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The Family Porphyromonadaceae

  • Mitsuo Sakamoto
Reference work entry

Abstract

Porphyromonadaceae, a family within the order Bacteroidales, comprises the genera Porphyromonas, Barnesiella, Butyricimonas, Dysgonomonas, Macellibacteroides, Odoribacter, Paludibacter, Parabacteroides, Petrimonas, Proteiniphilum, and Tannerella. The type genus is the genus Porphyromonas. At first, this family comprised the genera Porphyromonas, Dysgonomonas, and Tannerella (Garrity GM, Bell JA, Liburn T (2005) The revised road map to the manual. In: Brenner DJ, Krieg NR, Staley JT (eds) Bergey’s Manual of Systematic Bacteriology, The Proteobacteria, Part A, Introductory Essays, vol 2. 2nd edn New York, Springer pp 159–206). This family comprises five monospecific genera represented by Macellibacteroides fermentans, Paludibacter propionicigenes, Petrimonas sulfuriphila, Proteiniphilum acetatigenes, and Tannerella forsythia. Macellibacteroides fermentans and Parabacteroides chartae are phylogenetically highly related and should be considered strains of the same species, with Macellibacteroides fermentans having page priority. Members of the family are defined by a variety of cellular morphologies and chemotaxonomic characteristics. Many species of the family Porphyromonadaceae are part of the indigenous microbiota of the human and animal gastrointestinal tract and oral cavity, but some species in this family are commonly associated with a variety of human and animal infections.

Keywords

Upflow Anaerobic Sludge Blanket Reactor Major Polar Lipid Major Cellular Fatty Acid Unidentified Phospholipid Brewery Wastewater 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

