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Genetic variation and phylogeny ofSpongospora subterranea f.sp.subterranea based on ribosomal DNA sequence analysis

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Abstract

The nuclear rDNA regions of the two internal transcribed spacers (ITS1 and ITS2) and 5.8S rRNA gene from 52 field isolates ofSpongospora subterranea f.sp.subterranea obtained from the British Isles and North America were polymerase chain reaction-amplified, sequenced, and assessed for genetic variation. Two genetically distinct groups (I and II) were identified based on the ITS sequence diversity among the isolates, representing 34.6% and 65.4% of the isolates, respectively. British Isles isolates occurred in groups I and II, whereas North American isolates belonged only to group II. The British Isles groups ofS. subterranea were associated with particular potato cultivars. The full-length small-subunit rRNA gene ofS. subterranea was sequenced and analyzed by both neighbor-joining and parsimony methods to clarify the taxonomic position of this pathogen. The results of phylogenetic analysis showed thatS. subterranea grouped together with other species of plasmodiphorids, and this group clustered with the phylum Cercozoa, an assemblage of filose and reticulose amoebae and phylogenetically related zooflagellates. The recognition of the existence of different genetic groups withinS. subterranea will be important for the design of plant-breeding programs and in testing for plant resistance.

Resumen

Las regiones rADN nuclear de los dos espaciadores transcrites internos (ITS1 e ITS2) y el gen 5.8S rARN de 52 aislamientos de campo deSpongospora subterranea f.sp.subterranea obtenidos de las Islas Británicas y de Norteamérica fueron amplificadas por reacción en cadena de la polimerasa, secuenciadas y evaluadas para variación genética. Se identificaron dos grupos genéticamente diferentes (I y II) en base de la diversidad de frecuencia ITS entre los aislamientos, lo que representa el 34.6% y el 65.4% de los aislamientos respectivamente. En los aislamientos de las Islas Británicas se encontró los grupos I y II, mientras que los aislamientos de Norteamérica pertenecían sólo al grupo II. Los grupos deS. subterranea de las Islas Británicas estuvieron asociados con cultivares especiales de papa. El tamaño complete de la sub-unidad del gen rARN deS. subterranea fue secuenciado y analizado por los métodos “neighborjoining y parsimony”, con el objeto de aclarar la posición taxonómica de este patógeno. El resultado del análisis filogenético demostró queS. subterranea junto con otras especie de plasmodiophoridos está relacionado con el phylum Cercozoa que incluye un conjunto de amebas filiformes y zooflagelados filogenéticamente relacionados. El reconocimiento de la existencia de diferentes grupos genéticos dentro deS. subterranea será importante para el diseño de programas de mejoramiento y pruebas de resistencia de la planta.

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Literature Cited

  • Adams MJ. 1991. Transmission of plant viruses by fungi. Ann Appl Biol 118: 479–492.

    Article  Google Scholar 

  • Alexopoulos CJ, and CW Mims. 1979. Introductory Mycology. 3rd ed. John Wiley & Sons, New York.

    Google Scholar 

  • Alexopoulos CJ, CW Mims, and M Blackwell. 1996. Introductory Mycology. 4th ed. John Wiley & Sons, New York.

    Google Scholar 

  • Baldauf SL, and WF Doolittle. 1997. Origin and evolution of the slime molds (Mycetozoa). Proc Natl Acad Sci USA 94: 12007–12012.

    Article  PubMed  CAS  Google Scholar 

  • Barr DJS. 1992. Evolution and kingdoms of organisms from the perspective of a mycologist. Mycologia 84: 1–11.

    Article  Google Scholar 

  • Böning K, and F Wallner. 1938. Beobachtungen und Versuche zur Frage der Widerstandsfähigkeit der Kartoffelsorten gegen Schort. Prakt Bl Pflanzenb 15: 268–279. (Abst in: Rev Appl Mycol 17:413–414).

