Abstract
Sequence analysis of the circular 101,016-bp plasmid pKB1 from the rubber-degrading bacterium Gordonia westfalica strain Kb1 revealed 105 open reading frames (ORFs) which could be assigned to three functional groups (a) replication and partitioning, (b) catabolism, and (c) conjugative transfer. Successful con-jugative transfer of pKB1 demonstrated the functionality of its conjugative transfer genes. The origin of replication of pKB1 was identified and used for construction of two Escherichia coliGordonia shuttle vectors suitable for several Gordonia species and related genera. As expression of the pKB1-encoded cadA in E. coli mediated resistance to cadmium, cadA was used as a pKB1-specific selection marker to monitor transfer of pKB1 by electroporation and conjugation to taxonomically related bacteria, mediating cadmium resistance to a maximal concentration of 800 μ M to the recombinant pKB1-harboring strains. Plasmid pKB1-free mutants of G. westfalica strain Kb1 had lost the ability to use natural rubber (NR) as sole carbon source, thereby suggesting that genes essential for NR degradation are encoded by pKB1. Transcription analysis of pKB1-encoded genes with a putative metabolic function revealed that ORF42 (a putative cytochrome c oxidase) and ORF6 (a putative epoxide hydrolase) are induced in cells of G. westfalica strain Kb1 during growth on NR but not or only slightly on sodium acetate. As genetic engineering of pKB1 in its host G. westfalica strain Kb1 failed due to the lack of an effective gene transfer system for this strain, pKB1 was transferred to genetically approachable strains for engineering and analysis of pKB1-encoded features.
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Arenskötter M, Baumeister D, Berekaa MM, Pötter G, Kroppenstedt RM, Linos A, Steinbüchel A (2001) Taxonomic characterization of two rubber-degrading bacteria belonging to the species Gordonia polyisoprenivorans and analysis of hypervariable regions of 16 S rDNA sequences. FEMS Microbiol Lett 205:277–282
Arenskötter M, Baumeister D, Kalscheuer R, Steinbüchel A (2003) Identification and application of plasmids suitable for transfer of foreign DNA to members of the genus Gordonia. Appl Environ Microbiol 69:4971–4974
Arenskötter M, Bröker D, Steinbüchel A (2004) Biology of the metabolically diverse genus Gordonia. Appl Environ Microbiol 70:3195–3204
Arenskötter M, Linos A, Schumann P, Kroppenstedt RM, Steinbüchel A (2005) Gordonia nitida Yoon et al. 2001 is a later synonym of Gordonia alkanivorans Kummer et al. 1999. Int J Syst Evol Microbiol 55:695–697
Banh Q, Arenskötter M, Steinbüchel A (2005) Establishment of Tn5096-based transposon mutagenesis in Gordonia polyisoprenivorans. Appl Environ Microbiol 71:5077–5084
Braaz R, Fischer P, Jendrossek D (2004) Novel type of heme-dependent oxygenase catalyses oxidative cleavage of rubber poly(cis-1,4-isoprene). Appl Environ Microbiol 70:7388–7395
Braaz R, Armbruster W, Jendrossek D (2005) Heme-dependent rubber oxygenase RoxA of Xanthomonas sp. cleaves the carbon backbone of poly(cis-1,4-isoprene) by a dioxygenase mechanism. Appl Environ Microbiol 71:2473–2478
Bröker D, Arenskötter M, Legatzki A, Nies DH, Steinbüchel A (2004) Characterization of the 101.016-kbp megaplasmid pKB1 isolated from the rubber degrading bacterium Gordonia westfalica Kb1. J Bacteriol 186:212–225
Bröker D, Arenskötter M, Steinbüchel A (2008) Transfer of megaplasmid pKB1 from the rubber-degrading bacterium Gordonia westfalica strain Kb1 to related bacteria and its modification. Appl Microbiol Biotechnol 77:1317–1327
Byrd DR, Matson SW (1997) Nicking by transesterification: the reaction catalysed by a relaxase. Mol Microbiol 25:1011–1022
Chang JH, Kim YJ, Lee BH, Cho K-S, Rye HW, Chang YK, Chang HN (2001) Production of a desulfurization biocatalyst by two-stage fermentation and its application for the treatment of model and diesel oils. Biotechnol Prog 17:876–880
Chatterjee S, Dutta TK (2003) Metabolism of butyl benzyl phthalate by Gordonia sp. strain MTCC 4818. Biochem Biophys Res Commun 254:311–314
Cook AM, Hütter R (1984) Deethylsimazine: bacterial dechlorination, deamination, and complete degradation. J Agric Food Chem 32:581–585
