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dc.contributor.authorSonnenberg, Cecilie Bækkedal
dc.contributor.authorHaugen, Peik
dc.date.accessioned2021-10-07T06:37:02Z
dc.date.available2021-10-07T06:37:02Z
dc.date.issued2021-07-21
dc.description.abstractBacterial genomes typically consist of one large chromosome, but can also include secondary replicons. These so-called multipartite genomes are scattered on the bacterial tree of life with the majority of cases belonging to Proteobacteria. Within the class gamma-proteobacteria, multipartite genomes are restricted to the two families <i>Vibrionaceae</i> and <i>Pseudoalteromonadaceae</i>. Whereas the genome of vibrios is well studied, information on the <i>Pseudoalteromonadaceae</i> genome is much scarcer. We have studied <i>Pseudoalteromonadaceae</i> with respect to the origin of the chromid, how pangene categories are distributed, how genes are expressed relative to their genomic location, and identified chromid hallmark genes. We calculated the <i>Pseudoalteromonadaceae</i> pangenome based on 25 complete genomes and found that core/softcore are significantly overrepresented in late replicating sectors of the chromid, regardless of how the chromid is replicated. On the chromosome, core/softcore and shell/cloud genes are only weakly overrepresented at the chromosomal replication origin and termination sequences, respectively. Gene expression is trending downwards with increasing distance from the chromosomal <i>oriC</i>, whereas the chromidal expression pattern is more complex. Moreover, we identified 78 chromid hallmark genes, and BLASTp searches suggest that the majority of them were acquired from the ancestral gene pool of Alteromonadales. Finally, our data strongly suggest that the chromid originates from a plasmid that was acquired in a relatively recent event. In summary, this study extends our knowledge on multipartite genomes, and helps us understand how and why secondary replicons are acquired, why they are maintained, and how they are shaped by evolution.en_US
dc.identifier.citationHaugen P, Bækkedal C. The Pseudoalteromonas multipartite genome: distribution and expression of pangene categories, and a hypothesis for the origin and evolution of the chromid. G3: Genes, Genomes, Genetics. 2021en_US
dc.identifier.cristinIDFRIDAID 1925472
dc.identifier.doi10.1093/g3journal/jkab256
dc.identifier.issn2160-1836
dc.identifier.urihttps://hdl.handle.net/10037/22730
dc.language.isoengen_US
dc.publisherOxford University Pressen_US
dc.relation.ispartofSonnenberg, C.B. (2023). Exploring multipartite genomes using pangenome analysis. (Doctoral thesis). <a href=https://hdl.handle.net/10037/29372>https://hdl.handle.net/10037/29372</a>.
dc.relation.journalG3: Genes, Genomes, Genetics
dc.rights.accessRightsopenAccessen_US
dc.rights.holderCopyright 2021 The Author(s)en_US
dc.subjectVDP::Mathematics and natural science: 400::Chemistry: 440en_US
dc.subjectVDP::Matematikk og Naturvitenskap: 400::Kjemi: 440en_US
dc.titleThe Pseudoalteromonas multipartite genome: distribution and expression of pangene categories, and a hypothesis for the origin and evolution of the chromiden_US
dc.type.versionpublishedVersionen_US
dc.typeJournal articleen_US
dc.typeTidsskriftartikkelen_US
dc.typePeer revieweden_US


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