Genetic diversity of the arbuscular mycorrhizal fungus Glomus intraradices as determined by mitochondrial large subunit rRNA gene sequences is considerably higher than previously expected

New Phytologist

Volumn 180, Issue 2, 2008, Pages 452-465

  Börstler, Boris ^a   Raab, Philipp A ^b   Thiéry, Odile ^a   Morton, Joseph B ^c   Redecker, Dirk ^a  

^a UNIVERSITY OF BASEL   (Switzerland)

^b GEOMAR HELMHOLTZ CENTRE FOR OCEAN RESEARCH KIEL   (Germany)

^c WEST VIRGINIA UNIVERSITY   (United States)

Author keywords

Arbuscular mycorrhiza; Glomeromycota; Glomus intraradices; Intraspecific diversity; Mitochondrial haplotypes; Molecular markers

Indexed keywords

FUNGAL DNA; RIBOSOME DNA; RNA; RNA, MITOCHONDRIAL; SPACER DNA;

ARBUSCULAR MYCORRHIZA; CLADISTICS; FUNGUS; GENETIC MARKER; GENETIC VARIATION; INTRASPECIFIC VARIATION; LIFE HISTORY; MITOCHONDRION; MOLECULAR ANALYSIS; POLYMERASE CHAIN REACTION; POLYMORPHISM; RNA; TOLERANCE;

ARTICLE; EXON; GENETIC VARIABILITY; GENETICS; GLOMEROMYCOTA; HAPLOTYPE; INTRON; MITOCHONDRIAL GENE; MYCORRHIZA; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT ROOT; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RNA GENE;

BASE SEQUENCE; DNA, FUNGAL; DNA, INTERGENIC; DNA, RIBOSOMAL; EXONS; GENES, MITOCHONDRIAL; GENES, RRNA; GENETIC VARIATION; GLOMEROMYCOTA; HAPLOTYPES; INTRONS; MYCORRHIZAE; PHYLOGENY; PLANT ROOTS; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA;

ARBUSCULAR; FUNGI; GLOMEROMYCOTA; GLOMUS INTRARADICES;

EID: 52649128425     PISSN: 0028646X     EISSN: 14698137     Source Type: Journal    
DOI: 10.1111/j.1469-8137.2008.02574.x     Document Type: Article

References (50)

