Blurred boundaries: Lifestyle lessons from ectomycorrhizal fungal genomes

Trends in Genetics

Volumn 27, Issue 1, 2011, Pages 14-22

  Plett, Jonathan M ^a   Martin, Francis ^a  

^a UNIVERSITÉ DE LORRAINE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ASCOMYCETES; BASIDIOMYCETES; COMPARATIVE STUDY; ECTOMYCORRHIZA; FUNGAL GENOME; GENE SEQUENCE; LACCARIA; LIFESTYLE; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; REVIEW; SAPROTROPH; SYMBIOSIS; TUBER (GENUS);

GENOME, FUNGAL; MYCORRHIZAE; PLANT ROOTS; SIGNAL TRANSDUCTION; SYMBIOSIS;

FUNGI; LACCARIA BICOLOR; TUBER MELANOSPORUM;

EID: 78650606695     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2010.10.005     Document Type: Review

References (77)

1. Whitham T.G., et al. Extending genomics to natural communities and ecosystems. Science 2010, 320:492-495.
2. Smith S.E., Read D.J. Mycorrhizal Symbiosis 2008, Academic Press. 3rd edn.
3. Amaranthus M.P. Mycorrhizas, forest disturbance and regeneration in the Pacific northwestern United States. Mycorrhizas in Ecosystems 1992, 202-207. CAB International. D.J. Read (Ed.).
4. Franklin J.F., et al. Importance of ecological diversity in maintaining long-term site productivity. Maintaining the Long-Term Productivity of Pacific Northwest Forest Ecosystems 1989, 82-97. Timber Press. D.A. Perry (Ed.).
5. Read D.J., Perez-Moreno J. Mycorrhizas and nutrient cycling in ecosystems - a journey towards relevance?. New Phytol. 2003, 157:475-492.
6. Hibbett D.S., Matheny P.B. The relative ages of ectomycorrhizal mushrooms and their plant hosts estimated using Bayesian relaxed molecular clock analyses. BMC Biol. 2009, 7:13.
7. Martin F.M., Nehls O. Harnessing ectomycorrhizal genomics for ecological insights. Curr. Opin. Plant Biol. 2009, 12:508-515.
8. Brundrett M.C. Coevolution of roots and mycorrhizas of land plants. New Phytol. 2002, 154:275-304.
9. Hoeksema J.D. Ongoing coevolution in mycorrhizal interactions. New Phytol. 2010, 187:286-300.
10. Martin F., et al. The genome sequence of the basidiomycete fungus Laccaria bicolor provides insights into the mycorrhizal symbiosis. Nature 2008, 452:88-92.
11. Martin F., et al. Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis. Nature 2010, 464:1033-1038.
12. Finlay R.D., et al. Mycelial uptake, translocation and assimilation of nitrogen from 15N-labelled ammonium by Pinus sylvestris plants infected with four different ectomycorrhizal fungi. New Phytol. 1988, 110:59-66.
13. Bücking H., Heyser W. Microautoradiographic localization of phosphate and carbohydrates in mycorrhizal roots of Poplulus tremula x Populus alba and the implications for transfer processes in ectomycorrhizal associations. Tree Physiol. 2001, 21:101-107.
14. Klironomos J.N., Hart M.M. Animal nitrogen swap for plant carbon. Nature 2001, 410:651-652.
15. Perez-Moreno J., Read D.J. Exploitation of pollen by mycorrhizal mycelial systems with special reference to nutrient recycling in boreal forests. Proc. R. Soc. Lond. B Biol. Sci. 2001, 268:1329-1335.
16. Perez-Moreno, J. and Read, D.J. (2001b) Nutrient transfer from soil nematodes to plants: a direct pathway provided by the mycorrhizal mycelial network. Plant Cell Environ. 24, 1219-1226.
17. Tibbett M., Sanders F.E. Ectomycorrhizal symbiosis can enhance plant nutrition through improved access to discrete organic nutrient patches of high resource quality. Ann. Bot. 2002, 89:783-789.
18. Taylor A.F.S. Common mycelial networks: life-lines and radical addictions. New Phytol. 2006, 169:6-8.
19. Nygren C.M., et al. Detection of extracellular protease activity in different species and genera of ectomycorrhizal fungi. Mycorrhiza 2007, 17:241-248.
20. Nygren C.M.R., et al. Growth on nitrate and occurrence of nitrate reductase-encoding genes in a phylogenetically diverse range of ectomycorrhizal fungi. New Phytol. 2008, 180:875-889.
21. Taylor A.F.S. Missing links: delta13C anomalies between substrates and consumers. New Phytol. 2008, 177:845-847.
22. Johnson N.C., et al. Resource limitation is a driver of local adaptation in mycorrhizal symbioses. Proc. Natl. Acad. Sci. U. S. A. 2010, 107:2093-2098.
23. Lilly W.W., et al. An expanded family of fungalysin extracellular metallopeptidases of Coprinus cinerea. Mycol. Res. 2008, 112:389-398.
24. Lucic E., et al. A gene repertoire for nitrogen transporters in Laccaria bicolor. New Phytol. 2008, 180:343-364.
