Phylogenetic Analysis of Phenanthrene-Degrading Sphingomonas

  • 발행 : 2003.12.01

초록

Soil samples were obtained from 5 sites contaminated with polycyclic aromatic hydrocarbons (PAHs). These soil samples were cultured in using phenanthrene as a sole carbon and energy source, and 36 strains of phenanthrene-degrading bacteria were isolated from 3 sites. Most of them degraded 500 ppm of phenanthrene within 8 to 10 days, and these isolates could degrade a few other PAHs other than phenanthrene. Their genotypes were determined by restriction digests of the l6S rRNA genes [amplified ribosomal DNA restriction analysis (ARDRA)]. It was found that all the phenanthrene degrading isolates were included in 4 ARDRA types, and they showed a strict site endemism. l6S rDNAs of 12 strains selected from different sites were sequenced, and they were all confirmed as Sphingomonas strains. Their l6S rDNA sequences were compared for phylogenetic analysis; their sequence showed a similar result to ARDRA typing, thus indicating that these heterotrophic soil bacteria are not regionally mixed. In addition, it was found that the microbial diversity among sampling sites could be monitored by l6S rDNA PCR-RFLP pattern alone, which is simpler and easier to perform, without l6S rDNA sequence analysis.

키워드

참고문헌

  1. Appl. Environ. Microbiol. v.66 Isolation of adherent polycyclic aromatic hydrocarbon (PAH)-degrading bacteria using PAH-sorbing carriers Bastiaens,L.;D.Springael;P.Wattiau;H.Harms;P.Wachter;H.Verachtert;L.Diels https://doi.org/10.1128/AEM.66.5.1834-1843.2000
  2. Appl. Environ. Micriobiol. v.64 Spatial and temporal variation of phenanthrene-degrading bacteria in intertidal sediments Barardesco,G.;S.Dyhrman;E.Gallagher;M.P.Shiaris
  3. Adv. Appl. Micriobiol. v.30 Microbial metabolism of polycyclic aromatic hydrocarbons Cerniglia,C.E. https://doi.org/10.1016/S0065-2164(08)70052-2
  4. Appl. Environ. Micriobiol. v.66 Biogeography and degree of endemicity of fluorescent Pseudomonas strains in soil Cho,J.C.;J.M.Tiedje https://doi.org/10.1128/AEM.66.12.5448-5456.2000
  5. Envrion. Sci. Technol. v.30 Degradation of polynuclear aromatic hydrocarbons by Sphingomonas paucimobilis Dingyi,Y.E.;A.Siddiqi;A.E.Maccubbin;S.Kumar;H.C.Sikka https://doi.org/10.1021/es9501878
  6. Biochem. J. v.95 Oxidative metabolism of phenanthrene and anthrathene by soil peduomonads Evans,W.C.;H.N.Fernley;E.Griffiths https://doi.org/10.1042/bj0950819
  7. Appl. Environ. Micriobiol. v.64 High levels of 3-chlorobenzoate-degrading soil bacteria Fulthorpe,R.R.;A.N.Rhodes;J.M.Tiedje
  8. Appl. Environ. Micriobiol. v.64 Isolation of marine polycyclic aromatic hydrocarbon (PAH)-degrading Cycloclasticus strains form Gulf of Mexico and comparison of their PAH degradation ability with that-of puget sound Cycloclasticus strains Geiselbrecht,A.D.;B.P.Hedlund;M.A.Tichi;J.T.Staley
  9. Appl. Environ. Micriobiol. v.62 Molecular coloning of novel genes for polycyclic aromatic hydrocarbon degradation from Comamonas testosteroni GZ39 Goyal,A.K.;G.J.Zylstra
  10. Appl. Environ. Micriobiol. v.54 Mineralization of phenanthrene by Microbacterium sp Guerin,W.F.;G.E.Jones
  11. Appl. Environ. Micriobiol. v.65 Polycyclic aromatic hydrocarbon degradation by a new marine bacterium, Neptunomonas naphthovorans gen. nov., sp. nov Hedlund,B.P.;A.D.Geiselbrecht;T.J.Bair;J.T.Staley