References

  1. Aldridge KE, Ashcraft D, Cambre K, Pierson CL, Jenkins SG, Rosenblatt JE (2001) Multicenter survey of the changing in vitro antimicrobial susceptibilities of clinical isolates of Bacteroides fragilis group, Prevotella, Fusobacterium, Porphyromonas, and Peptostreptococcus species. Antimicrob Agents Chemother 45:1238–1243PubMedCentralPubMedCrossRefGoogle Scholar
  2. Balch WE, Fox GE, Magrum LJ, Woese CR, Wolfe RS (1979) Methanogens: reevaluation of a unique biological group. Microbiol Rev 43:260–296PubMedCentralPubMedGoogle Scholar
  3. Braham PH, Moncla BJ (1992) Rapid presumptive identification and further characterization of Bacteroides forsythus. J Clin Microbiol 30:649–654PubMedCentralPubMedGoogle Scholar
  4. Brondz I, Olsen I (1991) Multivariate analyses of cellular fatty acids in Bacteroides, Prevotella, Porphyromonas, Wolinella, and Campylobacter spp. J Clin Microbiol 29:183–189PubMedCentralPubMedGoogle Scholar
  5. Chen S, Dong X (2005) Proteiniphilum acetatigenes gen. nov., sp. nov., from a UASB reactor treating brewery wastewater. Int J Syst Evol Microbiol 55:2257–2261PubMedCrossRefGoogle Scholar
  6. Collins MD, Love DN, Karjalainen J, Kanervo A, Forsblom B, Willems A, Stubbs S, Sarkiala E, Bailey GD, Wigney DI, Jousimies-Somer H (1994) Phylogenetic analysis of members of the genus Porphyromonas and description of Porphyromonas cangingivalis sp. nov. and Porphyromonas cansulci sp. nov. Int J Syst Bacteriol 44:674–679PubMedCrossRefGoogle Scholar
  7. Conrads G, Citron DM, Tyrrell KL, Horz HP, Goldstein EJC (2005) 16S-23S rRNA gene internal transcribed spacer sequences for analysis of the phylogenetic relationships among species of the genus Porphyromonas. Int J Syst Evol Microbiol 55:607–613PubMedCrossRefGoogle Scholar
  8. Daneshvar MI, Hollis DG, Moss CW (1991) Chemical characterization of clinical isolates which are similar to CDC group DF-3 bacteria. J Clin Microbiol 29:2351–2353PubMedCentralPubMedGoogle Scholar
  9. Eggerth AH, Gagnon BH (1933) J Bacteriol 25:389–413PubMedCentralPubMedGoogle Scholar
  10. Finegold SM, Barnes EM (1977) Int J Syst Bacteriol 27:388–391CrossRefGoogle Scholar
  11. Finegold SM, Väisänen ML, Rautio M, Eerola E, Summanen P, Molitoris D, Song Y, Liu C, Jousimies-Somer H (2004) Porphyromonas uenonis sp. nov., a pathogen for human distinct from P. asaccharolytica and P. endodontalis. J Clin Microbiol 42:5298–5301PubMedCentralPubMedCrossRefGoogle Scholar
  12. Fournier D, Mouton C, Lapierre P, Kato T, Ménard C (2001) Porphyromnoas gulae sp. nov., an anaerobic, Gram-negative coccobacillus from the gingival sulcus of various animal hosts. Int J Syst Evol Microbiol 51:1179–1189PubMedCrossRefGoogle Scholar
  13. Garrity GM, Bell JA, Liburn T (2005) The revised road map to the manual. In: Brenner DJ, Krieg NR, Staley JT (eds) The Proteobacteria, Part A, introductory essays, vol 2, 2nd edn, Bergey’s manual of systematic bacteriology. Springer, New York, pp 159–206Google Scholar
  14. Grabowski A, Tindall BJ, Bardin V, Blanchet D, Jeanthon C (2005) Petrimonas sulfuriphila gen. nov., sp. nov., a mesophilic fermentative bacterium isolated from a biodegraded oil reservoir. Int J Syst Evol Microbiol 55:1113–1121PubMedCrossRefGoogle Scholar
  15. Gronow S, Munk C, Lapidus A, Nolan M, Lucas S et al (2011) Complete genome sequence of Paludibacter propionicigenes type strain (WB4T). Standards Genom Sci 4:36–44CrossRefGoogle Scholar
  16. Hansen PS, Jensen TG, Gahrn-Hansen B (2005) Dysgonomonas capnocytophagoides bacteraemia in a neutropenic patient treated for acute myeloid leukaemia. APMIS 113:229–231PubMedCrossRefGoogle Scholar
