Factors shaping community structure of endophytic fungi-evidence from the Pinus-Viscum-system

Fungal Diversity

Volumn 60, Issue 1, 2013, Pages 55-69

  Peršoh, Derek ^a,b  

^a UNIVERSITY OF MUNICH   (Germany)

^b UNIVERSITY OF BAYREUTH   (Germany)

Author keywords

Endophytic fungi; Genetic abundance; Host preference; Leaves; Name assignment; Organ age; Pinus sylvestris; Pyrosequencing; Stems; Viscum album

Indexed keywords

ASCOMYCOTA; FUNGI; MORTIERELLA; OTUS; PINUS SYLVESTRIS; VISCUM; VISCUM ALBUM; XYLARIACEAE;

EID: 84878940251     PISSN: 15602745     EISSN: 18789129     Source Type: Journal    
DOI: 10.1007/s13225-013-0225-x     Document Type: Article

References (74)

1. Ainsworth AM (1995) Technical information sheet no.11: isolation techniques for basidiomycetes. World J Microbiol Biotechnol 11:364-366. doi: 10.1007/bf00367125
2. Amend AS, Seifert KA, Bruns TD (2010) Quantifying microbial communities with 454 pyrosequencing: does read abundance count? Mol Ecol 19:5555-5565. doi: 10.1111/j.1365-294X.2010.04898.x
3. Arnold AE (2007) Understanding the diversity of foliar endophytic fungi: progress, challenges, and frontiers. Fungal Biol Rev 21:51-66
4. Arnold AE, Mejia LC, Kyllo D, Rojas EI, Maynard Z, Robbins N, Herre EA (2003) Fungal endophytes limit pathogen damage in a tropical tree. PNAS 100:15649-15654
5. Baldrian P, Větrovský T, Cajthaml T, Dobiáš ová P, Petránková M, Šnajdr J, Eichlerova I (2013) Estimation of fungal biomass in forest litter and soil. Fungal Ecol 6:1-11. doi: 10.1016/j.funeco.2012.10.002
6. Begerow D, Nilsson H, Unterseher M, Maier W (2010) Current state and perspectives of fungal DNA barcoding and rapid identification procedures. Appl Microbiol Biotechnol 87:99-108. doi: 10.1007/s00253-010-2585-4
7. Bergsten J, Bilton DT, Fujisawa T, Elliott M, Monaghan MT, Balke M, Hendrich L, Geijer J, Herrmann J, Foster GN, Ribera I, Nilsson AN, Barraclough TG, Vogler AP (2012) The effect of geographical scale of sampling on DNA barcoding. Syst Biol. doi: 10.1093/sysbio/sys037
8. Bissegger M, Sieber TN (1994) Assemblages of endophytic fungi in coppice shoots of Castanea sativa. Mycologia 86:648-655. doi: 10.2307/3760535
9. Bridge PD, Roberts PJ, Spooner BM, Panchal G (2003) On the unreliability of published DNA sequences. New Phytol 160:43-48. doi: 10.1046/j.1469-8137.2003. 00861.x
10. Carreiro MM, Koske RE (1992) Room-temperature isolations can bias against selection of low- temperature microfungi in temperate forest soils. Mycologia 84:886-900. doi: 10.2307/3760287
11. Chase MW, Fay MF (2009) Barcoding of plants and fungi. Science 325(5941):682-683. doi: 10.1126/science.1176906
12. Collado J, Platas G, Gonzalez I, Pelaez F (1999) Geographical and seasonal influences on the distribution of fungal endophytes in Quercus ilex. New Phytol 144:525-532
13. Collado J, Platas G, Paulus B, Bills GF (2007) High-throughput culturing of fungi from plant litter by a dilution-to-extinction technique. FEMS Microbiol Ecol 60:521-533. doi: 10.1111/j.1574-6941.2007.00294.x
14. Davey ML, Heegaard E, Halvorsen R, Kauserud H, Ohlson M (2013) Amplicon-pyrosequencing-based detection of compositional shifts in bryophyte-associated fungal communities along an elevation gradient. Mol Ecol 22:368-383. doi: 10.1111/mec.12122
15. Domsch KH, Gams W, Anderson TH (2007) Compendium of soil fungi. IHW-Verlag, Eching
16. Fisher PJ, Petrini O, Sutton BC (1993) A comparative study of fungal endophytes in leaves, xylem and bark of Eucalyptus in Australia and England. Sydowia 45:338-345
17. Fisher PJ, Petrini O, Petrini LE, Sutton BC (1994) Fungal endophytes from the leaves and twigs of Quercus ilex L. from England, Majorca and Switzerland. New Phytol 127:133-137. doi: 10.1111/j.1469-8137.1994.tb04267.x
18. Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidiomycetes-application to the identification of mycorrhizae and rusts. Mol Ecol 2(2):113-118. doi: 10.1111/j.1365-294X.1993.tb00005.x
19. Giordano L, Gonthier P, Varese GC, Miserere L, Nicolotti G (2009) Mycobiota inhabiting sapwood of healthy and declining Scots pine (Pinus sylvestris L.) trees in the Alps. Fungal Divers 38:69-83
20. Hamilton C, Gundel PE, Helander M, Saikkonen K (2012) Endophytic mediation of reactive oxygen species and antioxidant activity in plants: a review. Fungal Divers 54:1-10. doi: 10.1007/s13225-012-0158-9
21. Hata K, Atari R, Sone K (2002) Isolation of endophytic fungi from leaves of Pasania edulis and their within-leaf distributions. Mycoscience 43:369-373
22. Hawksworth DL (2012) Global species numbers of fungi: are tropical studies and molecular approaches contributing to a more robust estimate? Biodivers Conserv 21:2425-2433. doi: 10.1007/s10531-012-0335-x
23. Hoffman MT, Arnold AE (2008) Geographic locality and host identity shape fungal endophyte communities in cupressaceous trees. Mycol Res 112:331-344. doi: 10.1016/j.mycres.2007.10.014
24. Johnston PR, Sutherland PW, Joshee S (2006) Visualising endophytic fungi within leaves by detection of (1→3)-ß-d-glucans in fungal cell walls. Mycologist 20:159-162. doi: 10.1016/j.mycol.2006.10.003
25. Jumpponen A, Jones KL (2010) Seasonally dynamic fungal communities in the Quercus macrocarpa phyllosphere differ between urban and nonurban environments. New Phytol 186:496-513. doi: 10.1111/j.1469-8137.2010.03197.x
26. Kowalski T (1993) Fungi in living symptomless needles of Pinus sylvestris with respect to some observed disease processes. J Phytopathol-Phytopathol Z 139:129-145
27. Kumar DSS, Hyde KD (2004) Biodiversity and tissue-recurrence of endophytic fungi in Tripterygium wilfordii. Fungal Divers 17:69-90
28. Lindahl BD, Boberg J (2007) Distribution and function of litter basidiomycetes in coniferous forests. In: Boddy L, Frankland JF, van West P (eds) Ecology of saprotrophic basidiomycetes. Elsevier, Amsterdam, pp 183-196
29. Lodge DJ, Fisher PJ, Sutton BC (1996) Endophytic fungi of Manilkara bidentata leaves in Puerto Rico. Mycologia 88:733-738. doi: 10.2307/3760967
30. Magurran AE, Henderson PA (2003) Explaining the excess of rare species in natural species abundance distributions. Nature 422(6933):714-716
31. Masarovlčová E (1991) Leaf shape, stomata density and photosynthetic rate of the common oak leaves. Biol Plant 33:495-500. doi: 10.1007/bf02897727
32. Mishra A, Gond S, Kumar A, Sharma V, Verma S, Kharwar R, Sieber T (2012) Season and tissue type affect fungal endophyte communities of the indian medicinal plant Tinospora cordifolia more strongly than geographic location. Microb Ecol 64:388-398. doi: 10.1007/s00248-012-0029-7
33. Nilsson RH, Ryberg M, Kristiansson E, Abarenkov K, Larsson K-H, Koljalg U (2006) Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective. PLoS One 1(1):e59. doi: 10.1371/journal.pone.0000059
34. Nilsson R, Bok G, Ryberg M, Kristiansson E, Hallenberg N (2009) A software pipeline for processing and identification of fungal ITS sequences. Source Code Biol Med 4:1-6. doi: 10.1186/1751-0473-4-1
35. Osono T (2006) Role of phyllosphere fungi of forest trees in the development of decomposer fungal communities and decomposition processes of leaf litter. Can J Microbiol 52:701-716. doi: 10.1139/w06-023
36. Osono T (2008) Endophytic and epiphytic phyllosphere fungi of Camellia japonica: seasonal and leaf age-dependent variations. Mycologia 100:387-391
