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Coriobacteriia

From Wikipedia, the free encyclopedia
Class of bacteria

Coriobacteriia
Scientific classificationEdit this classification
Domain:Bacteria
Kingdom:Bacillati
Phylum:Actinomycetota
Class:Coriobacteriia
König 2013[1][2]
Orders[3]
Synonyms
  • Coriobacteriidaecorrig. Stackebrandt, Rainey & Ward-Rainey 1997

TheCoriobacteriia are a class ofGram-positive bacteria within theActinomycetota phylum.[4][5] Species within this group arenonsporulating, strict or facultativeanaerobes that are capable of thriving in a diverse set ofecological niches.[6][7][8][9]Gordonibacter species are the only members capable of motility by means offlagella within the class.Several species within theCoriobacteriia class have been implicated with human diseases that range in severity.Atopobium,Olsenella, andCryptobacterium species have responsible for humanoral infections includingperiodontitis,halitosis, and otherendodontic infections.[10][11]Eggerthella species have been associated with severe bloodbacteraemia andulcerative colitis.[12]

Molecular signatures and phylogenetic position

[edit]

Historically, allCoriobacteriia species were placed within a single order (Coriobacteriales) and a single family (Coriobacteriaceae).[4][13][14][15][16] This view, however, was not reflective of accurate evolutionary interrelationships within the class. The current taxonomic view is justified by the presence of severalconserved signature indels (CSIs) that have been found at the different taxonomic ranks.[17] These CSIs are specific and representsynapomorphic characteristics that can be used to distinguish groups within theCoriobacteriia, both at the family and order levels.[18] The distinction of the orders within theCoriobacteriia is also supported phylogenetic tree branching and by consistent characteristics; members belonging to theCoriobacteriales are glucose-fermenting, saccharolytic species while theEggerthellales order has species that are consistently unable to ferment glucose and are asaccharolytic.[4][5][17]

CSIs have also been used to resolve the phylogenetic position of theCoriobacteriia among all bacteria where they have been found exclusively for all species within the class, delineating them from otherActinomycetota.[17] TheCoriobacteriia are an early branching lineage within the Actinomycetota phylum[5][15][16] The deep branching of the class has led to dispute over its membership within the phylum and whether or not it is a true Actinomycetota group.[13][14][15] A CSI in the form of a single amino acid insert in the enzyme deoxyuridine 59-triphosphate (dUTP) nucleotidohydrolase has been found that is shared by allCoriobacteriia members, as well as several Actinomycetota species, and absent from all other bacteria.[17] This CSI provides unambiguous support forCoriobacteriia's membership within the Actinomycetota.[17][18]

Phylogeny

[edit]

The currently accepted taxonomy is based on theList of Prokaryotic names with Standing in Nomenclature (LPSN)[2] andNational Center for Biotechnology Information (NCBI).[3]

16S rRNA basedLTP_10_2024[19][20][21]120 marker proteins basedGTDB 09-RS220[22][23][24]

