Skip to main content

Linear Plasmids and Phytopathogenicity

  • Chapter
  • First Online:
Microbial Linear Plasmids

Part of the book series: Microbiology Monographs ((MICROMONO,volume 7))

Abstract

The occurrence of plasmids is typically correlated with the acquisition of specialized traits that can be very diverse. Production of secondary metabolites, achievement of complex catabolic reactions, and adaptation to particular habitats are just a few examples of functions that are often encoded by circular or linear extrachromosomal replicons. Although virulence is another classical characteristic that is frequently associated with the presence of plasmids, until now there is only one known case in which the phytopathogenic capacity is encoded by a linear plasmid. The actinomycete Rhodococcus fascians is a wide-spectrum plant pathogen that provokes shooty neoplastic outgrowths on its hosts. The key virulence determinants of this bacterium are located on a linear replicon of the invertron type. Even though the sequence determination of the linear plasmid of R. fascians strain D188 (pFiD188) is not completed, a first comparative analysis shows that is has probably a common origin with catabolic linear plasmids of other Rhodococcus strains. Whereas the colinear regions encode plasmid maintenance functions, the three unique regions of pFiD188 are involved in specific aspects of the interaction.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 129.00
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 169.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Alfano JR, Charkowski AO, Deng W-L, Badel JL, Petnicki-Ocwieja T, van Dijk K, Collmer A (2000) The Pseudomonas syringae Hrp pathogenicity island has a tripartite mosaic structure composed of a cluster of type III secretion genes bounded by exchangeable effector and conserved effector loci that contribute to parasitic fitness and pathogenicity in plants. Proc Natl Acad Sci USA 97:4856–4861

    Article  PubMed  CAS  Google Scholar 

  2. Araki H, Tian D, Gross EM, Jakob K, Halldorsdottir SS, Kreitman M, Bergelson J (2006) Presence/absence polymorphism for alternative pathogenicity islands in Pseudomonas viridiflava, a pathogen of Arabidopsis. Proc Natl Acad Sci USA 103:5887–5892

    Article  PubMed  CAS  Google Scholar 

  3. Bao K, Cohen SN (2006) Recruitment of terminal protein to the ends of Streptomyces linear plasmids and chromosomes by a novel telomere-binding protein essential for linear DNA replication. Genes Dev 17:774–785

    Article  CAS  Google Scholar 

  4. Barash I, Manulis S (2005) Hrp-dependent biotrophic mechanism of virulence: how has it evolved in tumorigenic bacteria? Phytoparasitica 33:317–324

    Article  CAS  Google Scholar 

  5. Bell KS, Philp JC, Aw DWJ, Christofi N (1998) The genus Rhodococcus. J Appl Microbiol 85:195–210

    Article  PubMed  CAS  Google Scholar 

  6. Bentley SD, Brown S, Murphy LD, Harris DE, Quail MA, Parkhill J, Barrell BG, McCormick JR, Santamaria RI, Losick R, Yamasaki M, Kinashi H, Chen CW, Chandra G, Jakimowicz D, Kieser HM, Kieser T, Chater KF (2004) SCP1, a 356 023 bp linear plasmid adapted to the ecology and developmental biology of its host, Streptomyces coelicolor A3(2). Mol Microbiol 51:1615–1628

    Article  PubMed  CAS  Google Scholar 

  7. Boitel B, Ortiz-Lombardía M, Durán R, Pompeo F, Cole ST, Cerveñansky C, Alzari PM (2003) PknB kinase activity is regulated by phosphorylation in two Thr residues and dephosphorylation by PstP, the cognate phospho-Ser/Thr phosphatase, in Mycobacterium tuberculosis. Mol Microbiol 49:1493–1508

    Article  PubMed  CAS  Google Scholar 

  8. Brown SE, Knudson DL, Ishimaru CA (2002) Linear plasmid in the genome of Clavibacter michiganensis subsp. sepedonicus. J Bacteriol 184:2841–2844

