-
1
-
-
0035712954
-
The magnitude of fungal diversity: the 1.5 million species estimate revisited
-
Hawksworth DL, (2001) The magnitude of fungal diversity: the 1.5 million species estimate revisited. Mycol Res 105: 1422-1432.
-
(2001)
Mycol Res
, vol.105
, pp. 1422-1432
-
-
Hawksworth, D.L.1
-
2
-
-
33846968135
-
Fungal biodiversity: What do we know? What can we predict?
-
Mueller GM, Schmit JP, (2007) Fungal biodiversity: What do we know? What can we predict? Biodiversity and Conserv 16: 1-5.
-
(2007)
Biodiversity and Conserv
, vol.16
, pp. 1-5
-
-
Mueller, G.M.1
Schmit, J.P.2
-
3
-
-
0003804933
-
-
Wallingford, UK, CABI,10th ed
-
Kirk PM, Cannon PF, Minter DW, Stalpers JA, (2008) Dictionary of the Fungi, 10th ed. Wallingford, UK CABI.
-
(2008)
Dictionary of the Fungi
-
-
Kirk, P.M.1
Cannon, P.F.2
Minter, D.W.3
Stalpers, J.A.4
-
4
-
-
79952447866
-
Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences
-
(DOI: 10.1016/j.fbr.2011.01.001)
-
Hibbett DS, Ohman A, Glotzer D, Nuhn M, Kirk P, Nilsson RH, (2011) Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences. Fungal Biol Rev (DOI: 10.1016/j.fbr.2011.01.001).
-
(2011)
Fungal Biol Rev
-
-
Hibbett, D.S.1
Ohman, A.2
Glotzer, D.3
Nuhn, M.4
Kirk, P.5
Nilsson, R.H.6
-
5
-
-
38049134360
-
Impact of DNA sequence-data on the taxonomy of anamorphic fungi
-
Shenoy BD, Jeewon R, Hyde KD, (2007) Impact of DNA sequence-data on the taxonomy of anamorphic fungi. Fungal Divers 26: 1-54.
-
(2007)
Fungal Divers
, vol.26
, pp. 1-54
-
-
Shenoy, B.D.1
Jeewon, R.2
Hyde, K.D.3
-
6
-
-
53149135089
-
Fungal community ecology: a hybrid beast with a molecular master
-
Peay KG, Kennedy PG, Bruns TD, (2008) Fungal community ecology: a hybrid beast with a molecular master. BioScience 58: 799-810.
-
(2008)
BioScience
, vol.58
, pp. 799-810
-
-
Peay, K.G.1
Kennedy, P.G.2
Bruns, T.D.3
-
7
-
-
19344366809
-
UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
-
Kõljalg U, Larsson K-H, Abarenkov K, Nilsson RH, Alexander IJ, et al. (2005) UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytol 166: 1063-1068.
-
(2005)
New Phytol
, vol.166
, pp. 1063-1068
-
-
Kõljalg, U.1
Larsson, K.-H.2
Abarenkov, K.3
Nilsson, R.H.4
Alexander, I.J.5
-
8
-
-
77952765171
-
Current state and perspectives of fungal DNA barcoding and rapid identification procedures
-
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.
-
(2010)
Appl Microbiol Biotechnol
, vol.87
, pp. 99-108
-
-
Begerow, D.1
Nilsson, H.2
Unterseher, M.3
Maier, W.4
-
9
-
-
33751213586
-
Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi
-
Taylor JW, Turner E, Townsend JP, Dettman JR, Jacobson D, (2006) Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi. Philos Trans R Soc London [Biol] 361: 1947-1963.
-
(2006)
Philos Trans R Soc London [Biol]
, vol.361
, pp. 1947-1963
-
-
Taylor, J.W.1
Turner, E.2
Townsend, J.P.3
Dettman, J.R.4
Jacobson, D.5
-
10
-
-
65349088516
-
Progress towards DNA barcoding of fungi
-
Seifert KA, (2009) Progress towards DNA barcoding of fungi. Mol Ecol Resour 9: 83-89.
