User menu

Accès à distance ? S'identifier sur le proxy UCLouvain

Streptomycin as a selective agent to facilitate recovery and isolation of introduced and indigenous Sphingomonas from environmental samples

Primary tabs

Vanbroekhoven, K Ryngaert, A Bastiaens, L Wattiau, Pierre [UCL] Vancanneyt, M. Springael, Dirk [UCL]

Sphingomonas is an organism of major interest for the degradation of organic contaminants in soils and other environments. A medium based on the aminoglycoside antibiotic streptomycin (Sm) was developed, which, together with the yellow pigmentation of Sphingomonas, facilitated the detection, recovery and quantification of culturable Sphingomonas from soils. All 29 previously described bacterial strains belonging to 17 different Sphingomonas species were able to grow on mineral media containing 200 mug ml(-1) streptomycin, showing that the capacity to resist high concentrations of Sm is a common characteristic within Sphingomonas. Incorporation of Sm into the mineral medium led to a significant reduction in the background microbial population and a concomitant 100 times more sensitive detection of Sphingomonas inoculated in non-sterile soil matrices. The Sm-containing medium was used to examine a variety of hydrocarbon-contaminated soils for the presence and biodiversity of Sphingomonas. Incorporation of Sm in the medium led to a significant increase in the number of yellow-pigmented colonies. Comparison of contaminated and non-contaminated soils derived from the same site revealed colonization by culturable yellow-pigmented Sm-resistant bacteria of the polluted location solely. Both yellow and non-yellow-pigmented colonies were purified from plates containing glucose and Sm, and BOX-polymerase chain reaction (PCR) was used to sort out clonally related strains. Representative strains from the major BOX-PCR clusters were identified using FAME and partial 16S rRNA gene sequencing. Forty-eight of 58 Sm-resistant isolates were identified as Sphingomonas sp. Streptomycin-resistant Sphingomonas isolates generated BOX-PCR diversity patterns that were site dependent and represented different species mainly belonging to Sphingomonas subgroups containing species formerly designated as Sphingopyxis and Sphingobium. The ability to degrade phenanthrene was only found in a minority of the Sphingomonas isolates, which all originated from soils containing high phenanthrene concentrations.