    Article  PubMed  CAS  Google Scholar 

  9. Carver TJ, Rutherford KM, Berriman M, Rajandream M-A, Barrell BG, Parkhill J (2005) ACT: the Artemis comparison tool. Bioinformatics 21:3422–3423

    Article  PubMed  CAS  Google Scholar 

  10. Chater KF, Kinashi H (2007) Streptomyces Linear Plasmids: their Discovery, Functions, Interactions with other Replicons, and Evolutionary Significance (in this volume). Springer, Heidelberg

    Google Scholar 

  11. Chen CW (2007) Streptomyces Linear Plasmids: Replication and Telemores (in this volume). Springer, Heidelberg

    Google Scholar 

  12. Cornelis K, Ritsema T, Nijsse J, Holsters M, Goethals K, Jaziri M (2001) The plant pathogen Rhodococcus fascians colonizes the exterior and interior of the aerial parts of plants. Mol Plant-Microbe Interact 14:599–608

    Article  PubMed  CAS  Google Scholar 

  13. Cornelis K, Maes T, Jaziri M, Holsters M, Goethals K (2002) Virulence genes of the phytopathogen Rhodococcus fascians show specific spatial and temporal expression patterns during plant infection. Mol Plant-Microbe Interact 15:398–403

    Article  PubMed  CAS  Google Scholar 

  14. Crespi M, Messens E, Caplan AB, Van Montagu M, Desomer J (1992) Fasciation induction by the phytopathogen Rhodococcus fascians depends upon a linear plasmid encoding a cytokinin synthase gene. EMBO J 11:795–804

    PubMed  CAS  Google Scholar 

  15. Crespi M, Vereecke D, Temmerman W, Van Montagu M, Desomer J (1994) The fas operon of Rhodococcus fascians encodes new genes required for efficient fasciation of host plants. J Bacteriol 176:2492–2501

    PubMed  CAS  Google Scholar 

  16. Dasgupta A, Datta P, Kundu M, Basu J (2006) The serine/threonine kinase PknB of Mycobacterium tuberculosis phosphorylates PBPA, a penicillin-binding protein required for cell division. Microbiology 152:493–504

    Article  PubMed  CAS  Google Scholar 

  17. Desomer J, Dhaese P, Van Montagu M (1988) Conjugative transfer of cadmium resistance plasmids in Rhodococcus fascians strains. J Bacteriol 170:2401–2405

    PubMed  CAS  Google Scholar 

  18. Fetzner S, Kolkenbrock S, Parschat K (2007) Catabolic Linear Plasmids (in this volume). Springer, Heidelberg

    Google Scholar 

  19. Finking R, Marahiel MA (2004) Biosynthesis of nonribosomal peptides. Annu Rev Microbiol 58:453–488

    Article  PubMed  CAS  Google Scholar 

  20. Frost LS, Leplae R, Summers AO, Toussaint A (2005) Mobile genetic elements: the agents of open source evolution. Nat Rev Microbiol 3:722–732

    Article  PubMed  CAS  Google Scholar 

  21. Gal-Mor O, Finlay BB (2006) Pathogenicity islands: a molecular toolbox for bacterial virulence. Cell Microbiol 8:1707–1719

    Article  PubMed  CAS  Google Scholar 

  22. Gartemann K-H, Kirchner O, Engemann J, Gräfen I, Eichenlaub R, Burger A (2003) Clavibacter michiganensis subsp. michiganensis: first steps in the understanding of virulence of a Gram-positive phytopathogenic bacterium. J Biotechnol 106:179–191

    Article  PubMed  CAS  Google Scholar 

  23. Goethals K, Vereecke D, Jaziri M, Van Montagu M, Holsters M (2001) Leafy gall formation by Rhodococcus fascians. Annu Rev Phytopathol 39:27–52

    Article  PubMed  CAS  Google Scholar 

  24. Gürtler V, Mayall BC, Seviour R (2004) Can whole genome analysis refine the taxonomy of the genus Rhodococcus? FEMS Microbiol Rev 28:377–403