  17. Hardham JM, King KW, Dreier K, Wong J, Strietzel C, Eversole RR, Sfintescu C, Evans RT (2008) Transfer of Bacteroides splanchnicus to Odoribacter gen. nov. as Odoribacter splanchnicus comb. nov., and description of Odoribacter denticanis sp. nov., isolated from the crevicular spaces of canine periodontitis patients. Int J Syst Evol Microbiol 58:103–109PubMedCrossRefGoogle Scholar
  18. Hofstad T, Olsen I, Eribe ER, Falsen E, Collins MD, Lawson PA (2000) Dysgonomonas gen. nov. to accommodate Dysgonomonas gadei sp. nov., an organism isolated from a human gall bladder, and Dysgonomonas capnocytophagoides (formerly CDC group DF-3). Int J Syst Evol Microbiol 50:2189–2195PubMedCrossRefGoogle Scholar
  19. Holdeman LV, Cato EP, Moore WEC (1977) Anaerobe laboratory manual, 4th edn. Virginia Polytechnic Institute and State University, BlacksburgGoogle Scholar
  20. Holdeman LV, Moore WEC (1970) in Cato EP, Cummins CS, Holdeman LV, Johnson JL, Moore WEC, Smibert RM, Smith LDS (eds) Outline of clinical methods in anaerobic bacteriology, 2nd revision. Virginia Polytechnic Institute, Anaerobe Laboratory, Blacksburg, Virginia. pp. 33–44Google Scholar
  21. Jabari L, Gannoun H, Cayol JL, Hedi A, Sakamoto M, Falsen E, Ohkuma M, Hamdi M, Fauque G, Ollivier B, Fardeau ML (2012) Macellibacteroides fermentans gen. nov., a member of the family Porphyromonadaceae isolated from an upflow anaerobic filter treating abattoir wastewaters. Int J Syst Evol Microbiol 62:2522–2527PubMedCrossRefGoogle Scholar
  22. Jousimies-Somer HR, Summanen P, Citron DM, Baron EJ, Wexler HM, Finegold SM (2002) Wadsworth-KTL anaerobic bacteriology manual. Star Publishing Company, BelmontGoogle Scholar
  23. Judicial Commission of the International Committee on Systematics of Prokaryotes (2008) The adjectival form of the epithet in Tannerella forsythensis Sakamoto et al. 2002 is to be retained and the name is to be corrected to Tannerella forsythia Sakamoto et al. 2002. Opinion 85. Int J Syst Evol Microbiol 58:1974CrossRefGoogle Scholar
  24. Kodama Y, Shimoyama T, Watanabe K (2012) Dysgonomonas oryzarvi. sp. nov., isolated from a microbial fuel cell. Int J Syst Evol Microbiol 62:3055–3059PubMedCrossRefGoogle Scholar
  25. Koneman EW, Allen SD, Janda WM, Shreckenberger PC, Winn WC Jr (1997) CDC group DF-3. In: Color Atlas and textbook of diagnostic microbiology. Lippincott, Philadelphia, pp 413–414Google Scholar
  26. Könönen E, Väisänen ML, Finegold SM, Heine R, Jousimer-Somer H (1996) Cellular fatty acid analysis and enzyme profiles of Porphyromonas catoniae—a frequent colonizer of the oral cavity in children. Anaerobe 2:329–335CrossRefGoogle Scholar
  27. Krieg NR (2011) Family IV. Porphyromonadaceae fam. nov. In: Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (eds) The Bacteroidetes, Spirochaetes, Tenericutes (Mollicutes), Acidobacteria, Fibrobacteres, Fusobacteria, Dictyoglomi, Gemmatimonadetes, Lentisphaerae, Verrucomicrobia, Chlamydiae, and Planctomycetes, vol 4, 2nd edn, Bergey’s manual of systematic bacteriology. Springer, New York, p 61Google Scholar
  28. Lakhssassi N, Elhajoui N, Lodter JP, Pineill JL, Sixou M (2005) Antimicrobial susceptibility variation of 50 anaerobic periopathogens in aggressive periodontitis: an interindividual variability study. Oral Microbiol Immunol 20:244–252PubMedCrossRefGoogle Scholar
  29. Lawson PA, Falsen E, Inganäs E, Weyant RS, Collins MD (2002) Dysgonomonas mossi sp. nov., from human sources. Syst Appl Microbiol 25:194–197PubMedCrossRefGoogle Scholar
  30. Lawson PA, Carlson P, Wernersson S, Moore ERB, Falsen E (2010) Dysgonomonas hofstadii sp. nov., isolated from a human clinical source. Anaerobe 16:161–164PubMedCrossRefGoogle Scholar