-
(2009)
Mol Ecol Resour
, vol.9
, pp. 83-89
-
-
Seifert, K.A.1
-
11
-
-
33750044587
-
Fungal diversity in molecular terms: profiling, identification, and quantification in the environment
-
In: Dighton J, White JF, Oudemans PV, editors. Boca Raton, Florida, CRC press, Taylor & Francis Group
-
Bidartondo MI, Gardes M, (2005) Fungal diversity in molecular terms: profiling, identification, and quantification in the environment. In: Dighton J, White JF, Oudemans PV, editors. The Fungal Community. Boca Raton, Florida, CRC press, Taylor & Francis Group pp. 215-239.
-
(2005)
The Fungal Community
, pp. 215-239
-
-
Bidartondo, M.I.1
Gardes, M.2
-
12
-
-
58249124483
-
How to know unknown fungi: the role of a herbarium
-
Brock PM, Döring H, Bidartondo MI, (2009) How to know unknown fungi: the role of a herbarium. New Phytol 181: 719-724.
-
(2009)
New Phytol
, vol.181
, pp. 719-724
-
-
Brock, P.M.1
Döring, H.2
Bidartondo, M.I.3
-
13
-
-
77954172720
-
A constructive step towards selecting a DNA barcode for fungi
-
Eberhardt U, (2010) A constructive step towards selecting a DNA barcode for fungi. New Phytol 187: 265-268.
-
(2010)
New Phytol
, vol.187
, pp. 265-268
-
-
Eberhardt, U.1
-
14
-
-
25144516095
-
Fungal community analysis by large-scale sequencing of environmental samples
-
O'Brien HE, Parrent JL, Jackson JA, Moncalvo J-M, Vilgalys R, (2005) Fungal community analysis by large-scale sequencing of environmental samples. Appl Environ Microbiol 71: 5544-5550.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 5544-5550
-
-
O'Brien, H.E.1
Parrent, J.L.2
Jackson, J.A.3
Moncalvo, J.-M.4
Vilgalys, R.5
-
15
-
-
70349493057
-
Massively parallel 454-sequencing indicates hyperdiverse fungal communities in temperate Quercus macrocarpa phyllosphere
-
Jumpponen A, Jones KL, (2009) Massively parallel 454-sequencing indicates hyperdiverse fungal communities in temperate Quercus macrocarpa phyllosphere. New Phytol 184: 438-448.
-
(2009)
New Phytol
, vol.184
, pp. 438-448
-
-
Jumpponen, A.1
Jones, K.L.2
-
16
-
-
70349482733
-
454 pyrosequencing analyses of forest soils reveal an unexpected high fungal diversity
-
Buée M, Reich M, Murat C, Morin E, Nilsson RH, Uroz S, et al. (2009) 454 pyrosequencing analyses of forest soils reveal an unexpected high fungal diversity. New Phytol 184: 449-456.
-
(2009)
New Phytol
, vol.184
, pp. 449-456
-
-
Buée, M.1
Reich, M.2
Murat, C.3
Morin, E.4
Nilsson, R.H.5
Uroz, S.6
-
17
-
-
75549088687
-
Database resources of the National Center for Biotechnology information
-
Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, et al. (2010) Database resources of the National Center for Biotechnology information. Nucleic Acids Res 38: D5-D16.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Sayers, E.W.1
Barrett, T.2
Benson, D.A.3
Bolton, E.4
Bryant, S.H.5
-
18
-
-
0037677692
-
ITS2 is a double-edged tool for eukaryote evolutionary comparisons
-
Coleman AW, (2003) ITS2 is a double-edged tool for eukaryote evolutionary comparisons. Trends Genet 19: 370-375.