25. Tatry M.-V., et al. Two differentially regulated phosphate transporters from the symbiotic fungus Hebeloma cylindrosporum and phosphorus acquisition by ectomycorrhizal Pinus pinaster. Plant J. 2009, 57:1092-1102.
26. Plassard C., Dell B. Phosphorus nutrition of mycorrhizal trees. Tree Physiol. 2010, 30:1129-1139.
27. Duplessis S., et al. Transcript patterns associated with ectomycorrhiza development in Eucalyptus globulus and Pisolithus microcarpus. New Phytol. 2005, 165:599-611.
28. Le Quéré A., et al. Global patterns of gene regulation associated with the development of ectomycorrhiza between birch (Betula pendula Roth.) and Paxillus involutus (Batsch) Fr. Mol. Plant Microbe Interact. 2005, 18:659-673.
29. Morel M., et al. Identification of genes differntially expressed in extraradical mycelium and ectomycorrhizal roots during Paxillus infolutus-Betula pendula ectomycorrhizal symbiosis. Appl. Environ. Microbiol. 2005, 71:382-391.
30. Selle A., et al. The high-affinity poplar ammonium importer PttAMT1.2 and its role in ectomycorrhizal symbiosis. New Phytol. 2005, 168:697-706.
31. Chalot M., et al. Ammonia: a candidate for nitrogen transfer at the mycorrhizal interface. Trends Plant Sci. 2006, 11:263-266.
32. Cruz C., et al. Enzymatic evidence for the key role of arginine in nitrogen translocation by arbuscular mycorrhizal fungi. Plant Physiol. 2007, 144:782-792.
33. Martin F. Fair trade in the underworld: the ectomycorrhizal symbiosis. Biology of the Fungal Cell: The Mycota VIII 2007, 291-308. Springer-Verlag. 2nd edn. R.J. Howard, N.A.R. Gow (Eds.).
34. Näsholm T., et al. Uptake of organic nitrogen by plants. New Phytol. 2009, 182:31-48.
35. Javelle A., et al. Molecular characterization, function and regulation of ammonium transporters (Amt) and ammonium-metabolizing enzymes (GS, NADP-GDH) in the ectomycorrhizal fungus Hebeloma cylindrosporum. Mol. Microbiol. 2003, 47:411-430.
36. Kemppainen M., et al. RNA silencing in the model mycorrhizal fungus Laccaria bicolor: gene knock-down of nitrate reductase results in inhibition of symbiosis with Populus. Environ. Microbiol. 2009, 11:1878-1896.
37. Vanden Wymelenberg A., et al. Transcriptome and secretome analysis of Phanerochaete chrysosporium reveal complex patterns of gene expression. Appl. Environ. Microbiol. 2009, 75:4058-4068.
38. Tian C., et al. Systems analysis of plant cell wall degradation by the model filamentous fungus Neurospora crassa. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:22157-22162.
39. Vanden Wymelenberg A., et al. Comparative transcriptome and secretome analysis of wood decay fungi Postia placenta and Phanerochaete chrysosporium. Appl. Environ. Microbiol. 2010, 76:3599-3610.
40. Martin F., Selosse M.A. The Laccaria genome: a symbiont blueprint decoded. New Phytol. 2008, 180:296-310.
41. Nagendrana S., et al. Reduced genomic potential for secreted plant cell-wall-degrading enzymes in the ectomycorrhizal fungus Amanita bisporigera, based on the secretome of Trichoderma reesei. Fungal Genet. Biol. 2009, 46:427-435.
42. Rajashekar B., et al. Expansion of signal pathways in the ectomycorrhizal fungus Laccaria bicolor - evolution of nucleotide sequences and expression patterns in families of protein kinases and RAS small GTPases. New Phytol. 2009, 183:365-379.
43. Gay G., et al. Auxin overproducer mutants of Hebeloma cylindrosporum Romagnési have increased mycorrhizal activity. New Phytol. 1994, 128:645-657.
44. Gea L., et al. Structural aspects of ectomycorrhiza of Pinus pinaster (Ait.) Sol. formed by an IAA-overproducer mutant of Hebeloma cylindrosporum Romagnési. New Phytol. 1994, 128:659-670.
45. Felten J., et al. The ectomycorrhizal fungus Laccaria bicolor stimulates lateral root formation in poplar and Arabidopsis through auxin transport and signaling. Plant Physiol. 2009, 151:1991-2005.
46. Ditengou F.A. Hypaphorine, an indole-3-acetic acid antagonist delivered by the ectomycorrhizal fungus Pisolithus tinctorius, induces reorganisation of actin and the microtubule cytoskeleton in Eucalyptus globulus ssp bicostata root hairs. Planta 2003, 218:217-225.
47. Kämper J., et al. Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis. Nature 2006, 444:97-101.
48. Mueller O., et al. The secretome of the maize pathogen Ustilago maydis. Fungal Genet. Biol. 2008, 45:S63-S70.