  12. Int. Arch. Occup. Environ. Health v.74 Urinary monohydroxylated phenanthrenes and hydroxypyrene the effects of smoking habits and changes induced by smoking on monooxygenase-mediated metabolism Heudorf,U.;J.Angerer https://doi.org/10.1007/s004200000215
  13. J. Microbiol. Method. v.26 Applicability of combined amplified ribosomal DNA restriction analysis (ARDRA) patterns in bacterial phylogeny and taxonomy Heyndrickx,M.;L.Vauterin;P.Vandamme;K.Kersters;P.DeVos https://doi.org/10.1016/0167-7012(96)00916-5
  14. J. Mar. Biotechnol. v.2 Low growth yield of a marine Pseudomonas grown on phenanthrene: A general phenomenon in bacteria grown on polycyclic aromatic hydrocarbons Iwabuchi,T.;K.Venkateswaran;S.Harayama;H.Tanaka
  15. J. Mar. Biotechnol. v.6 Isolation and characterization of marine Nacardioides capble of growing and degrading phenanthrene at 42℃ Iwabuchi,T.;Y.Inomata-Uamauchi;A.Katsuta;S.Harayama
  16. J. Microbiol. Biotechnol. v.12 Molecular characteristics of Pseudomonas rhodesiae strain KK1 in response to phenanthrene Kahng,H.;K.Nam
  17. J. Bacteriol. v.182 Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by bacteria Kanaly,R.A.;S.Harayama
  18. Int. J. Syst. Bacteriol. v.46 Reclassification of a polycyclic aromatic hydrocarbon-metabolizing bacterium, Beijerinckia sp. strain B1, as Sphingomonas yanoikuyae by fatty acid anaysis, protein pattern analysis, DNA-DNA hybridization, and 16S ribosomal DNA sequencing Khan,A.A.;R.F.Wang;W.W.Cao;W.Franklin;C.E.Cerniglia https://doi.org/10.1099/00207713-46-2-466
  19. J. Microbiol. Biotechnol. v.11 Enhanced in-situ mobilization and biodegradation of phenanthrene from soil by a solvent/surfactant system Kim,E.;I.Ahn;L.W.Lion;M.L.Shuler
  20. J. Microbiol. Biotechnol. v.12 Molecular coloning of the nahC gene encoding 1,2-dihydroxynaphthalene dioxygenase from Pseudomonas fluorescens Kim,Y.;N.Lee;S.Choi;K.Min
  21. J. Gen. Microbiol. v.105 The catabolism of phenanthrene and naphthalen by bacteria Kiyohara,H.;K.Nagao https://doi.org/10.1099/00221287-105-1-69
  22. Appl. Environ. Micriobiol. v.43 Rapid screen for bacteria degrading water-insoluble, solid hydrocarbon on agar plate Kiyohara,H.;K.Nagao;K.Yano
  23. Appl. Environ. Micriobiol. v.43 Phenanthrene-degrading phenotype of Alcaligenes faecalis AFK2 Kiyohara,H.;K.Nagao;K.Yano
  24. Nucleic Acid Techniques in Bacterial Systematics 16S/23S rRNA sequencing Lane,D.J.;E.Stackebrandt(ed.);M.Goodfellow(ed.)
  25. Appl. Environ. Micriobiol. v.67 Degradation of phenanthrene and anthracene by cell suspensions of Mycobacterium sp. strain PYR-1 Moody,J.D.;J.P.Freeman;D.R.Doerge;C.E.Cerniglia
  26. J. Microbiol. Biotechnol. v.12 Linkage between biodegradation of polycyclic aromatic hydrocarbons and phospholipid profiles in soil isolates Nam,K.;H.S.Moon;J.Y.Kim;J.J.Kukor
  27. J. Microbiol. Biotechnol. v.11 Genetic and biochemical characterization of the biphenyl dioxygenase from Pseudomonas sp. strain B4 Rodarie,D.;Y.Jouanneau
  28. Univ. Kans. Sci. Bull. v.38 A statistical method for evaluating systematic relationships Sokal,R.R.;C.D.Michener
  29. Bull. Environ. Contam. Toxicol. v.65 Polycyclic aromatic hydrocarbon distributions in sediments from the Mar Piccolo, Ionian Sea, Italy Storelli,M.M.;G.O.Marcotrigigano https://doi.org/10.1007/s001280000157
  30. Comput. Applic. Biosci. v.13 Construction of evolutionary distance trees with TREECON for windows: accunting for variation in nucleotide substitution rate among sites Peer,V.;Y. R. De Wachter