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Chlamydiae Lentisphaerae Planctomycetes Verrucomicrobia

Synonyms

Planctobacteria
Planctobacteria
Cavalier-Smith, 1987[1]

Planctobacteria
Planctobacteria
is a taxon created by Cavalier-Smith, specifically a division (phylum).[note 1] However, it is not followed by the larger scientific community.[2] Cavalier-Smith
Cavalier-Smith
postulated that the Planctobacteria
Planctobacteria
probably lost or reduced their peptidoglycan cell wall twice.[3] In the Cavalier-Smith
Cavalier-Smith
bacterial megaclassification, it is within the bacterial Gracilicutes
Gracilicutes
infrakingdom and comprises the phyla Chlamydiae, Lentisphaerae, Planctomycetes, Verrucomicrobia.[3][4] It has been hypothesised that a member of the PVC clade might have been the host cell in the endosymbiotic event that gave rise to the first proto-eukaryotic cell.[5][6]

PVC superphylum[7][8][9]

Poribacteria

Planctomycetes

OP3

Chlamydiae

Lentisphaerae

Verrucomicrobia

Molecular signatures[edit] These three groups in the traditional molecular phylogeny view are considered as phyla and also cluster together in what is referred to as the PVC superphylum, along with the candidate phyla OP3 and the Poribacteria.[10] An important molecular marker in the form of a conserved signature protein has been found to be consistently shared by PVC members, with the exception of Poribacteria. The conserved signature protein may be a marker that represents a synapomorphic quality and a means to distinguish this bacterial group. Recent studies have characterized this protein and it has been attributed to play an important housekeeping function in DNA/RNA binding.[11] This observation not only provides a means to demarcate the PVC superphylum, but it supports strongly supports an evolutionary relationship shared by this clade that is distinct from other bacteria.[12][13] Conserved signature indels
Conserved signature indels
(CSIs)have also been found specific for the Planctomycetes, Verrucomicrobia, and Chlamydiae
Chlamydiae
that distinguish each respective phylum from one another, and from other bacteria.[12][14] A three-amino-acid insert in the RNA polymerase protein RpoB has been found that is shared by all sequenced Verrucomicrobia, Chlamydiae, and Lentisphaerae species. The CSI is absent from neighbouring Planctomycetes' and Poribacteria, suggesting common ancestry among the groups for which the CSI is specific.[12] Additional lines of evidence for the existence of this clade have been found.[15][16] These include the presence of membrane coat-like proteins, tubulin, sterol synthesis, and the presence of condensed DNA. Notes[edit]

^ Historically bacteria were considered plants consequently the usage of "division" over "phylum" was brought over when the kingdom Monera was established. The bacteriological code has since imposed that the rank should be phylum and not division. Nevertheless, Cavalier-Smith adopts the term division.

References[edit]

^ Cavalier-Smith, T (1987). "The origin of eukaryote and archaebacterial cells". Annals of the New York Academy of Sciences. 503: 17–54. doi:10.1111/j.1749-6632.1987.tb40596.x. PMID 3113314.  ^ Krieg, N.R.; Ludwig, W.; Whitman, W.B.; Hedlund, B.P.; Paster, B.J.; Staley, J.T.; Ward, N.; Brown, D.; Parte, A. (November 24, 2010) [1984(Williams & Wilkins)]. George M. Garrity, ed. The Bacteroidetes, Spirochaetes, Tenericutes (Mollicutes), Acidobacteria, Fibrobacteres, Fusobacteria, Dictyoglomi, Gemmatimonadetes, Lentisphaerae, Verrucomicrobia, Chlamydiae, and Planctomycetes. Bergey's Manual of Systematic Bacteriology. 4 (2nd ed.). New York: Springer. p. 908. ISBN 978-0-387-95042-6. British Library no. GBA561951.  ^ a b Cavalier-Smith, T (2002). "The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification". International Journal of Systematic and Evolutionary Microbiology. 52 (Pt 1): 7–76. doi:10.1099/00207713-52-1-7. PMID 11837318.  ^ Cavalier-Smith
Cavalier-Smith
T (2006). "Rooting the tree of life by transition analyses". Biol. Direct. 1 (1): 19. doi:10.1186/1745-6150-1-19. PMC 1586193 . PMID 16834776.  ^ Forterre, Patrick (January 2011). "A new fusion hypothesis for the origin of Eukarya: better than previous ones, but probably also wrong". Research in Microbiology. 162 (1): 77–91. doi:10.1016/j.resmic.2010.10.005.  ^ Baum, David A; Baum, Buzz (28 October 2014). "An inside-out origin for the eukaryotic cell". BMC Biology. 12 (1). doi:10.1186/s12915-014-0076-2.  ^ Rappe, M. S.; Giovannoni, S. J. (2003). "The Uncultured Microbial Majority". Annual Review of Microbiology. 57: 369–394. doi:10.1146/annurev.micro.57.030502.090759. PMID 14527284.  ^ Woese, C. R. (1987). "Bacterial evolution". Microbiological Reviews. 51 (2): 221–271. PMC 373105 . PMID 2439888.  ^ Wagner, M.; Horn, M. (2006). "The Planctomycetes, Verrucomicrobia, Chlamydiae
Chlamydiae
and sister phyla comprise a superphylum with biotechnological and medical relevance". Current Opinion in Biotechnology. 17 (3): 241–249. doi:10.1016/j.copbio.2006.05.005. PMID 16704931.  ^ Wagner, M.; Horn, M. (2006). "The Planctomycetes, Verrucomicrobia, Chlamydiae
Chlamydiae
and sister phyla comprise a superphylum with biotechnological and medical relevance". Current Opinion in Biotechnology. 17 (3): 241–249. doi:10.1016/j.copbio.2006.05.005. PMID 16704931.  ^ Lagkouvardos I, Jehl MA, Rattei T, Horn M (2014). "Signature protein of the PVC superphylum". Appl Environ Microbiol. 80 (2): 440–445. doi:10.1128/AEM.02655-13. PMC 3911108 . PMID 24185849.  ^ a b c Gupta RS, Bhandari V, Naushad HS (2012). "Molecular Signatures for the PVC Clade (Planctomycetes, Verrucomicrobia, Chlamydiae, and Lentisphaerae) of Bacteria
Bacteria
Provide Insights into Their Evolutionary Relationships". Front Microbiol. 3: 327. doi:10.3389/fmicb.2012.00327. PMC 3444138 . PMID 23060863.  ^ Gupta RS (2016). "Impact of genomics on the understanding of microbial evolution and classification: the importance of Darwin's views on classification". FEMS Microbiol Rev. 40 (4): 520–53. doi:10.1093/femsre/fuw011. PMID 27279642.  ^ Gupta RS, Naushad S, Chokshi C, Griffiths E, Adeolu M (2015). "A phylogenomic and molecular markers based analysis of the phylum Chlamydiae: proposal to divide the class Chlamydiia into two orders, Chlamydiales and Parachlamydiales ord. nov., and emended description of the class Chlamydiia". Antonie Van Leeuwenhoek. 108 (3): 765–781. doi:10.1007/s10482-015-0532-1. PMID 26179278.  ^ Wagner M, Horn M (2006). "The Planctomycetes, Verrucomicrobia, Chlamydiae
Chlamydiae
and sister phyla comprise a superphylum with biotechnological and medical relevance". Curr. Opin. Biotechnol. 17 (3): 241–9. doi:10.1016/j.copbio.2006.05.005. PMID 16704931.  ^ Kamneva OK, Liberles DA, Ward NL (2010). "Genome-wide influence of indel Substitutions on evolution of bacteria of the PVC superphylum, revealed using a novel computational method". Genome Biol Evol. 2: 870–86. doi:10.1093/gbe/evq071. PMC 3000692 . PMID 21048002. 