    Article  PubMed  CAS  Google Scholar 

  25. Hacker J, Kaper JB (2000) Pathogenicity islands and the evolution of microbes. Annu Rev Microbiol 54:641–679

    Article  PubMed  CAS  Google Scholar 

  26. Hacker J, Bender L, Ott M, Wingender J, Lund B, Marre R, Goebel W (1990) Deletions of chromosomal regions coding for fimbriae and hemolysins occur in vitro and in vivo in various extraintestinal Escherichia coli isolates. Microb Pathog 8:213–225

    Article  PubMed  CAS  Google Scholar 

  27. Hacker J, Blum-Oehler G, Mühldorfer I, Tschäpe H (1997) Pathogenicity islands of virulent bacteria: structure, function and impact on microbial evolution. Mol Microbiol 23:1089–1097

    Article  PubMed  CAS  Google Scholar 

  28. Hayakawa T, Otake N, Yonehara H, Tanaka T, Sakaguchi K (1979) Isolation and characterization of plasmids from Streptomyces. J Antibiot 32:1348–1350

    PubMed  CAS  Google Scholar 

  29. Jin H, Pancholi V (2006) Identification and biochemical characterization of a eukaryotic-type serine/threonine kinase and its cognate phosphatase in Streptomyces pyogenes: their biological functions and substrate identification. J Mol Biol 357:1351–1372

    Article  PubMed  CAS  Google Scholar 

  30. Kalkus J, Menne R, Reh M, Schlegel HG (1998) The terminal structures of linear plasmids from Rhodococcus opacus. Microbiology 144:1271–1279

    Article  PubMed  CAS  Google Scholar 

  31. Kang C-M, Abbott DW, Park ST, Dascher CC, Cantley LC, Husson RN (2005) The Mycobacterium tuberculosis serine/threonine kinases PknA and PknB: substrate identification and regulation of cell shape. Genes Dev 19:1692–1704

    Article  PubMed  CAS  Google Scholar 

  32. Kemp DR (1978) Indole-3-ylacetic acid metabolism of Corynebacterium fascians. In: Loutit MW, Miles JAR (eds) Microbial ecology. Springer, Berlin, pp 341–345

    Google Scholar 

  33. Kers JA, Cameron KD, Joshi MV, Bukhalid RA, Morello JE, Wach MJ, Gibson DM, Loria R (2005) A large, mobile pathogenicity island confers plant pathogenicity on Streptomyces species. Mol Microbiol 55:1025–1033

    Article  PubMed  CAS  Google Scholar 

  34. Kim J-G, Park BK, Yoo C-H, Jeon E, Oh J, Hwang I (2003) Characterization of the Xanthomonas axonopodis pv. glycines Hrp pathogenicity island. J Bacteriol 185:3155–3166

    Article  PubMed  CAS  Google Scholar 

  35. Kobryn K (2007) The Linear Hairpin Replicons of Borrelia burgdorferi (in this volume). Springer, Heidelberg

    Google Scholar 

  36. Kurland CG, Canback B, Berg OG (2003) Horizontal gene transfer: a critical view. Proc Natl Acad Sci USA 100:9658–9662

    Article  PubMed  CAS  Google Scholar 

  37. Lacey MS (1948) Studies on Bacterium fascians. V. Further observations on the pathological and physiological reactions of Bact. fascians. Ann Appl Biol 35:572–581

    Article  Google Scholar 

  38. Larkin MJ, Kulakov LA, Allen CCR (2005) Biodegradation and Rhodococcus—masters of catabolic versatility. Curr Opin Biotechnol 16:282–290

    Article  PubMed  CAS  Google Scholar 

  39. Lawrence JG, Hendrickson H (2003) Lateral gene transfer: when will adolescence end? Mol Microbiol 50:739–749

    Article  PubMed  CAS  Google Scholar 

  40. Le Dantec C, Winter N, Gicquel B, Vincent V, Picardeau M (2001) Genomic sequence and transcriptional analysis of a 23-kilobase mycobacterial linear plasmid: evidence for horizontal transfer and identification of plasmid maintenance systems. J Bacteriol 183:2157–2164

