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dc.contributor.author
Schlegel, Markus
dc.contributor.author
Münsterkötter, Martin
dc.contributor.author
Güldener, Ulrich
dc.contributor.author
Bruggmann, Rémy
dc.contributor.author
Duò, Angelo
dc.contributor.author
Hainaut, Matthieu
dc.contributor.author
Henrissat, Bernard
dc.contributor.author
Sieber, Christian M.K.
dc.contributor.author
Hoffmeister, Dirk
dc.contributor.author
Grünig, Christoph R.
dc.date.accessioned
2018-10-08T11:58:35Z
dc.date.available
2017-06-12T17:46:01Z
dc.date.available
2018-10-08T11:58:35Z
dc.date.issued
2016-12
dc.identifier.other
10.1186/s12864-016-3369-8
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/124732
dc.identifier.doi
10.3929/ethz-b-000124732
dc.description.abstract
Background Whereas an increasing number of pathogenic and mutualistic ascomycetous species were sequenced in the past decade, species showing a seemingly neutral association such as root endophytes received less attention. In the present study, the genome of Phialocephala subalpina, the most frequent species of the Phialocephala fortinii s.l. – Acephala applanata species complex, was sequenced for insight in the genome structure and gene inventory of these wide-spread root endophytes. Results The genome of P. subalpina was sequenced using Roche/454 GS FLX technology and a whole genome shotgun strategy. The assembly resulted in 205 scaffolds and a genome size of 69.7 Mb. The expanded genome size in P. subalpina was not due to the proliferation of transposable elements or other repeats, as is the case with other ascomycetous genomes. Instead, P. subalpina revealed an expanded gene inventory that includes 20,173 gene models. Comparative genome analysis of P. subalpina with 13 ascomycetes shows that P. subalpina uses a versatile gene inventory including genes specific for pathogens and saprophytes. Moreover, the gene inventory for carbohydrate active enzymes (CAZymes) was expanded including genes involved in degradation of biopolymers, such as pectin, hemicellulose, cellulose and lignin. Conclusions The analysis of a globally distributed root endophyte allowed detailed insights in the gene inventory and genome organization of a yet largely neglected group of organisms. We showed that the ubiquitous root endophyte P. subalpina has a broad gene inventory that links pathogenic and saprophytic lifestyles.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
BioMed Central
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.subject
Comparative genomics
en_US
dc.subject
Lifestyle
en_US
dc.subject
Root endophyte
en_US
dc.subject
Species complex
en_US
dc.subject
Parasitism-mutualism continuum
en_US
dc.title
Globally distributed root endophyte Phialocephala subalpina links pathogenic and saprophytic lifestyles
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
ethz.journal.title
BMC Genomics
ethz.journal.volume
17
en_US
ethz.pages.start
1015
en_US
ethz.size
22 p.
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.wos
ethz.identifier.nebis
004256340
ethz.publication.place
London
en_US
ethz.publication.status
published
en_US
ethz.date.deposited
2017-06-12T17:46:52Z
ethz.source
ECIT
ethz.identifier.importid
imp59365503724a037993
ethz.ecitpid
pub:187262
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2017-07-12T21:28:04Z
ethz.rosetta.lastUpdated
2018-10-08T11:58:39Z
ethz.rosetta.versionExported
true
ethz.COinS
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