1. Appoloni S, Lekberg Y, Tercek M, Zabinski C, Redecker D. (in press). Molecular community analysis of arbuscular mycorrhizal fungi in roots from geothermal soils in Yellowstone National Park (USA). Microbial Ecology, doi:.
2. Bécard G, Fortin J. 1988. Early events of vesicular-arbuscular mycorrhiza on Ri T-DNA transformed roots. New Phytologist 108 : 211 218.
3. Börstler B, Renker C, Kahmen A, Buscot F. 2006. Species composition of arbuscular mycorrhizal fungi in two mountain meadows with differing management types and levels of plant biodiversity. Biology and Fertility of Soils 42 : 286 298.
4. Bruns TD, Fogel R, White TJ, Palmer JD. 1989. Accelerated evolution of a false-truffle from a mushroom ancestor. Nature 339 : 140 142.
5. Bruns TD, Szaro TM, Gardes M, Cullings KW, Pan JJ, Taylor DL, Horton TR, Kretzer A, Garbelotto M, Li Y. 1998. A sequence database for the identification of ectomycorrhizal basidiomycetes by phylogenetic analysis. Molecular Ecology 7 : 257 272.
6. Buckler ESI, Ippolito A, Holtsford TP. 1997. The evolution of plant ribosomal DNA: divergent paralogues, pseudogenes and phylogenetic implications. Genetics 145 : 821 832.
7. Cline J, Braman JC, Hogrefe HH. 1996. PCR fidelity of Pfu polymerase and other thermostable DNA polymerases. Nucleic Acids Research 24 : 3546 3551.
8. Corkidi L, Allen E, Merhaut D, Allen M, Downer J, Bohn J, Evans M. 2004. Assessing the infectivity of commercial mycorrhizal inoculants in plant nursery conditions. Journal of Environmental Horticulture 22 : 149 154.
9. Croll D, Wille L, Gamper HA, Mathimaran N, Lammers PJ, Corradi N, Sanders IR. 2008. Genetic diversity and host plant preferences revealed by simple sequence repeat and mitochondrial markers in a population of the arbuscular mycorrhizal fungus Glomus intraradices. New Phytologist 178 : 672 687.
10. Dalgaard JZ, Klar AJ, Moser MJ, Holley WR, Chatterjee A, Mian IS. 1997. Statistical modeling and analysis of the LAGLIDADG family of site-specific endonucleases and identification of an intein that encodes a site-specific endonuclease of the HNH family. Nucleic Acids Research 25 : 4626 4638.
11. Dickie IA, Avis PG, McLaughlin DJ, Reich PB. 2003. Good-Enough RFLP Matcher (germ) program. Mycorrhiza 13 : 171 172.
12. Doner L, Bécard G. 1991. Solubilization of gellan gels by chelation of cations. Biotechnology Techniques 5 : 25 28.
13. 2-fixing cyanobacterium Anabaena variabilis. Plant Science 99 : 9 16.
14. Goddard MR, Burt A. 1999. Recurrent invasion and extinction of a selfish gene. Proceedings of the National Academy of Sciences, USA 96 : 13880 13885.
15. Hall TA. 1999. Bioedit: user-friendly biological sequence alignment and analysis program for Windows 95/98/NT. Raleigh, NC, USA : North Carolina State University.
16. van der Heijden MGA, Klironomos JN, Ursic M, Moutoglis P, Streitwolf-Engel R, Boller T, Wiemken A, Sanders IR. 1998. Mycorrhizal fungal diversity determines plant biodiversity, ecosystem variability and productivity. Nature 396 : 69 72.
17. Helgason T, Merryweather JW, Denison J, Wilson P, Young JPW, Fitter AH. 2002. Selectivity and functional diversity in arbuscular mycorrhizas of co-occurring fungi and plants from a temperate deciduous woodland. Journal of Ecology 90 : 371 384.
18. Hempel S, Renker C, Buscot F. 2007. Differences in the species composition of arbuscular mycorrhizal fungi in spore, root and soil communities in a grassland ecosystem. Environmental Microbiology 9 : 1930 1938.
19. Hijri M, Sanders IR. 2005. Low gene copy number shows that arbuscular mycorrhizal fungi inherit genetically different nuclei. Nature 433 : 160 163.
20. Hijri I, Sýkorová Z, Oehl F, Ineichen K, Mäder P, Wiemken A, Redecker D. 2006. Communities of arbuscular mycorrhizal fungi in arable soils are not necessarily low in diversity. Molecular Ecology 15 : 2277 2289.
21. Husband R, Herre EA, Turner SL, Gallery R, Young JPW. 2002. Molecular diversity of arbuscular mycorrhizal fungi and patterns of host association over time and space in a tropical forest. Molecular Ecology 11 : 2669 2678.
22. Huson DH, Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23 : 254 267.
23. Jansa J, Mozafar A, Anken T, Ruh R, Sanders IR, Frossard E. 2002a. Diversity and structure of AMF communities as affected by tillage in a temperate soil. Mycorrhiza 12 : 225 234.
24. Jansa J, Mozafar A, Banke S, McDonald BA, Frossard E. 2002b. Intra- and intersporal diversity of ITS rDNA sequences in Glomus intraradices assessed by cloning and sequencing, and by SSCP analysis. Mycological Research 106 : 670 681.
25. Koch A, Kuhn G, Fontanillas P, Fumagalli L, Goudet J, Sanders IR. 2004. High genetic variability and low local diversity in a population of arbuscular mycorrhizal fungi. Proceedings of the National Academy of Sciences, USA 101 : 2369 2374.
26. Kuhn G, Hijri M, Sanders IR. 2001. Evidence for the evolution of multiple genomes in arbuscular mycorrhizal fungi. Nature 414 : 745 748.
