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    Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae

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    Authors
    Scheuner, Carmen
    Tindall, Brian J
    Lu, Megan
    Nolan, Matt
    Lapidus, Alla
    Cheng, Jan-Fang
    Goodwin, Lynne
    Pitluck, Sam
    Huntemann, Marcel
    Liolios, Konstantinos
    Pagani, Ioanna
    Mavromatis, Konstantinos
    Ivanova, Natalia
    Pati, Amrita
    Chen, Amy
    Palaniappan, Krishna
    Jeffries, Cynthia D
    Hauser, Loren
    Land, Miriam
    Mwirichia, Romano
    Rohde, Manfred
    Abt, Birte
    Detter, John C
    Woyke, Tanja
    Eisen, Jonathan A
    Markowitz, Victor
    Hugenholtz, Philip
    Göker, Markus
    Kyrpides, Nikos C
    Klenk, Hans-Peter
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    Issue Date
    2014-12-08
    
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    Abstract
    Abstract Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448T, were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published and the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the G enomic E ncyclopedia of Bacteria and Archaea project. Phylogenomic analyses indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. In addition to other features, the range of G + C values reported for the genera within the Planctomycetaceae indicates that the descriptions of the family and the order should be emended.
    Citation
    Standards in Genomic Sciences. 2014 Dec 08;9(1):10
    URI
    http://dx.doi.org/10.1186/1944-3277-9-10
    http://hdl.handle.net/10033/620947
    Type
    Journal Article
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    publications of the department Central Unit of Microscopy [ZEIM]

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