  31. Love DN, Bailey GD, Collings S, Briscoe DA (1992) Description of Porphyromonas circumdentaria sp. nov. and reassignment of Bacteroides salivosus (Love, Johnson, Jones, and Calverley 1987) as Porphyromonas (Shah and Collins 1988) salivosa comb. nov. Int J Syst Bacteriol 42:434–438PubMedCrossRefGoogle Scholar
  32. Love DN, Karjalainen J, Kanervo A, Forsblom B, Sarkiala E, Bailey GD, Wigney DI, Jousimies-Somer H (1994) Porphyromonas canoris sp. nov., an asaccharolytic, black-pigmented species from the gingival sulcus of dogs. Int J Syst Bacteriol 44:204–208PubMedCrossRefGoogle Scholar
  33. Maiden MFJ, Cohee P, Tanner ACR (2003) Proposal to conserve the adjectival form of the specific epithet in the reclassification of Bacteroides forsythus Tanner et al. 1986 to the genus Tannerella Sakamoto et al. 2002 as Tannerella forsythia corrig., gen. nov., comb. nov. request for an opinion. Int J Syst Evol Microbiol 53:2111–2112PubMedCrossRefGoogle Scholar
  34. Morotomi M, Nagai F, Sakon H, Tanaka R (2008) Dialister succinatiphilus sp. nov. and Barnesiella intestinihominis sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 58:2716–2720PubMedCrossRefGoogle Scholar
  35. Nagai F, Morotomi M, Watanabe Y, Sakon H, Tanaka R (2010) Alistipes indistinctus sp. nov. and Odoribacter laneus sp. nov., common members of the human intestinal microbiota isolated from faeces. Int J Syst Evol Microbiol 60:1296–1302PubMedCrossRefGoogle Scholar
  36. Naito M, Hirakawa H, Yamashita A, Ohara N, Shoji M et al (2008) Determination of the genome sequence of Porphyromonas gingivalis strain ATCC 33277 and genomic comparison with strain W83 revealed extensive genome rearrangements in P. gingivalis. DNA Res 15:215–225PubMedCentralPubMedCrossRefGoogle Scholar
  37. Nelson KE, Fleischmann RD, DeBoy RT, Paulsen IT, Fouts DE et al (2003) Complete genome sequence of the oral pathogenic bacterium Porphyromonas gingivalis strain W83. J Bacteriol 185:5591–5601PubMedCentralPubMedCrossRefGoogle Scholar
  38. Sakamoto M, Benno Y (2006) Reclassification of Bacteroides distasonis, Bacteroides goldsteinii and Bacteroides merdae as Parabacteroides distasonis gen. nov., comb. nov., Parabacteroides goldsteinii comb. nov. and Parabacteroides merdae comb. nov. Int J Syst Evol Microbiol 56:1599–1605PubMedCrossRefGoogle Scholar
  39. Sakamoto M, Ohkuma M (2013) Porphyromonas crevioricanis is an earlier heterotypic synonym of Porphyromonas cansulci and has priority. Int J Syst Evol Microbiol 63:454–457PubMedCrossRefGoogle Scholar
  40. Sakamoto M, Suzuki M, Umeda M, Ishikawa I, Benno Y (2002) Reclassification of Bacteroides forsythus (Tanner et al. 1986) as Tannerella forsythensis corrig., gen. nov. Int J Syst Evol Microbiol 52:841–849PubMedCrossRefGoogle Scholar
  41. Sakamoto M, Kitahara M, Benno Y (2007a) Parabacteroides johnsonii sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 57:293–296PubMedCrossRefGoogle Scholar
  42. Sakamoto M, Lan PTN, Benno Y (2007b) Barnesiella viscericola gen. nov., sp. nov., a novel member of the family Porphyromonadaceae isolated from chicken caecum. Int J Syst Evol Microbiol 57:342–346PubMedCrossRefGoogle Scholar
  43. Sakamoto M, Takagaki A, Matsumoto K, Kato Y, Goto K, Benno Y (2009a) Butyricimonas synergistica gen. nov., sp. nov. and Butyricimonas virosa sp. nov., butyric acid-producing bacteria in the family ‘Porphyromonadaceae’ isolated from rat faeces. Int J Syst Evol Microbiol 59:1748–1753PubMedCrossRefGoogle Scholar
  44. Sakamoto M, Suzuki N, Matsunaga N, Koshihara K, Seki M, Komiya H, Benno Y (2009b) Parabacteroides gordonii sp. nov., isolated from human blood cultures. Int J Syst Evol Microbiol 59:2843–2847PubMedCrossRefGoogle Scholar