27. Lanfranco L, Delpero M, Bonfante P. 1999. Intrasporal variability of ribosomal sequences in the endomycorrhizal fungus Gigaspora margarita. Molecular Ecology 8 : 37 45.
28. Lloyd MacGilp SA, Chambers SM, Dodd JC, Fitter AH, Walker C, Young JPW. 1996. Diversity of the ribosomal internal transcribed spacers within and among isolates of Glomus mosseae and related mycorrhizal fungi. New Phytologist 133 : 103 111.
29. Martin F, Tuskan GA, DiFazio SP, Lammers P, Newcombe G, Podila GK. 2004. Symbiotic sequencing for the Populus mesocosm. New Phytologist 161 : 330 335.
30. Mathimaran N, Falquet L, Ineichen K, Picard C, Redecker D, Boller T, Wiemken A. 2008. Microsatellites for disentangling underground networks: Strain-specific identification of Glomus intraradices, an arbuscular mycorrhizal fungus. Fungal Genetics and Biology 45 : 812 817.
31. Öpik M, Moora M, Liira J, Koljalg U, Zobel M, Sen R. 2003. Divergent arbuscular mycorrhizal fungal communities colonize roots of Pulsatilla spp. in boreal Scots pine forest and grassland soils. New Phytologist 160 : 581 593.
32. Öpik M, Moora M, Liira J, Zobel M. 2006. Composition of root-colonizing arbuscular mycorrhizal fungal communities in different ecosystems around the globe. Journal of Ecology 94 : 778 790.
33. Pawlowska T, Taylor JW. 2004. Organization of genetic variation in individuals of arbuscular mycorrhizal fungi. Nature 427 : 733 737.
34. Posada D. 2004. Modeltest 3.5. Vigo, Spain : Facultad de Biologia, Universidad de Vigo.
35. Raab P, Brennwald A, Redecker D. 2005. Mitochondrial large ribosomal subunit sequences are homogeneous within isolates of Glomus (arbuscular mycorrhizal fungi, Glomeromycota). Mycological Research 109 : 1315 1322.
36. Redecker D. 2000. Specific PCR primers to identify arbuscular mycorrhizal fungi within colonized roots. Mycorrhiza 10 : 73 80.
37. Redecker D. 2006. Molecular ecology of arbuscular mycorrhizal fungi: a review of PCR-based techniques. In : Cooper J, Rao JR, eds. Molecular techniques for soil and rhizosphere microorganisms. Wallingford, UK : CABI Publishing, 198 212.
38. Redecker D, Thierfelder H, Walker C, Werner D. 1997. Restriction analysis of PCR-amplified internal transcribed spacers of ribosomal DNA as a tool for species identification in different genera of the order Glomales. Applied and Environmental Microbiology 63 : 1756 1761.
39. Renker C, Blanke V, Buscot F. 2005. Diversity of arbuscular mycorrhizal fungi in grassland spontaneously developed on area polluted by a fertilizer plant. Environmental Pollution 135 : 255 266.
40. Ronquist F, Huelsenbeck JP. 2003. mrbayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19 : 1572 1574.
41. Rosendahl S. 2008. Communities, populations and individuals of arbuscular mycorrhizal fungi. New Phytologist 178 : 253 266.
42. Rosendahl S, Stukenbrock EH. 2004. Community structure of arbuscular mycorrhizal fungi in undisturbed vegetation revealed by analyses of LSU rDNA sequences. Molecular Ecology 13 : 3179 3186.
43. Sanders IR, Alt M, Groppe K, Boller T, Wiemken A. 1995. Identification of ribosomal DNA polymorphisms among and within spores of the Glomales: application to studies on the genetic diversity of arbuscular mycorrhizal fungal communities. New Phytologist 130 : 419 427.
44. Streitwolf-Engel R, Boller T, Wiemken A, Sanders IR. 1997. Clonal growth traits of two Prunella species are determined by co-occurring arbuscular mycorrhizal fungi from a calcareous grassland. Journal of Ecology 85 : 181 191.
45. Stukenbrock EH, Rosendahl S. 2005. Development and amplification of multiple co-dominant genetic markers from single spores of arbuscular mycorrhizal fungi by nested multiplex PCR. Fungal Genetics and Biology 42 : 73 80.
46. Swofford DL. 2001. PAUP*. Phylogenetic analysis using parsimony (*and other methods). Sunderland, MA, USA : Sinauer Associates.
47. Sýkorová Z, Ineichen K, Wiemken A, Redecker D. 2007a. The cultivation bias: different communities of arbuscular mycorrhizal fungi detected in roots from the field, from bait plants transplanted to the field, and from a greenhouse trap experiment. Mycorrhiza 18 : 1 14.
48. Sýkorová Z, Wiemken A, Redecker D. 2007b. Co-occurring Gentiana verna and Gentiana acaulis and their neighboring plants in two Swiss upper montane meadows harbor distinct arbuscular mycorrhizal fungal communities. Applied and Environmental Microbiology 73 : 5426 5434.
49. Tchabi A, Coyne D, Hountondji F, Lawouin L, Wiemken A, Oehl F. 2008. Arbuscular mycorrhizal fungal communities in sub-Saharan Savannas of Benin, West Africa, as affected by agricultural land use intensity and ecological zone. Mycorrhiza 18 : 181 195.
50. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In : Innis MA, Gelfand DH, Sninsky JJ, White TJ, eds. PCR protocols, a guide to methods and applications. San Diego, CA, USA : Academic Press, 315 322.