49. Doehlemann G. Pep1, a secreted effector protein of Ustilago maydis is required for successful invasion of plant cells. PLoS Pathog. 2009, 5:e1000290-e1000306.
50. Dou D., et al. RXLR-mediated entry of Phytophthora sojae effector Avr1b into soybean cells does not require pathogen-encoded machinery. Plant Cell 2008, 20:1930-1947.
51. Kale S.D., et al. External lipid PI3P mediates entry of eukaryotic pathogen effectors into plant and animal host cells. Cell 2010, 142:284-295.
52. Kambara K., et al. Rhizobia utilize pathogen-like effector proteins during symbiosis. Mol. Microbiol. 2009, 71:92-106.
53. Bahn Y.-S. Sensing the environment: lessons from fungi. Nat. Rev. Microbiol. 2007, 5:57-69.
54. Kosti I., et al. Comparative analysis of fungal protein kinases and associated domains. BMC Genomics 2010, 11:133-144.
55. De Bie T., et al. CAFE: a computational tool for the study of gene family evolution. Bioinformatics 2006, 22:1269-1271.
56. Jones M.D., Smith S.E. Exploring functional definitions of mycorrhizas: are mycorrhizas always mutualisms? Can. J. Bot. 2004, 82:1089-1109.
57. Ho I., Trappe J.M. Translocation of 14C from Festuca plants to their endomycorrhizal fungi. Nature 1973, 244:30-31.
58. Hirrel M.C., Gerdemann J.W. Enhanced carbon transfer between onions infected with a vesicular-arbuscular mycorrhizal fungus. New Phytol. 1979, 83:731-738.
59. Francis R., Read D.J. Direct transfer of carbon between plants connected by vesicular-arbuscular mycorrhizal mycelium. Nature 1984, 307:53-56.
60. Bevege D.I., et al. Comparative carbohydrate physiology of ecto- and endo-mycorrhizas. Endomycorrhizas 1975, 149-174. Academic Press. F.E. Sanders (Ed.).
61. Linder S., Axelsson B. Changes in carbon uptake and allocation patterns as a result of irrigation and fertilization in a young Pinus sylvestris stand. Carbon Uptake and Allocation in Subalpine Ecosystems as a Key to Management 1982, 38-44. Forest Research Laboratory, Oregon State University. R.H. Waring (Ed.).
62. Vogt K.A., et al. Mycorrhizal role in net primary production and nutrient cycling in Abies amabilis ecosystems in western Washington. Ecology 1982, 63:370-380.
63. Finlay R.D., Söderström B. Mycorrhiza and carbon flow to the soil. Mycorrhiza Functioning 1992, 134-160. Chapman and Hall. M. Allen (Ed.).
64. Högberg P., et al. Large-scale forest girdling shows that current photosynthesis drives soil respiration. Nature 2001, 411:789-792.
65. Leake J., et al. Networks of power and influence: the role of mycorrhizal mycelium in controlling plant communities and agroecosystem functioning. Can. J. Bot. 2004, 82:1016-1045.
66. Johnson N.C., et al. Functioning of mycorrhizas along the mutualism-parasitism continuum. New Phytol. 1997, 135:1-12.
67. Maeda D., et al. Knockdown of an Arbuscular mycorrhizal inducible phosphate transporter gene of Lotus japonicus suppresses mutualistic symbiosis. Plant Cell Physiol. 2006, 47:807-817.
68. Nehls U., et al. Sugar for my honey: carbohydrate partitioning in ectomycorrhizal symbiosis. Phytochemisty 2007, 68:82-91.
69. López M.F., et al. The sugar porter gene family of Laccaria bicolor: function in ectomycorrhizal symbiosis and soil-growing hyphae. New Phytol. 2008, 180:365-378.
70. Salzer P., Hager A. Sucrose utilization of the exctomycorrhizal fungi Amanita muscaria and Hebeloma crustuliniforme depends on the cell wall-bound invertase activity of their host Picea abies. Botanica Acta 1991, 104:439-445.
71. Parrent J.L., et al. Friend or foe? Evolutionary history of glycoside hydrolase family 32 genes encoding for sucrolytic activity in fungi and its implications for plant-fungal symbioses. BMC Evol. Biol. 2009, 9:148.
72. Wahl R., et al. A novel high-affinity sucrose transporter is required for virulence of the plant pathogen Ustilago maydis. PLOS Biol. 2010, 8:e1000303.
73. van de Velde W., et al. Plant peptides govern terminal differentiation of bacteria in symbiosis. Science 2010, 327:1122-1126.
74. Wang D., et al. A nodule-specific protein secretory pathway required for nitrogen-fixing symbiosis. Science 2010, 327:1126-1129.
75. Hanada K., et al. A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection. Genome Res. 2007, 17:632-640.
76. Hibbett D.S. A phylogenetic overview of the Agaricomycotina. Mycologia 2006, 98:917-925.
77. McLaughlin D.J. The search for the fungal tree of life. Trends Microbiol. 2009, 17:488-497.