v t e

Prokaryotes: Bacteria
Bacteria
classification (phyla and orders)

Domain Archaea Bacteria Eukaryota (Supergroup Plant Hacrobia Heterokont Alveolata Rhizaria Excavata Amoebozoa Opisthokonta

Animal Fungi)

G-/ OM

Terra-/ Glidobacteria (BV1)

Eobacteria

Deinococcus–Thermus

Deinococcales Thermales

Chloroflexi

Anaerolineales Caldilineales Chloroflexales Herpetosiphonales Dehalococcoidales Ktedonobacterales Thermogemmatisporales Thermomicrobiales Sphaerobacterales

other glidobacteria

Thermodesulfobacteria thermophiles

Aquificae Thermotogae

Cyanobacteria

Proteobacteria (BV2)

Alpha

Caulobacterales Kiloniellales Kordiimonadales Magnetococcales Parvularculales Rhizobiales Rhodobacterales Rhodospirillales Rickettsiales Sneathiellales Sphingomonadales

Beta

Burkholderiales Hydrogenophilales Methylophilales Neisseriales Nitrosomonadales Procabacteriales Rhodocyclales

Gamma

Acidithiobacillales Aeromonadales Alteromonadales Cardiobacteriales Chromatiales Enterobacteriales Legionellales Methylococcales Oceanospirillales Orbales Pasteurellales Pseudomonadales Salinisphaerales Thiotrichales Vibrionales Xanthomonadales

Delta

Bdellovibrionales Desulfarculales Desulfobacterales Desulfovibrionales Desulfurellales Desulfuromonadales Myxococcales Syntrophobacterales Syntrophorhabdales

Epsilon

Campylobacterales Nautiliales

Zeta

Mariprofundales

BV4

Spirochaetes

Spirochaetes

Sphingobacteria (FCB group)

Fibrobacteres Chlorobi

Chlorobiales Ignavibacteriales

Bacteroidetes

Bacteroidales Cytophagales Flavobacteriales Sphingobacteriales

Planctobacteria/ (PVC group)

Chlamydiae Lentisphaerae

Lentisphaerales Oligosphaerales Victivallales

Planctomycetes

Phycisphaerales Planctomycetales

Verrucomicrobia

Puniceicoccales Opitutales Chthoniobacterales Verrucomicrobiales

"Poribacteria"

Other GN

Acidobacteria

Acidobacteriales Acanthopleuribacterales Holophagales Solibacterales

Armatimonadetes

Armatimonadales Chthonomonadales Fimbriimonadales

Caldiserica Chrysiogenetes Deferribacteres Dictyoglomi Elusimicrobia Fusobacteria Gemmatimonadetes Nitrospirae Synergistetes

G+/ no OM

Firmicutes (BV3)

Bacilli

Bacillales Lactobacillales

Clostridia

Clostridiales Halanaerobiales Thermoanaerobacteriales Natranaerobiales

Erysipelotrichia

Erysipelotrichiales

Thermolithobacteria

Thermolithobacterales

Tenericutes/ Mollicutes

Mycoplasmatales Entomoplasmatales Anaeroplasmatales Acholeplasmatales Haloplasmatales

Negativicutes

Selenomonadales

Actinobacteria (BV5)

Actinobacteria

Actinomycetales Bifidobacteriales

Acidimicrobiia

Acidimicrobiales

Coriobacteriidae

Coriobacteriales

Nitriliruptoria

Euzebyales Nitriliruptorales

Rubrobacteria

Gaiellales Rubrobacterales Thermoleophilales Solirubrobacterales

Incertae sedis

†Archaeosphaeroides †Eobacterium †Leptotrichites

Source: Bergey's Manual (2001–2012). Alternative views: Wikispecies.

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