  45. Shah HN, Collins MD (1988) Proposal for reclassification of Bacteroides asaccharolyticus, Bacteroides gingivalis, and Bacteroides endodontalis in a new genus, Porphyromonas. Int J Syst Bacteriol 38:128–131CrossRefGoogle Scholar
  46. Shan HN, Olsen I, Bernard K, Finegold SM, Gharbia S et al (2009) Approaches to the study of the systematics of anaerobic, Gram-negative, non-sporeforming rods: current status and perspectives. Anaerobe 15:179–194CrossRefGoogle Scholar
  47. Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinfomatics 22:2688–2690CrossRefGoogle Scholar
  48. Summanen PH, Durmaz B, Väisänen M-L, Liu C, Molitoris D, Eerola E, Helander IM, Finegold SM (2005) Porphyromonas somerae sp. nov., a pathogen isolated from humans and distinct from Porphyromonas levii. J Clin Microbiol 43:4455–4459PubMedCentralPubMedCrossRefGoogle Scholar
  49. Summanen PH, Lawson PA, Finegold SM (2009) Porphyromonas bennonis sp. nov., isolated from human clinical specimens. Int J Syst Evol Microbiol 59:1727–1732PubMedCrossRefGoogle Scholar
  50. Takemoto T, Kurihara H, Dahlen G (1997) Characterization of Bacteroides forsythus isolates. J Clin Microbiol 35:1378–1381PubMedCentralPubMedGoogle Scholar
  51. Tan H-Q, Li T-T, Zhu C, Zhang X-Q, Wu M, Zhu X-F (2012) Parabacteroides chartae sp. nov., an obligately anaerobic species from wastewater of a paper mill. Int J Syst Evol Microbiol 62:2613–2617PubMedCrossRefGoogle Scholar
  52. Tanner ACR, Haffer C, Bratthall GT, Visconti RA, Socransky SS (1979) A study of the bacteria associated with advancing periodontitis in man. J Clin Periodontol 6:278–307PubMedCrossRefGoogle Scholar
  53. Tanner ACR, Listgarten MA, Ebersole JL, Strezempko MN (1986) Bacteroides forsythus sp. nov., a slow-growing, fusiform Bacteroides sp. from the human oral cavity. Int J Syst Bacteriol 36:213–221CrossRefGoogle Scholar
  54. Ueki A, Akasaka H, Suzuki D, Ueki K (2006) Paludibacter propionicigenes gen. nov., sp. nov., a novel strictly anaerobic, Gram-negative, propionate-producing bacterium isolated from plant residue in irrigated rice-field soil in Japan. Int J Syst Evol Microbiol 56:39–44PubMedCrossRefGoogle Scholar
  55. Wallace PL, Hollis DG, Weaver RE, Moss CW (1989) Characterization of CDC group DF-3 by cellular fatty analysis. J Clin Microbiol 27:735–757PubMedCentralPubMedGoogle Scholar
  56. Watanabe T, Maruyama F, Nozawa T, Aoki A, Okano S et al (2011) Complete genome sequence of the bacterium Porphyromonas gingivalis TDC60, which causes periodontal disease. J Bacteriol 193:4259–4260PubMedCentralPubMedCrossRefGoogle Scholar
  57. Werner H, Rintelen G, Kunstek-Santos H (1975) Zentralblatt fur Bakteriologie, Parasitenkunde, Infektionskrankheiten und Hygiene. Abteilung I. 231:133–144Google Scholar
  58. Willems A, Collins MD (1995) Reclassification of Oribaculum catoniae (Moore and Moore 1994) as Porphyromonas catoniae comb. nov. and emendation of the genus Porphyromonas. Int J Syst Bacteriol 45:578–581PubMedCrossRefGoogle Scholar
  59. Wyss C (1989) Dependence of proliferation of Bacteroides forsythus on exogenous N-acetylmuramic acid. Infect Immun 57:1757–1759PubMedCentralPubMedGoogle Scholar
  60. Xu J, Mahowald MA, Ley RE, Lozupone CA, Hamady M et al (2007) Evolution of symbiotic bacteria in the distal human intestine. PLoS Biol 5:e156PubMedCentralPubMedCrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2014

Authors and Affiliations

  1. 1.Microbe Division/Japan Collection of MicroorganismsRIKEN BioResource CenterTsukubaJapan

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