References

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  1. ^König H (2012). "Class III.Coriobacteriia class nov.". In Goodfellow M, Kämpfer P, Trujillo ME, Ludwig W, Whitman WB (eds.).Bergey's Manual of Systematic Bacteriology. Vol. 5 (The Actinobacteria), part B (2nd ed.). New York: Springer. p. 1975.
  2. ^abA.C. Parte; et al."Coriobacteriia".List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved2025-02-28.
  3. ^abC.L. Schoch; et al."Coriobacteriia".National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved2025-02-28.
  4. ^abcLudwig, W., Euzéby, J., Schumann, P., Busse, H. J., Trujillo, M. E.,Kämpfer, P. & Whitman, W. B. (2012). Road map of the phylum Actinobacteria. In: Bergey's Manual of Systematic Bacteriology, pp. 1–28. Eds. M. Goodfellow, P. Ka¨mpfer, H. J. Busse, M. E. Trujillo, K. Suzuki, W. Ludwig & W. B. Whitman. Springer-:New York
  5. ^abcClavel T, Lepage P & Charrier C. (2014). The family Coriobacteriaceae. In: The Prokaryotes, pp. 201-238. Springer-:Berlin Heidelberg
  6. ^Stackebrandt E, Zeytun A, Lapidus A, et al. (2013)."Complete genome sequence of Coriobacterium glomerans type strain (PW2(T)) from the midgut of Pyrrhocoris apterus L. (red soldier bug)".Stand Genomic Sci.8 (1):15–25.doi:10.4056/sigs.3507020.PMC 3739169.PMID 23961308.
  7. ^Nakazawa F, Poco SE, Ikeda T, Sato M, Kalfas S, Sundqvist G, Hoshino E (1999)."Cryptobacterium curtum gen. nov., sp. nov., a new genus of gram-positive anaerobic rod isolated from human oral cavities".Int J Syst Bacteriol.49 (Pt 3):1193–200.doi:10.1099/00207713-49-3-1193.PMID 10425779.
  8. ^Würdemann D, Tindall BJ, Pukall R, et al. (2009)."Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov".Int J Syst Bacteriol.59 (Pt 6):1405–15.doi:10.1099/ijs.0.005900-0.hdl:10536/DRO/DU:30125259.PMID 19502325.
  9. ^Mavrommatis K, Pukall R, Rohde C, et al. (2009)."Complete genome sequence of Cryptobacterium curtum type strain (12-3)".Stand Genomic Sci.1 (2):93–100.doi:10.4056/sigs.12260.PMC 3035227.PMID 21304644.
  10. ^Copeland A, Sikorski J, Lapidus A, et al. (2009)."Complete genome sequence of Atopobium parvulum type strain (IPP 1246)".Stand Genomic Sci.1 (2):166–73.doi:10.4056/sigs.29547.PMC 3035223.PMID 21304653.
  11. ^Göker M, Held B, Lucas S, et al. (2010)."Complete genome sequence of Olsenella uli type strain (VPI D76D-27C)".Stand Genomic Sci.3 (1):76–84.doi:10.4056/sigs.1082860.PMC 3035265.PMID 21304694.
  12. ^Saunders E, Pukall R, Abt B, et al. (2009)."Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255)".Stand Genomic Sci.1 (2):174–82.doi:10.4056/sigs.33592.PMC 3035228.PMID 21304654.
  13. ^abGao B, Gupta RS (2005)."Conserved indels in protein sequences that are characteristic of the phylumActinobacteria".Int J Syst Evol Microbiol.55 (Pt 6):2401–2412.doi:10.1099/ijs.0.63785-0.PMID 16280504.
  14. ^abGao B, Paramanathan R, Gupta RS (2006). "Signature proteins that are distinctive characteristics ofActinobacteria and their subgroups".Antonie van Leeuwenhoek.90 (1):69–91.doi:10.1007/s10482-006-9061-2.PMID 16670965.S2CID 25817892.
  15. ^abcGao B, Gupta RS (2012)."Phylogenetic framework and molecular signatures for the main clades of the phylumActinobacteria".Microbiol Mol Biol Rev.76 (1):66–112.doi:10.1128/MMBR.05011-11.PMC 3294427.PMID 22390973.
  16. ^abZhi XY, Li WJ, Stackebrandt E (2009)."An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the classActinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa".Int J Syst Evol Microbiol.59 (Pt 3):589–608.doi:10.1099/ijs.0.65780-0.PMID 19244447.
  17. ^abcdeGupta RS, Chen WJ, Adeolu M, Chai Y (2010). "Molecular signatures for the classCoriobacteriia and its different clades; Proposal for division of the classCoriobacteriia into the emended orderCoriobacteriales, containing the emended familyCoriobacteriaceae andAtopobiaceae fam. nov., andEggerthellales ord. nov., containing the familyEggerthellaceae fam. nov".Int J Syst Evol Microbiol.63 (3):3379–97.doi:10.1099/ijs.0.048371-0.PMID 23524353.
  18. ^abGupta 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.
  19. ^"The LTP". Retrieved10 December 2024.
  20. ^"LTP_all tree in newick format". Retrieved10 December 2024.
  21. ^"LTP_10_2024 Release Notes"(PDF). Retrieved10 December 2024.
  22. ^"GTDB release 09-RS220".Genome Taxonomy Database. Retrieved10 May 2024.
  23. ^"bac120_r220.sp_labels".Genome Taxonomy Database. Retrieved10 May 2024.
  24. ^"Taxon History".Genome Taxonomy Database. Retrieved10 May 2024.
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Coriobacteriia
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