37. Pääkkönen E, Vahala J, Pohjola M, Holopainen T, Kärenlampi L (1998) Physiological, stomatal and ultrastructural ozone responses in birch (Betula pendula Roth.) are modified by water stress. Plant Cell Environ 21:671-684. doi: 10.1046/j.1365-3040.1998.00303.x
38. Pedros-Alio C (2006) Marine microbial diversity: can it be determined? Trends Microbiol 14:257-263. doi: 10.1016/j.tim.2006.04.007
39. Pedrós-Alió C (2012) The rare bacterial biosphere. Annu Rev Mar Sci 4:449-466. doi: 10.1146/annurev-marine-120710-100948
40. Peršoh D, Rambold G (2012) Lichen-associated fungi of the Letharietum vulpinae. Mycol Prog 11:753-760. doi: 10.1007/s11557-011-0786-6
41. Peršoh D, Melcher M, Graf K, Fournier J, Stadler M, Rambold G (2009) Molecular and morphological evidence for the delimitation of Xylaria hypoxylon. Mycologia 101(2):256-268. doi: 10.3852/08-108
42. Peršoh D, Melcher M, Flessa F, Rambold G (2010) First fungal community analyses of endophytic ascomycetes associated with Viscum album ssp. austriacum and its host Pinus sylvestris. Fungal Biol 114:585-596. doi: 10.1016/j.funbio.2010.04.009
43. Peršoh D, Weig AR, Rambold G (2012) A transcriptome - targeting EcoChip for assessing functional mycodiversity. Microarrays 1:25-41. doi: 10.3390/microarrays1010025
44. Peršoh D, Segert J, Zigan A, Rambold G (2013) Fungal community composition shifts along a leaf degradation gradient in a European beech forest. Plant Soil 362:175-186. doi: 10.1007/s11104-012-1271-y
45. Petkovits T, Nagy LG, Hoffmann K, Wagner L, Nyilasi I, Griebel T, Schnabelrauch D, Vogel H, Voigt K, Vágvölgyi C, Papp T (2011) Data partitions, bayesian analysis and phylogeny of the Zygomycetous fungal family Mortierellaceae, inferred from nuclear ribosomal DNA sequences. PLoS One 6:e27507. doi: 10.1371/journal.pone.0027507
46. Petrini O, Fisher PJ (1990) Occurence of fungal endophytes in twigs of Salix fragilis and Quercus robur. Mycol Res 94:1077-1080
47. Porras-Alfaro A, Bayman P (2011) Hidden fungi, emergent properties: endophytes and microbiomes. Annu Rev Phytopathol 49:291-315. doi: 10.1146/annurev-phyto-080508-081831
48. Promputtha I, Lumyong S, Dhanasekaran V, McKenzie EH, Hyde KD, Jeewon R (2007) A phylogenetic evaluation of whether endophytes become saprotrophs at host senescence. Microb Ecol 53:579-590. doi: 10.1007/s00248-006-9117-x
49. Purahong W, Hyde K (2011) Effects of fungal endophytes on grass and non-grass litter decomposition rates. Fungal Divers 47:1-7. doi: 10.1007/s13225-010-0083-8
50. R Development Core Team (2008) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna. http://www.R-project.org
51. Ragazzi A, Morrica S, Capretti P, Dellavalle I, Mancini F, Turco E (2001) Endophytic fungi in Quercus cerris: isolation frequency in relation to phenological phase, tree health and the organ affected. Phytopathol Mediterr 40:165-171
52. Ragazzi A, Moricca S, Capretti P, Dellavalle I, Turco E (2003) Differences in composition of endophytic mycobiota in twigs and leaves of healthy and declining Quercus species in Italy. Forest Pathol 33:31-38
53. Raidl S, Bonfigli R, Agerer R (2005) Calibration of quantitative real-time TaqMan PCR by correlation with hyphal biomass and ITS copies in mycelia of Piloderma croceum. Plant Biol 7:713-717. doi: 10.1055/s-2005-873003
54. Rodriguez RJ, White JF, Arnold AE, Redman RS (2009) Fungal endophytes: diversity and functional roles. New Phytol 182:314-330
55. Santamaria O, Diez JJ (2005) Fungi in leaves, twigs and stem bark of Populus tremula from northern Spain. For Pathol 35(2):95-104
56. Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, Chen W, Fungal Barcoding, Consortium (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi. PNAS 109:6241-6246. doi: 10.1073/pnas.1117018109