    Google Scholar 

  • Bulman SR, SF Kühn, JW Marshall, and E Schnepf. 2001. A phylogenetic analysis of the SSU rRNA from members of the Plasmodiophorida and Phagomyxida. Protist 152: 43–51.

    Article  PubMed  CAS  Google Scholar 

  • Bulman SR, and JW Marshall. 1998. Detection ofSpongospora subterranea in potato tuber lesions using the polymerase chain reaction (PCR). Plant Pathol 47: 759–66.

    CAS  Google Scholar 

  • Castlebury LA, and LL Domier. 1998. Small subunit ribosomal RNA gene phylogeny ofPlasmodiophora brassicae. Mycologia 90: 102–107.

    Article  CAS  Google Scholar 

  • Cavalier-Smith T. 1998. A revised six-kingdom system of life. Bio Rev Camb Philos Soc 73: 203–266.

    Article  CAS  Google Scholar 

  • Cavalier-Smith T, and EE Chao. 1997. Sarcomonad ribosomal RNA sequences, rhizopod phylogeny, and the origin of euglyphid amoebae. Arch Protistenkd 147: 227–236.

    Google Scholar 

  • Christ BJ. 2000. Severity of powdery scab on potato cultivais and breeding lines, 1998. Biol Cultural Test Control Plant Dis 15: 115.

    Google Scholar 

  • Christ BJ, and DM Petrunak. 1997. Severity of powdery scab on potato cultivars and breeding Unes, 1996. Biol Cultural Test Control Plant Dis 12: 96.

    Google Scholar 

  • Christ BJ, and RJ Weidner. 1988. Incidence and severity of powdery scab on potatoes in Pennsylvania Am Potato J 65: 583–588.

    Article  Google Scholar 

  • Dick MW. 2001. Straminipilous Fungi. Kluwer Academic Publishers, London.

    Google Scholar 

  • Down GJ, LJ Grenville, and JM Clarkson. 2002. Phylogentic analysis ofSpongospora and implications for the taxonomic status of the plasmodiophorids. Mycol Res 106: 1060–1065.

    Article  CAS  Google Scholar 

  • Felsenstein J. 1985. Confidence limits on phytogenies: an approach using the bootstrap. Evolution 39: 783–791.

    Article  Google Scholar 

  • Gans PT, WD Carson, and MB Bishop. 1987. The susceptibility of potato cultivars to powdery scab caused bySpongospora subterranea (Wallr.) Lagerh. J Natl Ins Agric Bot 17: 337–343.

    Google Scholar 

  • Harrison JG, RJ Searle, and NA Williams. 1997. Powdery scab disease of potato a review. Plant Pathol 46: 1–25.

    Article  Google Scholar 

  • Jones RAC, and BD Harrison. 1969. The behaviour of potato mop-top virus in soil, and evidence for its transmission bySpongospora subterranea (Walk.) Lagerh. Ann Appl Biol 63: 1–17.

    Article  Google Scholar 

  • Karling JS. 1968. The Plasmodiophorales. 2nd ed. Hafner Publishing Co., New York.

    Google Scholar 

  • Khrobrykh ND. 1938. Virus and bacterial diseases of plants, the biological, the chemical, and the mechanical methods of plant protection.In: Summary of the Scientific Research Work of the Institute of Plant Protection (Leningrad) for the Year 1936. pp 27–30. (Abst in: Rev Appl Mycol 18:378).

  • Kühn S, M Lange, and LK Medlin. 2000. Phylogenetic position of Cryothecomonas inferred from nuclear-encoded small subunit ribosomal RNA. Protist 151: 337–345.

    Article  PubMed  Google Scholar 

  • Lambert DH, L Levy, VA Mavrodieva, SB Johnson, MJ Babcock, and ME Vayda. 2003. First report of potato mop-top virus on potato from the United States. Plant Dis 87: 872.

    Article  Google Scholar 

  • Medlin L, SJ Elwood, S Stickel, and ML Sogin. 1988. The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions. Gene 71: 491–499.