Cook AM, Hütter R (1986) Ring dechlorination of deethylsimazine by hydrolases from Rhodococcus corallinus. FEMS Microbiol Lett 34:335–338
De Miguel T, Sieiro C, Poza M, Villa TG (2000) Isolation and taxonomic study of a new canthaxanthin-containing bacterium, Gordonia jacobaea MV-1 sp. nov. Int Microbiol 3:107–111
De Miguel T, Sieiro C, Poza M, Villa TG (2001) Analysis of canthaxanthin and related pigments from Gordonia jacobaea mutants. J Agric Food Chem 49:1200–1202
Denis-Larose C, Bergeron H, Labbé D, Greer CW, Hawari J, Grossman MJ, Sankey BM, Lau PCK (1998) Characterization of the basic replicon of Rhodococcus plasmid pSOX and development of a Rhodococcus-Escherichia coli shuttle vector. Appl Environ Microbiol 64:4363–4367
Fetzner S, Kolkenbrock S, Parschat K (2007) Catabolic linear plasmids. In: A (ed) Steinbüchel Microbiology monographs, vol 7. Springer, Berlin, pp 63–98
Freedman JA, Chan SH (1984) Interactions in cytochrome oxidase: functions and structure. J Bioenerg Biomembr 16:75–100
Fusconi R, Godinho MJL (2002) Screening for exopolysaccharide-producing bacteria from subtropical polluted groundwater. Braz J Biol 62:363–369
Gilbert SC, Morton J, Buchanan S, Oldfield C, McRoberts A (1998) Isolation of a unique benzothiophene-desulphurizing bacterium, Gordona sp. 213E (NCIMB 40816), and characterization of the desulphurization pathway. Microbiology 144:2545–2553
Grohmann E, Muth G, Espinosa M (2003) Conjugative plasmid transfer in gram-positive bacteria. Microbiol Mol Biol Rev 67:277–301
Hernandez-Perez G, Fayolle F, Vandecasteele J-P (2001) Biodegradation of ethyl t-butyl ether (ETBE), methyl t-butyl ether (MTBE) and t-amyl methyl ether (TAME) by Gordonia terrae. Appl Microbiol Biotechnol 55:117–121
Jendrossek D, Tomasi G, Kroppenstedt RM (1997a) Bacterial degradation of natural rubber: a privilege of actinomycetes? FEMS Microbiol Lett 150:179–188
Jendrossek D, Tomasi G, Schlegel HG (1997b) Mikrobiologischer Abbau von Kautschuk. Nachrichten der Akademie der Wissenschaften in Göttingen. II mathematisch-physikalische Klasse. Nr 1. Vandenhoeck & Ruprecht, Göttingen
Johan ET, van Vlieg H, Leemhuis H, Spielberg JHL, Janssen DB (2000) Characterization of the gene cluster involved in isoprene metabolism in Rhodococcus sp. strain AD45. J Bacteriol 182:1956–1963
Kim SB, Brown R, Oldfield C, Gilbert SC, Goodfellow M (1999) Gordonia desulfuricans sp. nov., a benzothiophene-desulfurizing actinomycete. Int J Syst Bacteriol 49:1845–1851
Kim SB, Brown R, Oldfield C, Gilbert SC, Iliarionov S, Goodfellow M (2000) Gordonia amicalis sp. nov., a dibenzothiophene-desulfurizing actinomycete. Int J Syst Bacteriol 50:2031–2036
Koma D, Sakashita Y, Kubota K, Fujii Y, Hasumi F, Chung S-Y, Kubo M (2003) Degradation of car engine base oil by Rhodococcus sp. NDKK48 and Gordonia sp. NDKY76A. Biosci Biotechnol Biochem 67:1590–1593
Kondo T, Yamamoto D, Yokota A, Suzuki A, Nagasawa H, Sakuda S (2000) Gordonan, an acidic polysaccharide with cell aggregation-inducing activity in insect BM-N4 cells, produced by Gordonia sp. Biosci Biotechnol Biochem 64:2388–2394
Kotani T, Yamamoto T, Yurimoto H, Sakai Y, Kato N (2003) Propane monooxygenase and NAD + -dependent secondary alcohol dehydrogenase in propane metabolism by Gordonia sp. strain TY-5. J Bacteriol 185:7120–7128
Kotani T, Yurimoto H, Kato N, Sakai Y (2007) Novel acetone metabolism in a propane-utilizing bacterium, Gordonia sp. strain TY-5. J Bacteriol 189:886–893
Kovach ME, Elzer PH, Hill DS, Robertson GT, Farris MA, Roop RM, Peterson KM (1995) Four new derivates of the broad host range cloning vector pBBR1MCS, carrying different antibiotic resistance cassettes. Gene 166:175–176
Linos A, Steinbüchel A (1998) Microbial degradation of natural and synthetic rubbers by novel bacteria belonging to the genus Gordona. Kautsch Gummi Kunstst 51:496–499
Linos A, Steinbüchel A, Spröer C, Kroppenstedt RM (1999) Gordonia polyisoprenivorans sp. nov., a rubber degrading actinomycete isolated from automobil tire. Int J Syst Bacteriol 49:1785–1791
