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dc.contributor.author
Qi, Weihong
dc.contributor.author
Vaughan, Lloyd
dc.contributor.author
Katharios, Pantelis
dc.contributor.author
Schlapbach, Ralph
dc.contributor.author
Seth-Smith, Helena M.B.
dc.date.accessioned
2019-04-05T16:58:26Z
dc.date.available
2017-06-12T15:42:22Z
dc.date.available
2019-04-05T16:58:26Z
dc.date.issued
2016
dc.identifier.issn
1759-6653
dc.identifier.other
10.1093/gbe/evw111
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/122491
dc.identifier.doi
10.3929/ethz-b-000122491
dc.description.abstract
Advances in single-cell and mini-metagenome sequencing have enabled important investigations into uncultured bacteria. In this study, we applied the mini-metagenome sequencing method to assemble genome drafts of the uncultured causative agents of epitheliocystis, an emerging infectious disease in the Mediterranean aquaculture species gilthead seabream. We sequenced multiple cyst samples and constructed 11 genome drafts from a novel beta-proteobacterial lineage, Candidatus Ichthyocystis. The draft genomes demonstrate features typical of pathogenic bacteria with an obligate intracellular lifestyle: a reduced genome of up to 2.6 Mb, reduced G + C content, and reduced metabolic capacity. Reconstruction of metabolic pathways reveals that Ca . Ichthyocystis genomes lack all amino acid synthesis pathways, compelling them to scavenge from the fish host. All genomes encode type II, III, and IV secretion systems, a large repertoire of predicted effectors, and a type IV pilus. These are all considered to be virulence factors, required for adherence, invasion, and host manipulation. However, no evidence of lipopolysaccharide synthesis could be found. Beyond the core functions shared within the genus, alignments showed distinction into different species, characterized by alternative large gene families. These comprise up to a third of each genome, appear to have arisen through duplication and diversification, encode many effector proteins, and are seemingly critical for virulence. Thus, Ca . Ichthyocystis represents a novel obligatory intracellular pathogenic beta-proteobacterial lineage. The methods used: mini-metagenome analysis and manual annotation, have generated important insights into the lifestyle and evolution of the novel, uncultured pathogens, elucidating many putative virulence factors including an unprecedented array of novel gene families.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Oxford University Press
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.subject
Mini-metagenome
en_US
dc.subject
Genome reduction
en_US
dc.subject
Metabolic pathways
en_US
dc.subject
Gene duplication-diversification
en_US
dc.subject
Virulence
en_US
dc.subject
Epitheliocystis
en_US
dc.title
Host-Associated Genomic Features of the Novel Uncultured Intracellular Pathogen Ca. Ichthyocystis Revealed by Direct Sequencing of Epitheliocysts
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
ethz.journal.title
Genome biology and evolution
ethz.journal.volume
8
en_US
ethz.journal.issue
6
en_US
ethz.journal.abbreviated
Genome Biol Evol
ethz.pages.start
1672
en_US
ethz.pages.end
1689
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.nebis
010180519
ethz.publication.place
Oxford
en_US
ethz.publication.status
published
en_US
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
en_US
ethz.leitzahl
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02030 - Dep. Biologie / Dep. of Biology::08828 - Schlapbach, Ralph (Tit.-Prof.)
en_US
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
2017-06-12T15:46:06Z
ethz.source
ECIT
ethz.identifier.importid
imp593654dbbc7f942969
ethz.ecitpid
pub:184806
ethz.eth
no
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2017-07-13T03:33:31Z
ethz.rosetta.lastUpdated
2020-02-15T18:20:05Z
ethz.rosetta.exportRequired
true
ethz.rosetta.versionExported
true
ethz.COinS
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