Document type Article de périodique (Journal article) – Article de recherche
Publication date 2004
Language Anglais
Journal information "Environmental Microbiology" - Vol. 6, no. 11, p. 1123-1136 (2004)
Peer reviewed yes
Publisher Blackwell Publishing Ltd (Oxford)
issn 1462-2912
e-issn 1462-2920
Publication status Publié
Affiliation UCL
Links
  1. Gibson D.T., J Ind Microbiol Biotechnol, 23, 284 (1973)
  2. Mueller J.G., Appl Environ Microbiol, 56, 1079 (1990)
  3. Khan A., Int J Syst Bacteriol, 46, 466 (1996)
  4. Bastiaens L., Springael D., Wattiau P., Harms H., deWachter R., Verachtert H., Diels L., Isolation of Adherent Polycyclic Aromatic Hydrocarbon (PAH)-Degrading Bacteria Using PAH-Sorbing Carriers, 10.1128/aem.66.5.1834-1843.2000
  5. Pinyakong O, Identification of novel metabolites in the degradation of phenanthrene by Sphingomonas sp. strain P2, 10.1016/s0378-1097(00)00380-3
  6. Stolz A, Degradation of substituted naphthalenesulfonic acids by Sphingomonas xenophaga BN6, 10.1038/sj.jim.2900725
  7. Cassidy M B, Lee H, Trevors J T, Zablotowicz R B, Chlorophenol and nitrophenol metabolism by Sphingomonas sp UG30, 10.1038/sj.jim.2900749
  8. Crawford R L, Ederer M M, Phylogeny of Sphingomonas species that degrade pentachlorophenol, 10.1038/sj.jim.2900729
  9. Keim T, Francke W, Schmidt S, Fortnagel P, Catabolism of 2,7-dichloro- and 2,4,8-trichlorodibenzofuran by Sphingomonas sp strain RW1, 10.1038/sj.jim.2900739
  10. Keim T, Francke W, Schmidt S, Fortnagel P, Catabolism of 2,7-dichloro- and 2,4,8-trichlorodibenzofuran by Sphingomonas sp strain RW1, 10.1038/sj.jim.2900739
  11. Nagata Y, Miyauchi K, Takagi M, Complete analysis of genes and enzymes for ?-hexachlorocyclohexane degradation in Sphingomonas paucimobilis UT26, 10.1038/sj.jim.2900736
  12. Adkins A, Degradation of the phenoxy acid herbicide diclofop-methyl by Sphingomonas paucimobilis isolated from a Canadian prairie soil, 10.1038/sj.jim.2900744
  13. Kohler H P E, Sphingomonas herbicidovorans MH: a versatile phenoxyalkanoic acid herbicide degrader, 10.1038/sj.jim.2900751
  14. Feng X., Appl Environ Microbiol, 63, 1332 (1997)
  15. Momma K, Hashimoto W, Miyake O, Yoon H-J, Kawai S, Mishima Y, Mikami B, Murata K, Special cell surface structure, and novel macromolecule transport/depolymerization system of Sphingomonas sp A1, 10.1038/sj.jim.2900719
  16. Sorensen S. R., Ronen Z., Aamand J., Isolation from Agricultural Soil and Characterization of a Sphingomonas sp. Able To Mineralize the Phenylurea Herbicide Isoproturon, 10.1128/aem.67.12.5403-5409.2001
  17. Frederickson J.K., Appl Environ Microbiol, 61, 1917 (1995)
  18. Fredrickson J K, Balkwill D L, Romine M F, Shi T, Ecology, physiology, and phylogeny of deep subsurface Sphingomonas sp, 10.1038/sj.jim.2900741
  19. Tiirola M. A., Mannisto M. K., Puhakka J. A., Kulomaa M. S., Isolation and Characterization of Novosphingobium sp. Strain MT1, a Dominant Polychlorophenol-Degrading Strain in a Groundwater Bioremediation System, 10.1128/aem.68.1.173-180.2002
  20. Coughlin M F, Kinkle B K, Bishop P L, Degradation of azo dyes containing aminonaphthol by Sphingomonas sp strain 1CX, 10.1038/sj.jim.2900746
  21. Daane L. L., Harjono I., Zylstra G. J., Haggblom M. M., Isolation and Characterization of Polycyclic Aromatic Hydrocarbon-Degrading Bacteria Associated with the Rhizosphere of Salt Marsh Plants, 10.1128/aem.67.6.2683-2691.2001
  22. Tabata K., Appl Environ Microbiol, 65, 4268 (1999)
  23. Gilewicz M., Not Available Not Available, Nadalig T., Budzinski H., Doumenq P., Michotey V., Bertrand J. C., Isolation and characterization of a marine bacterium capable of utilizing 2-methylphenanthrene, 10.1007/s002530051091
  24. Wiese A, Seydel U, Interaction of peptides and proteins with bacterial surface glycolipids: a comparison of glycosphingolipids and lipopolysaccharides, 10.1038/sj.jim.2900709
  25. Busse H-J, K�mpfer P, Denner E B M, Chemotaxonomic characterisation of Sphingomonas, 10.1038/sj.jim.2900745
  26. Takeuchi M, Hamana K, Hiraishi A, Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses., 10.1099/00207713-51-4-1405
  27. Yabuuchi E., Emendation of the genus Sphingomonas Yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, Sphingobium, Novosphingobium and Sphingopyxis, in conjunction with Blastomonas ursincola, 10.1099/ijs.0.01868-0
  28. Leung K T, Chang Y J, Gan Y D, Peacock A, Macnaughton S J, Stephen J R, Burkhalter R S, Flemming C A, White <, Detection of Sphingomonas spp in soil by PCR and sphingolipid biomarker analysis, 10.1038/sj.jim.2900677
