc.description.abstract
Accurate feature annotation as well as assembly contiguity are important requisites of a modern genome assembly. They allow large-scale comparison of genomes across and within species and identification of polymorphisms, leading evolutionary and functional studies. We report an updated genome resource for Metrosideros polymorpha, the most dominant tree species in the Hawaiian native forests and a unique example of rapid and remarkable ecological diversification of woody species. Ninety-one percent of the bases in the sequence assembly (304 Mb) were organized into 11 pseudo-molecules, which would represent the chromosome structure of the species assuming the synteny to a close relative Eucalyptus. Our complementary approach using manual annotation and automated pipelines identified 11.30% of the assembly to be transposable elements, in contrast to 4.1% in previous automated annotation. By increasing transcript and protein sequence data, we predicted 27,620 gene models with high concordance from the supplied evidence. We believe that this assembly, improved for contiguity, and annotation will be valuable for future evolutionary studies of M. polymorpha and closely related species, facilitating the isolation of specific genes and the investigation of genome-wide polymorphisms associated with ecological divergence.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Genetics Society of America
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.subject
Hawaii
en_US
dc.subject
MAKER
en_US
dc.subject
Metrosideros polymorpha
en_US
dc.subject
reannotation
en_US
dc.subject
transposable
en_US
dc.subject
element
en_US
dc.title
Updated Genome Assembly and Annotation for Metrosideros polymorpha, an Emerging Model Tree Species of Ecological Divergence
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
dc.date.published
2019-11-05
ethz.journal.title
G3: Genes, Genomes, Genetics
ethz.journal.volume
9
en_US
ethz.journal.issue
11
en_US
ethz.journal.abbreviated
G3
ethz.pages.start
3513
en_US
ethz.pages.end
3520
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.wos
ethz.identifier.scopus
ethz.publication.place
Bethesda, MD
en_US
ethz.publication.status
published
en_US
ethz.leitzahl
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02350 - Dep. Umweltsystemwissenschaften / Dep. of Environmental Systems Science::02703 - Institut für Agrarwissenschaften / Institute of Agricultural Sciences::03969 - Studer, Bruno / Studer, Bruno
ethz.leitzahl
ETH Zürich::00002 - ETH Zürich::00003 - Schulleitung und Dienste::00022 - Bereich VP Forschung / Domain VP Research::02207 - Functional Genomics Center Zurich / Functional Genomics Center Zurich
ethz.leitzahl.certified
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02350 - Dep. Umweltsystemwissenschaften / Dep. of Environmental Systems Science::02703 - Institut für Agrarwissenschaften / Institute of Agricultural Sciences::03969 - Studer, Bruno / Studer, Bruno
ethz.leitzahl.certified
ETH Zürich::00002 - ETH Zürich::00003 - Schulleitung und Dienste::00022 - Bereich VP Forschung / Domain VP Research::02207 - Functional Genomics Center Zurich / Functional Genomics Center Zurich
ethz.date.deposited
2019-11-14T03:41:20Z
ethz.source
SCOPUS
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2019-11-14T09:21:10Z
ethz.rosetta.lastUpdated
2022-03-29T00:16:32Z
ethz.rosetta.versionExported
true
ethz.COinS
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