    Article  PubMed  CAS  Google Scholar 

  • Möller M, and R Harling. 1996. Randomly amplified polymorphic DNA (RAPD) profiling ofPlasmodiophora brassicae. Lett. Appl Microbiol 22: 70–75.

    Article  Google Scholar 

  • Qu XS, JA Kavanagh, D Egan, and H Lahert. 2001. Studies on amoebae and cysts associated with the isolation ofSpongospora subterranea f.sp.subterranea in vitro. Plant Pathol 50: 420–426.

    Article  CAS  Google Scholar 

  • Sica C, and BJ Christ. 2000a. Incidence of powdery scab on fourteen potato cultivars. Am J Potato Res 77: 419.

    Google Scholar 

  • Sica C, and BJ Christ. 2000b. Severity of powdery scab on potato cultivars and breeding Unes, 1999. Biol Cultural Test Control Plant Dis 15: 116.

    Google Scholar 

  • Some A, MJ Manzanares, F Laurens, F Baron, G Thomas, and F Rouxel. 1996. Variation for virulence onBrassica napus L. amongstPlasmodiophora brassicae collections from France and derived single-spore isolates. Plant Pathol 45: 432–439.

    Article  Google Scholar 

  • Sparrow FK. 1958. Interrelationships and phylogeny of the aquatic Phycomycetes. Mycologia 50: 797–813.

    Article  Google Scholar 

  • Swofford DL. 2002. PAUP*: phylogenetic analysis using parsimony (*and other methods), beta version 4.0bl0. Sinauer Associates, Sunderland, MA.

    Google Scholar 

  • Thompson JD, DG Higgins, and TJ Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673–4680.

    Article  PubMed  CAS  Google Scholar 

  • Tomlinson JA. 1958. Crook root of watercress. III, The causal organismSpongospora subterranea (wallr.) Lagerh. f.sp.nasturtii f.sp. nov. Trans Br Mycol Sco 41: 491498.

    Google Scholar 

  • Ward E, and MJ Adams. 1996. Molecular studies of variation amongst isolates ofPolymyxa graminis andPolymyxa betae.In: JL Sherwood, CM Rush (eds), Proc. Int. Symp. Working Group on Plant Viruses with Fungal Vectors, 3rd., Am Soc Sugar Beet Technologists, Denver. pp 93–96.

    Google Scholar 

  • Ward E, and MJ Adams. 1998. Analysis of ribosomal DNA sequences ofPolymyxa species and related fungi and the development of genus- and species-specific PCR primers. Mycol Res 102: 965–974.

    Article  CAS  Google Scholar 

  • White TJ, T Brans, S Lee, and J Taylor. 1990. Amplification and direct sequencing of the fungal ribosomal RNA genes for phylogenetics.In: MA Innis, DH Gelfand, JJ Sninsky, JW White (eds), PCR Protocols, a Guide to Methods and Applications. Academic Press, New York. pp 315–322.

    Google Scholar 

  • Williams PH. 1966. A system for the determination of races ofPlasmodiophora brassicae that infect cabbage and rutabaga. Phytopathology 56: 624–626.

    Google Scholar 

  • Würzer B. 1964. Ergäzende Untersuchungen über den Pulverschorf der Kartoffel und dessen ErregerSpongospora subterranea (Wallr.) Lagerh. Landwirtschaftliche Hochschule. Dissertation. Hohenheim, Germany.

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  1. Department of Plant Pathology, The Pennsylvania State University, 16802, University Park, PA

    Xinshun Qu & Barbara J. Christ

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  1. Xinshun Qu
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  2. Barbara J. Christ
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Correspondence to Barbara J. Christ.

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Qu, X., Christ, B.J. Genetic variation and phylogeny ofSpongospora subterranea f.sp.subterranea based on ribosomal DNA sequence analysis. Am. J. Pot Res 81, 385–394 (2004). https://doi.org/10.1007/BF02870199

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