57. Scholtysik A, Unterseher M, Otto P, Wirth C (2012) Spatio-temporal dynamics of endophyte diversity in the canopy of European ash (Fraxinus excelsior). Mycol Prog, in press. doi: 10.1007/s11557-012-0835-9
58. Sieber TN (2007) Endophytic fungi in forest trees: are they mutualists? Fungal Biol Rev 21:75-89
59. Sieber TN, Siebercanavesi F, Dorworth CE (1991) Endophytic fungi of Red Alder (Alnus rubra) leaves and twigs in British-Columbia. Can J Bot-Rev Can Bot 69:407-411
60. Sun X, Ding Q, Hyde KD, Guo LD (2012) Community structure and preference of endophytic fungi of three woody plants in a mixed forest. Fungal Ecol 5:624-632. doi: 10.1016/j.funeco.2012.04.001
61. Suryanarayanan T (2011) Diversity of fungal endophytes in tropical trees. In: Pirttilä AM, Frank AC (eds) Endophytes of forest trees, vol 80. Forestry sciences. Springer, Netherlands, pp 67-80. doi: 10.1007/978-94-007- 1599-8-4
62. Tellenbach C, Gruenig CR, Sieber TN (2010) Suitability of quantitative real-time PCR to estimate the biomass of fungal root endophytes. Appl Environ Microbiol 76:5764-5772. doi: 10.1128/aem.00907-10
63. Thorn RG, Reddy CA, Harris D, Paul EA (1996) Isolation of saprophytic basidiomycetes from soil. Appl Environ Microbiol 62:4288-4292
64. Unterseher M (2011) Diversity of fungal endophytes in temperate forest trees. In: Pirttilä AM, Frank AC (eds) Endophytes of forest trees, vol 80. Forestry sciences. Springer, Netherlands, pp 31-46. doi: 10.1007/978-94-007- 1599-8-2
65. Unterseher M, Schnittler M (2009) Dilution-to-extinction cultivation of leaf-inhabiting endophytic fungi in beech (Fagus sylvatica L.)-different cultivation techniques influence fungal biodiversity assessment. Mycol Res 113:645-654. doi: 10.1016/j.mycres.2009.02.002
66. Unterseher M, Reiher A, Finstermeier K, Otto P, Morawetz W (2007) Species richness and distribution patterns of leaf-inhabiting endophytic fungi in a temperate forest canopy. Mycol Prog 6:201-212. doi: 10.1007/s11557-007-0541-1
67. Unterseher M, Jumpponen ARI, ÖPik M, Tedersoo L, Moora M, Dormann CF, Schnittler M (2011) Species abundance distributions and richness estimations in fungal metagenomics-lessons learned from community ecology. Mol Ecol 20:275-285. doi: 10.1111/j.1365-294X.2010.04948.x
68. Unterseher M, Peršoh D, Schnittler M (2013) Leaf-inhabiting endophytic fungi of European Beech (Fagus sylvatica L.) co-occur in leaf litter but are rare on decaying wood of the same host. Fungal Divers. doi: 10.1007/s13225-013-0222-0
69. Wearn JA, Sutton BC, Morley NJ, Gange AC (2012) Species and organ specificity of fungal endophytes in herbaceous grassland plants. J Ecol 100:1085-1092. doi: 10.1111/j.1365-2745.2012.01997.x
70. Weig A, Peršoh D, Werner S, Betzlbacher A, Rambold G (2013) Diagnostic assessment of mycodiversity in environmental samples by fungal ITS1 rDNA length polymorphism. Mycol Prog. doi: 10.1007/s11557-012-0883-1
71. Weiß M, Sýkorová Z, Garnica S, Riess K, Martos F, Krause C, Oberwinkler F, Bauer R, Redecker D (2011) Sebacinales everywhere: previously overlooked ubiquitous fungal endophytes. PLoS One 6:e16793. doi: 10.1371/journal.pone.0016793
72. White TJ, Bruns T, Lee S, Taylor J (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis M, Gelfand D, Shinsky J, White T (eds) PCR protocols: a guide to methods and applications. Academic Press, pp 315-322
73. Zamora P, Martinez-Ruiz C, Diez JJ (2008) Fungi in needles and twigs of pine plantations from northern Spain. Fungal Divers 30:171-184
74. Zhou D, Hyde K (2001) Host-specificity, host-exclusivity, and host-recurrence in saprobic fungi. Mycol Res 105:1449-1457