    Article  PubMed  Google Scholar 

  41. Linder P (2006) Dead-box proteins: a family affair—active and passive players in RNP remodeling. Nucleic Acids Res 34:4168–4180

    Article  PubMed  CAS  Google Scholar 

  42. Loria R, Kers J, Joshi M (2006) Evolution of plant pathogenicity in Streptomyces. Annu Rev Phytopathol 44:467–487

    Article  CAS  Google Scholar 

  43. Maes T (2001) The att locus of the plant pathogen Rhodococcus fascians. PhD dissertation, Ghent University, Belgium

    Google Scholar 

  44. Maes T, Vereecke D, Ritsema T, Cornelis K, Ngo Thi Thu H, Van Montagu M, Holsters M, Goethals K (2001) The att locus of Rhodococcus fascians strain D188 is essential for full virulence on tobacco through the production of an autoregulatory compound. Mol Microbiol 42:13–28

    Article  PubMed  CAS  Google Scholar 

  45. Martin RG, Rosner JL (2001) The AraC transcriptional activators. Curr Opin Microbiol 4:132–137

    Article  PubMed  CAS  Google Scholar 

  46. McCullen CA, Binns AN (2006) Agrobacterium tumefaciens and plant cell interactions and activities required for interkingdom macromolecular transfer. Annu Rev Cell Dev Biol 22:101–127

    Article  PubMed  CAS  Google Scholar 

  47. McLean KJ, Sabri M, Marshall KR, Lawson RJ, Lewis DG, Clift D, Balding PR, Dunford AJ, Warman AJ, McVey JP, Quinn A-M, Sutcliffe MJ, Scrutton NS, Munro AW (2005) Biodiversity of cytochrome P450 redox systems. Biochem Soc Trans 33:796–801

    Article  PubMed  CAS  Google Scholar 

  48. McLeod MP, Warren RL, Hsiao WWL, Araki N, Myhre M, Fernandes C, Miyazawa D, Wong W, Lillquist AL, Wang D, Dosanjh M, Hara H, Petrescu A, Morin RD, Yang G, Stott JM, Schein JE, Shin H, Smailus D, Siddiqui AS, Marra MA, Jones SJM, Holt R, Brinkman FSL, Miyauchi K, Fukuda M, Davies JE, Mohn WW, Eltis LD (2006) The complete genome of Rhodococcus sp. RHA1 provides insight into a catabolic powerhouse. Proc Natl Acad Sci USA 103:15582–15587

    Article  PubMed  Google Scholar 

  49. Meinhardt F, Schaffrath R, Larsen M (1997) Microbial linear plasmids. Appl Microbiol Biotechnol 47:329–336

    Article  PubMed  CAS  Google Scholar 

  50. Meletzus D, Bermpohl A, Dreier J, Eichenlaub R (1993) Evidence for plasmid-encoded virulence factors in the phytopathogenic bacterium Clavibacter michiganensis supsp. michiganensis NCPPB382. J Bacteriol 175:2131–2136

    PubMed  CAS  Google Scholar 

  51. Miller ML, Collins K, Kraus J, Putnam ML (2006) PCR detection of pathogenic Rhodococcus fascians and Agrobacterium tumefaciens from herbaceous perennials. Phytopathology 96:S79

    Google Scholar 

  52. Mochizuki S, Hiratsu K, Suwa M, Ishii T, Sugino F, Yamada K, Kinashi H (2003) The large linear plasmid pSLA2-L of Streptomyces rochei has an unusually condensed gene organization for secondary metabolism. Mol Microbiol 48:1501–1510

    Article  PubMed  CAS  Google Scholar 

  53. Netolitzky DJ, Wu X, Jensen SE, Roy KL (1995) Giant linear plasmids of β-lactam antibiotic producing Streptomyces. FEMS Microbiol Lett 131:27–34