-
(2003)
Trends Genet
, vol.19
, pp. 370-375
-
-
Coleman, A.W.1
-
19
-
-
24644457706
-
BAliBASE 3.0: Latest developments of the multiple sequence alignment benchmark
-
Thompson JD, Koehl P, Ripp R, Poch R, (2005) BAliBASE 3.0: Latest developments of the multiple sequence alignment benchmark. Proteins: Struct Funct Bioinf 61: 127-136.
-
(2005)
Proteins: Struct Funct Bioinf
, vol.61
, pp. 127-136
-
-
Thompson, J.D.1
Koehl, P.2
Ripp, R.3
Poch, R.4
-
20
-
-
45749142504
-
Intraspecific ITS variability in the kingdom Fungi as expressed in the international sequence databases and its implications for molecular species identification
-
Nilsson RH, Kristiansson E, Ryberg M, Hallenberg N, Larsson K-H, (2008) Intraspecific ITS variability in the kingdom Fungi as expressed in the international sequence databases and its implications for molecular species identification. Evol Bioinformatics 4: 193-201.
-
(2008)
Evol Bioinformatics
, vol.4
, pp. 193-201
-
-
Nilsson, R.H.1
Kristiansson, E.2
Ryberg, M.3
Hallenberg, N.4
Larsson, K.-H.5
-
21
-
-
67649240664
-
Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees
-
Liu K, Raghavan S, Nelesen S, Linder CR, Warrnow T, (2009) Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees. Science 324: 1561-1564.
-
(2009)
Science
, vol.324
, pp. 1561-1564
-
-
Liu, K.1
Raghavan, S.2
Nelesen, S.3
Linder, C.R.4
Warrnow, T.5
-
22
-
-
67649217482
-
Uniting alignments and trees
-
Löytynoja A, Goldman N, (2009) Uniting alignments and trees. Science 324: 1528-1529.
-
(2009)
Science
, vol.324
, pp. 1528-1529
-
-
Löytynoja, A.1
Goldman, N.2
-
23
-
-
79955457841
-
-
Beijing, Science Press, Sclerotiniaceae et Geoglossaceae
-
Zhuang WY, (1998) Flora Fungorum Sinicorum. Beijing Science Press Vol. 8. Sclerotiniaceae et Geoglossaceae.
-
(1998)
Flora Fungorum Sinicorum
, vol.8
-
-
Zhuang, W.Y.1
-
24
-
-
69149101755
-
Geoglossomycetes cl. nov., Geoglosssales ord. nov. and taxa above class rank in the Ascomycota tree of life
-
Schoch CL, Wang Z, Townsend JP, Spatafora JW, (2009) Geoglossomycetes cl. nov., Geoglosssales ord. nov. and taxa above class rank in the Ascomycota tree of life. Persoonia 22: 129-138.
-
(2009)
Persoonia
, vol.22
, pp. 129-138
-
-
Schoch, C.L.1
Wang, Z.2
Townsend, J.P.3
Spatafora, J.W.4
-
25
-
-
67749119915
-
The Ascomycota Tree of Life: A phylum wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits
-
Schoch CL, Sung G-H, López-Giráldez F, Townsend JP, Miadlikowska J, et al. (2009) The Ascomycota Tree of Life: A phylum wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Syst Biol 58: 224-239.
-
(2009)
Syst Biol
, vol.58
, pp. 224-239
-
-
Schoch, C.L.1
Sung, G.-H.2
López-Giráldez, F.3
Townsend, J.P.4
Miadlikowska, J.5
-
26
-
-
33748883070
-
Evolution of helotialean fungi (Leotiomycetes, Pezizomycotina): a nuclear rDNA phylogeny
-
Wang Z, Binder M, Schoch CL, Johnston PR, Spatafora JW, et al. (2006) Evolution of helotialean fungi (Leotiomycetes, Pezizomycotina): a nuclear rDNA phylogeny. Mol Phylogenet Evol 41: 295-312.