  29. Leys N. M. E. J., Ryngaert A., Bastiaens L., Verstraete W., Top E. M., Springael D., Occurrence and Phylogenetic Diversity of Sphingomonas Strains in Soils Contaminated with Polycyclic Aromatic Hydrocarbons, 10.1128/aem.70.4.1944-1955.2004
  30. Neef A, Witzenberger R, K�mpfer P, Detection of sphingomonads and in situ identification in activated sludge using 16S rRNA-targeted oligonucleotide probes, 10.1038/sj.jim.2900768
  31. Aagot N., Nybroe O., Nielsen P., Johnsen K., An Altered Pseudomonas Diversity Is Recovered from Soil by Using Nutrient-Poor Pseudomonas-Selective Soil Extract Media, 10.1128/aem.67.11.5233-5239.2001
  32. Mougel C., Cournoyer B., Nesme X., Novel Tellurite-Amended Media and Specific Chromosomal and Ti Plasmid Probes for Direct Analysis of Soil Populations of Agrobacterium Biovars 1 and 2, 10.1128/aem.67.1.65-74.2001
  33. Stahly D., Appl Environ Microbiol, 58, 740 (1992)
  34. Egan S., Appl Environ Microbiol, 64, 5061 (1998)
  35. Kornder J.D., Streptomycin revisited: molecular action in the microbial cell, 10.1054/mehy.2001.1450
  36. Miranda Claudio D, Zemelman Raul, Bacterial resistance to oxytetracycline in Chilean salmon farming, 10.1016/s0044-8486(02)00124-2
  37. Kawasaki S., J Bacteriol, 176, 284 (1994)
  38. VANOVERBEEK L, WELLINGTON E, EGAN S, SMALLA K, HEUER H, COLLARD J, GUILLAUME G, KARAGOUNI A, NIKOLAKOPOULOU T, VANELSAS J, Prevalence of streptomycin-resistance genes in bacterial populations in European habitats, 10.1016/s0168-6496(02)00345-8
  39. Lloyd-Jones G., Appl Environ Microbiol, 63, 3286 (1997)
  40. Kim E, Zylstra G J, Functional analysis of genes involved in biphenyl, naphthalene, phenanthrene, and m -xylene degradation by Sphingomonas yanoikuyae B1, 10.1038/sj.jim.2900724
  41. Kim E., Appl Environ Microbiol, 62, 1467 (1996)
  42. Romine M.F., J Bacteriol, 181, 1585 (1999)
  43. Wattiau Pierre, Bastiaens Leen, van Herwijnen René, Daal Ludwin, Parsons John R, Renard Marie-Eve, Springael Dirk, Cornelis Guy R, Fluorene degradation by Sphingomonas sp. LB126 proceeds through protocatechuic acid: a genetic analysis, 10.1016/s0923-2508(01)01269-4
  44. Bastiaens Leen, Springael Dirk, Dejonghe Winnie, Wattiau Pierre, Verachtert Hubert, Diels Ludo, A transcriptional luxAB reporter fusion responding to fluorene in Sphingomonas sp. LB126 and its initial characterisation for whole-cell bioreporter purposes, 10.1016/s0923-2508(01)01268-2
  45. Fulthorpe R.R., Appl Environ Microbiol, 64, 1620 (1998)
  46. Mueller J.G., Bioremediation of Chlorinated and PAH Compounds., 218 (1994)
  47. Mergeay M., Molecular Microbial Ecology Manual, 1 (1995)
  48. Kiyohara H., Appl Environ Microbiol, 43, 454 (1982)
  49. Bron Sierd, Venema Gerard, Ultraviolet inactivation and excision-repair in Bacillus subtilis I. Construction and characterization of a transformable eightfold auxotrophic strain and two ultraviolet-sensitive derivatives, 10.1016/0027-5107(72)90086-3
  50. Meyer S., Microbiology, 145, 1731 (1999)
  51. Rademaker J.L.W., Molecular Microbial Ecology Manual, 1 (1998)
  52. Lane D.J., Nucleic Acid Techniques in Bacterial Systematics, 115 (1991)
  53. Altschul S., Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, 10.1093/nar/25.17.3389
  54. L. Bastiaens (1998 ) . PhD Thesis. Catholic University of Leuven, Leuven, Belgium.
  55. Bayer E.A., J Gen Microbiol, 127, 295 (1981)
  56. Bertoni G., Appl Environ Microbiol, 64, 3626 (1998)
  57. Erickson B., J Bacteriol, 174, 2903 (1992)
  58. Gibson D.T., Biochemistry, 9, 1626 (1970)
  59. Johnson G., Appl Environ Microbiol, 63, 4047 (1997)
  60. Mueller J.G., Devereux R., Santavy D.L., Lantz S.E., Willis S.G., Pritchard P.H., 10.1023/a:1000277008064
  61. van Elsas J.D., Rosado A.S., Wolters A.C., Moore E., Karlson U., Quantitative detection of Sphingomonas chlorophenolica in soil via competitive polymerase chain reaction, 10.1046/j.1365-2672.1998.853509.x
  62. Whited G., J Bacteriol, 173, 3010 (1991)
  63. Wittich R.M., Appl Environ Microbiol, 58, 1005 (1992)
  64. Worsey M.J., J Bacteriol, 124, 7 (1975)
  65. Yabuuchi Eiko, Kawamura Yoshiaki, Kosako Yoshimasa, Ezaki Takayuki, Emendation of Genus Achromobacter and Achromobacter xylosoxidans (Yabuuchi and Yano) and Proposal of Achromobacter ruhlandii (Packer and Vishniac) Comb. Nov., Achromobacter piechaudii (Kiredjian et al.) Comb. Nov., and Achromobacter xylosoxidans Subsp. de, 10.1111/j.1348-0421.1998.tb02306.x
Bibliographic reference Vanbroekhoven, K ; Ryngaert, A ; Bastiaens, L ; Wattiau, Pierre ; Vancanneyt, M. ; et. al. Streptomycin as a selective agent to facilitate recovery and isolation of introduced and indigenous Sphingomonas from environmental samples. In: Environmental Microbiology, Vol. 6, no. 11, p. 1123-1136 (2004)
Permanent URL http://hdl.handle.net/2078.1/39961