Linos A, Berekaa MM, Reichelt R, Keller U, Schmitt J, Flemming HC, Kroppenstedt RM, Steinbüchel A (2000) Biodegradation of cis -1,4-polyisoprene rubbers by distinct actinomycetes: Microbial strategies and detailed surface analysis. Appl Environ Microbiol 66:1639–1645
Linos A, Berekaa MM, Steinbüchel A, Kim KK, Spröer C, Kroppenstedt RM (2002) Gordonia westfalica sp. nov., a novel rubber-degrading actinomycte. Int J Syst Evol Mircobiol 52:1133–1139
Mikolasch A, Hammer E, Schauer F (2003) Synthesis of imidazol-2-yl amino acids by using cells from alkane-oxidizing bacteria. Appl Environ Microbiol 69:1670–1679
Mulbry WW (1994) Purification and characterization of an inducible s -triazine hydrolase from Rhodococcus corallinus NRRL B-15444R. Appl Environ Microbiol 60:613–618
Nakamura M, Ogata K, Nagamine T, Tajima K, Matsui H, Benno Y (2001) The replicon of the cryptic plasmid pSBO1 isolated from Streptococcus bovis JB1. Curr Microbiol 43:11–16
Negoro S (2000) Biodegradation of nylon oligomers. Appl Environ Microbiol 54:461–466
Nies DH, Silver S (2007) Molecular microbiology of heavy metals. In: A (ed) Steinbüchel Microbiology monographs, vol 6. Springer, Berlin
Rhee SK, Chang JH, Chang HN (1998) Desulfurization of dibenzothiophene and diesel oils by a newly isolated Gordona strain, CYKS1. Appl Environ Microbiol 64:2327–2331
Rose K, Steinbüchel A (2005) Biodegradation of natural rubber and related compounds: recent insights into a hardly understood catabolic capability of microorganisms. Appl Environ Microbiol 71:2803–2812
Rose K, Tenberge KB, Steinbüchel A (2005) Identification and characterization of genes from Streptomyces sp. strain K30 responsible for clear zone formation on natural rubber latex and poly(cis-1,4-isoprene) rubber degradation. Biomacromolecules 6:180–188
Stackebrandt E, Rainey FA, Ward-Rainey NL (1997) Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479–491
Stecker C, Johann A, Herzberg C, Averhoff B, Gottschalk G (2003) Complete nucleotide sequence and genetic organization of the 210-kilobase linear plasmid of Rhodococcus erythropolis BD2. J Bacteriol 185:5269–5274
Tan H-M (1999) Bacterial catabolic transposons. Appl Microbiol Biotechnol 51:1–12
Tsuchii A, Takeda K, Tokiwa Y (1996) Colonization and degradation of rubber pieces by Nocardia sp. Biodegradation 7:41–48
Vazquez-Duhalt R (1999) Cytochrome c as a biocatalyst. J Mol Catalysis B: Enzymatic 7:241–249
Veiga-Crespo P, Feijoo-Siota L, de Miguel T, Poza M, Villa TG (2006) Proposal of a method for the genetic transformation of Gordonia jacobae. J Appl Microbiol 100:608–614
Yamada T, Morisseau C, Maxwell JE, Argiriadi MA, Christianson DW, Hammock BD (2000) Biochemical evidence for the involvement of tyrosine in epoxide activation during the catalytic cycle of epoxide hydrolase. J Biol Chem 275:23082–23088
Yang JC, Lessard PA, Sengupta N, Windsor SD, O'Brien XM, Bramucci M, Tomb J-F, Nagarajan V, Sinskey AJ (2007) TraA is required for megaplasmid conjugation in Rhodococcus erythropolis AN12. Plasmid 57:55–70
Yoon J-H, Lee JJ, Kang SS, Takeuchi M, Shin YK, Lee ST, Kang KH, Park YH (2000) Gordonia nitida sp. nov., a bacterium that degrades 3-ethylpyridine and 3-methylpyridine. Int J Syst Evol Microbiol 50:1203–1210
Zheng H, Tkachuk-Saad O, Prescott JF (1997) Development of a Rhodococcus equi-Escherichiacoli plasmid shuttle vector. Plasmid 38:180–187
Acknowledgments
The authors are very grateful to the members of the laboratory, who were engaged in research on degradation of polyisoprenoides in the last 10 years. Research on micro-bial rubber degradation was in the past and is currently supported by grant provided by the Deutsche Bundesstiftung Umwelt (AZ. 13,072) and the Deutsche Forschungsgemeinschaft (Ste 386/10–), respectively.
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Bröker, D., Steinbüchel, A. (2009). Megaplasmid pKB1 of the Rubber-Degrading Bacterium Gordonia westfalica Strain Kb1. In: Schwartz, E. (eds) Microbial Megaplasmids. Microbiology Monographs, vol 11. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-85467-8_14
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DOI: https://doi.org/10.1007/978-3-540-85467-8_14
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