    PubMed  CAS  Google Scholar 

  54. Noirclerc-Savoye M, Morlot C, Gérard P, Vernet T, Zapun A (2003) Expression and purification of FtsW and RodA from Streptococcus pneumoniae, two membrane proteins involved in cell division and cell growth, respectively. Protein Expr Purif 30:18–25

    Article  PubMed  CAS  Google Scholar 

  55. Oelschlaeger TA, Hacker J (2004) Impact of pathogenicity islands in bacterial diagnostics. APMIS 112:930–936

    Article  PubMed  Google Scholar 

  56. Oguiza JA, Rico A, Rivas LA, Sutra L, Vivian A, Murillo J (2004) Pseudomonas syringae pv. phaseolicola can be separated into two genetic lineages distinguished by the possession of the phaseolotoxin biosynthetic cluster. Microbiology 150:473–482

    Article  PubMed  CAS  Google Scholar 

  57. Oh C-S, Beer SV (2005) Molecular genetics of Erwinia amylovora involved in the development of fire blight. FEMS Microbiol Lett 253:185–192

    Article  PubMed  CAS  Google Scholar 

  58. Picardeau M, Vincent V (1997) Characterization of large linear plasmids in mycobacteria. J Bacteriol 179:2753–2756

    PubMed  CAS  Google Scholar 

  59. Pisabarro A, Correia A, Martín JF (1998) Pulsed-field gel electrophoresis analysis of the genome of Rhodococcus fascians: genome size and linear and circular replicon composition in virulent and avirulent strains. Curr Microbiol 36:302–308

    Article  PubMed  CAS  Google Scholar 

  60. Polo S, Guerini O, Sosio M, Dehò G (1998) Identification of two linear plasmids in the actinomycete Planobispora rosea. Microbiology 144:2819–2825

    Article  PubMed  CAS  Google Scholar 

  61. Sakakibara H (2005) Cytokinin biosynthesis and regulation. Vitam Horm 72:271–287

    Article  PubMed  CAS  Google Scholar 

  62. Schell MA (1993) Molecular biology of the LysR family of transcriptional regulators. Annu Rev Microbiol 47:597–626

    Article  PubMed  CAS  Google Scholar 

  63. Sekine M, Tanikawa S, Omata S, Saito M, Fujisawa T, Tsukatani N, Tajima T, Sekigawa T, Kosugi H, Matsuo Y, Nishiko R, Imamura K, Ito M, Narita H, Tago S, Fujita N, Harayama S (2006) Sequence analysis of three plasmids harboured in Rhodococcus erythropolis strain PR4. Environ Microbiol 8:334–346

    Article  PubMed  CAS  Google Scholar 

  64. Shimizu S, Kobayashi H, Masai E, Fukuda M (2001) Characterization of the –450 kb linear plasmid in a polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1. Appl Environ Microbiol 67:2021–2028

    Article  PubMed  CAS  Google Scholar 

  65. Stange RR, Jeffares D, Young C, Scott DB, Eason JR, Jameson PE (1996) PCR amplification of the fas-1 gene for detection of virulent strains of Rhodococcus fascians. Plant Pathol 45:407–417

    Article  CAS  Google Scholar 

  66. 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

    Article  PubMed  CAS  Google Scholar 

  67. Takai S, Hines SA, Sekizaki T, Nicholson VM, Alperin DA, Osaki M, Takamatsu D, Nakamura M, Suzuki K, Ogino N, Kakuda T, Dan H, Prescott JF (2000) DNA sequence and comparison of virulence plasmids from Rhodococcus equi ATCC 33701 and 103. Infect Immun 68:6840–6847

    Article  PubMed  CAS  Google Scholar 

  68. Takano E (2006) γ-Butyrolactones: Streptomyces signalling molecules regulating antibiotic production and differentiation. Curr Opin Microbiol 9:287–294