-
(2006)
Mol Phylogenet Evol
, vol.41
, pp. 295-312
-
-
Wang, Z.1
Binder, M.2
Schoch, C.L.3
Johnston, P.R.4
Spatafora, J.W.5
-
27
-
-
34247641066
-
Toward a phylogenetic classification of the Leotiomycetes based on rDNA data
-
Wang Z, Johnston PR, Takamatsu S, Spatafora JW, Hibbett DS, (2006) Toward a phylogenetic classification of the Leotiomycetes based on rDNA data. Mycologia 98: 1065-1075.
-
(2006)
Mycologia
, vol.98
, pp. 1065-1075
-
-
Wang, Z.1
Johnston, P.R.2
Takamatsu, S.3
Spatafora, J.W.4
Hibbett, D.S.5
-
28
-
-
25644460009
-
Approaching the taxonomic affiliation of unidentified sequences in public databases - an example from the mycorrhizal fungi
-
Nilsson RH, Kristiansson E, Ryberg M, Hallenberg N, Larsson K-H, (2005) Approaching the taxonomic affiliation of unidentified sequences in public databases - an example from the mycorrhizal fungi. BMC Bioinformatics 6: 178.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 178
-
-
Nilsson, R.H.1
Kristiansson, E.2
Ryberg, M.3
Hallenberg, N.4
Larsson, K.-H.5
-
29
-
-
32044471897
-
Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits
-
Lutzoni F, Kauff F, Cox CJ, McLaughlin D, Celio G, et al. (2004) Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits. Am J Bot 91: 1446-1480.
-
(2004)
Am J Bot
, vol.91
, pp. 1446-1480
-
-
Lutzoni, F.1
Kauff, F.2
Cox, C.J.3
McLaughlin, D.4
Celio, G.5
-
30
-
-
33750329972
-
Reconstructing the early evolution of Fungi using a six-gene phylogeny
-
James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, et al. (2006) Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443: 818-822.
-
(2006)
Nature
, vol.443
, pp. 818-822
-
-
James, T.Y.1
Kauff, F.2
Schoch, C.L.3
Matheny, P.B.4
Hofstetter, V.5
-
31
-
-
77954288890
-
An alignment confidence score capturing robustness to guide tree uncertainty
-
Penn O, Privman E, Landan G, Graur D, Pupko T, (2010) An alignment confidence score capturing robustness to guide tree uncertainty. Mol Biol Evol 27: 1759-1767.
-
(2010)
Mol Biol Evol
, vol.27
, pp. 1759-1767
-
-
Penn, O.1
Privman, E.2
Landan, G.3
Graur, D.4
Pupko, T.5
-
32
-
-
78650445809
-
Recent trends in molecular phylogenetic analysis: where to next?
-
Blair C, Murphy RW, (2011) Recent trends in molecular phylogenetic analysis: where to next? J Heredity 102: 130-138.
-
(2011)
J Heredity
, vol.102
, pp. 130-138
-
-
Blair, C.1
Murphy, R.W.2
-
33
-
-
33748742598
-
Resource availability controls fungal diversity across a plant diversity gradient
-
Waldrop MP, Zak DR, Blackwood CB, Curtis CD, Tilman D, (2006) Resource availability controls fungal diversity across a plant diversity gradient. Ecol Lett 9: 1127-1135.
-
(2006)
Ecol Lett
, vol.9
, pp. 1127-1135
-
-
Waldrop, M.P.1
Zak, D.R.2
Blackwood, C.B.3
Curtis, C.D.4
Tilman, D.5
-
34
-
-
34247892392
-
TOPO TA is a-ok: a test of phylogenetic bias in fungal environmental clone library construction
-
Taylor DL, Herriott IC, Long J, O'Neill K, (2007) TOPO TA is a-ok: a test of phylogenetic bias in fungal environmental clone library construction. Environ Microbiol 9: 1329-1334.
