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dc.contributor.authorWregglesworth, Kristin
dc.contributor.authorBarker, Daniel
dc.date.accessioned2015-10-14T16:10:02Z
dc.date.available2015-10-14T16:10:02Z
dc.date.issued2015-10-14
dc.identifier220802549
dc.identifierd733ec61-8833-4cfa-8571-ecd46fb89b41
dc.identifier84944048700
dc.identifier.citationWregglesworth , K & Barker , D 2015 , ' A comparison of the protein-coding genomes of two green sulphur bacteria, Chlorobium tepidum TLS and Pelodictyon phaeoclathratiforme BU-1 ' , BMC Research Notes , vol. 8 , 565 . https://doi.org/10.1186/s13104-015-1535-8en
dc.identifier.issn1756-0500
dc.identifier.urihttps://hdl.handle.net/10023/7652
dc.descriptionDate of Acceptance: 30/09/2015en
dc.description.abstractBackground: Chlorobium tepidum and Pelodictyon phaeoclathratiforme are organisms within the green sulphur bacteria family, Chlorobiaceae, occupying very different habitats. It has recently been proposed that the genera Chlorobium and Pelodictyon are synonymous. Findings: To investigate generic boundaries for the two species, protein families were predicted computationally based on sequence similarity across the genome-wide protein sets of Chlorobium tepidum TLS and Pelodictyon phaeoclathratiforme BU-1. The distribution of the resulting protein families across the two species was summarized. The largest number of families exhibited 1:1 putative orthology between the two species (1468 families). Of families unique to one of the species, the largest number was unique to P. phaeoclathratiforme (113 families), of which the largest family contained pentapeptide repeat proteins (16 proteins). Families unique to P. phaeoclathratiforme also included a family of gas vesicle synthesis proteins (four proteins). Although only 7 families were identified as containing paralogous proteins in both species (with two or more proteins in each species), this group included families of major biochemical importance. One such family, with three members in each species, contained magnesium chelatase, an enzyme involved in the chlorophyll biosynthetic pathway. Conclusion: The unique protein family groups in both C. tepidum and P. phaeoclathratiforme mirror the occupancy of different environments, while key shared family groups provide evidence for a common origin for the species, as previously suggested in the literature. The current study only uses sequence similarity-based protein families for the two species. This, alone, does not permit a firm conclusion to be drawn on the taxonomic question, of whether the two species belong in one genus or two.
dc.format.extent5
dc.format.extent857176
dc.language.isoeng
dc.relation.ispartofBMC Research Notesen
dc.subjectChlorobium tepidum TLSen
dc.subjectPelodictyon phaeoclathratiforme BU-1en
dc.subjectChlorobiaceaeen
dc.subjectProtein familiesen
dc.subjectComparative genomicsen
dc.subjectOrthoMCLen
dc.subjectOrthologen
dc.subjectParalogen
dc.subjectRaspberry Pien
dc.subjectQH301 Biologyen
dc.subjectQA75 Electronic computers. Computer scienceen
dc.subject.lccQH301en
dc.subject.lccQA75en
dc.titleA comparison of the protein-coding genomes of two green sulphur bacteria, Chlorobium tepidum TLS and Pelodictyon phaeoclathratiforme BU-1en
dc.typeJournal articleen
dc.contributor.institutionUniversity of St Andrews. School of Biologyen
dc.identifier.doi10.1186/s13104-015-1535-8
dc.description.statusPeer revieweden
dc.identifier.urlhttp://www.biomedcentral.com/1756-0500/8/565#sec5en


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