    Article  PubMed  CAS  Google Scholar 

  69. Temmerman W (2000) Role of the fas locus in leafy gall development by the phytopathogen Rhodococcus fascians. PhD thesis, Ghent University, Belgium

    Google Scholar 

  70. Temmerman W, Vereecke D, Dreesen R, Van Montagu M, Holsters M, Goethals K (2000) Leafy gall formation is controlled by fasR, an AraC-type regulatory gene, in Rhodococcus fascians. J Bacteriol 182:5832–5840

    Article  PubMed  CAS  Google Scholar 

  71. van der Geize R, Dijkhuizen L (2004) Harnessing the catabolic diversity of rhodococci for environmental and biotechnological applications. Curr Opin Microbiol 7:255–261

    Article  PubMed  CAS  Google Scholar 

  72. Vandeputte O, Öden S, Mol A, Vereecke D, Goethals K, El Jaziri M, Prinsen E (2005) Biosynthesis of auxin by the Gram-positive phytopathogen Rhodococcus fascians is controlled by compounds specific to infected plant tissues. Appl Environ Microbiol 71:1169–1177

    Article  PubMed  CAS  Google Scholar 

  73. Vereecke D, Temmerman W, Maes T, Van Montagu M, Goethals K (1996) Molecular analysis of the virulence determinants of the phytopathogen Rhodococcus fascians. Med Fac Landbouwwet Univ Gent 61/2a:231–240

    Google Scholar 

  74. Vereecke D, Burssens S, Simón-Mateo C, Inzé D, Van Montagu M, Goethals K, Jaziri M (2000) The Rhodococcus fascians–plant interaction: morphological traits and biotechnological applications. Planta 210:241–251

    Article  PubMed  CAS  Google Scholar 

  75. Vereecke D, Cornelis K, Temmerman W, Jaziri M, Van Montagu M, Holsters M, Goethals K (2002a) Chromosomal locus that affects the pathogenicity of Rhodococcus fascians. J Bacteriol 184:1112–1120

    Article  PubMed  CAS  Google Scholar 

  76. Vereecke D, Cornelis K, Temmerman W, Holsters M, Goethals K (2002b) Versatile persistence pathways for pathogens of animals and plants. Trends Microbiol 10:485–488

    Article  PubMed  CAS  Google Scholar 

  77. Vivian A, Murillo J, Jackson RW (2001) The roles of plasmids in phytopathogenic bacteria: mobile arsenals? Microbiology 147:763–780

    PubMed  CAS  Google Scholar 

  78. Warren R, Hsiao WWL, Kudo H, Myhre M, Dosanjh M, Petrescu A, Kobayashi H, Shimizu S, Miyauchi K, Masai E, Yang G, Stott JM, Schein JE, Shin H, Khattra J, Smailus D, Butterfield YS, Siddiqui A, Holt R, Marra MA, Jones SJM, Mohn WW, Brinkman DSL, Fukuda M, Davies J, Eltis LD (2004) Functional characterization of a catabolic plasmid from polychlorinated-biphenyl-degrading Rhodococcus sp. strain RHA1. J Bacteriol 186:7783–7795

    Article  PubMed  CAS  Google Scholar 

  79. Weinstock DM, Brown AE (2002) Rhodococcus equi: an emerging pathogen. Clin Infect Dis 34:1379–1385

    Article  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Marcelle Holsters .

Editor information

Friedhelm Meinhardt Roland Klassen

Rights and permissions

Reprints and permissions

Copyright information

© 2007 Springer-Verlag Berlin Heidelberg

About this chapter

Cite this chapter

Francis, I., Gevers, D., Karimi, M., Holsters, M., Vereecke, D. (2007). Linear Plasmids and Phytopathogenicity. In: Meinhardt, F., Klassen, R. (eds) Microbial Linear Plasmids. Microbiology Monographs, vol 7. Springer, Berlin, Heidelberg. https://doi.org/10.1007/7171_2007_092

Download citation

Publish with us

Policies and ethics