-
(2007)
Environ Microbiol
, vol.9
, pp. 1329-1334
-
-
Taylor, D.L.1
Herriott, I.C.2
Long, J.3
O'Neill, K.4
-
35
-
-
53749086554
-
Multiple species of ectomycorrhizal fungi are frequently detected on individual oak root tips in a tropical cloud forest
-
Morris MH, Pérez-Pérez MA, Smith ME, Bledsoe CS, (2008) Multiple species of ectomycorrhizal fungi are frequently detected on individual oak root tips in a tropical cloud forest. Mycorrhiza 18: 375-383.
-
(2008)
Mycorrhiza
, vol.18
, pp. 375-383
-
-
Morris, M.H.1
Pérez-Pérez, M.A.2
Smith, M.E.3
Bledsoe, C.S.4
-
36
-
-
71249160545
-
Bacterial, archaeal and eukaryal community structures throughout soil horizons of harvested and naturally disturbed forest stands
-
Hartmann M, Lee S, Hallam SJ, Mohn WW, (2009) Bacterial, archaeal and eukaryal community structures throughout soil horizons of harvested and naturally disturbed forest stands. Environ Microbiol 11: 3045-3062.
-
(2009)
Environ Microbiol
, vol.11
, pp. 3045-3062
-
-
Hartmann, M.1
Lee, S.2
Hallam, S.J.3
Mohn, W.W.4
-
37
-
-
71249158799
-
Tuber melanosporum, when dominant, affects fungal dynamics in truffle grounds
-
Napoli C, Mello A, Borra A, Vizzini A, Sourzat P, Bonfante P, (2010) Tuber melanosporum, when dominant, affects fungal dynamics in truffle grounds. New Phytol 185: 237-247.
-
(2010)
New Phytol
, vol.185
, pp. 237-247
-
-
Napoli, C.1
Mello, A.2
Borra, A.3
Vizzini, A.4
Sourzat, P.5
Bonfante, P.6
-
39
-
-
77956644153
-
Northern species of earth tongure genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny
-
Ohenoja E, Wang Z, Townsend JP, Mitchel D, Voitk A, (2010) Northern species of earth tongure genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny. Mycologia 102: 1089-1095.
-
(2010)
Mycologia
, vol.102
, pp. 1089-1095
-
-
Ohenoja, E.1
Wang, Z.2
Townsend, J.P.3
Mitchel, D.4
Voitk, A.5
-
40
-
-
0027580147
-
ITS primers with enhanced specificity for basidiomycetes: applicatioin to the identification of mycorrhiza and rusts
-
Gardes M, Bruns TD, (1993) ITS primers with enhanced specificity for basidiomycetes: applicatioin to the identification of mycorrhiza and rusts. Mol Ecol 2: 113-118.
-
(1993)
Mol Ecol
, vol.2
, pp. 113-118
-
-
Gardes, M.1
Bruns, T.D.2
-
41
-
-
53949092460
-
Analysis of phylogenetic relationships by amplification and direct sequencing of ribosomal RNA genes
-
In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, editors, New York, Academic Press
-
White TJ, Brun TD, Lee S, Taylor J, (1990) Analysis of phylogenetic relationships by amplification and direct sequencing of ribosomal RNA genes. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, editors. PCR protocols: a guide to methods and applications New York Academic Press pp. 315-322.
-
(1990)
PCR Protocols: A Guide to Methods and Applications
, pp. 315-322
-
-
White, T.J.1
Brun, T.D.2
Lee, S.3
Taylor, J.4
-
42
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman SB, Wunsch CD, (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J Mol Biol 48: 443-453.
-
(1970)
J Mol Biol
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
43
-
-
0034201441
-
EMBOSS: the European Molecular Biology Open Software Suite
-
Rice P, Longden I, Bleasby A, (2000) EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet 16: 276-277.
-
(2000)
Trends Genet
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
44
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
-
45
-
-
57649143377
-
An outlook on the fungal internal transcribed spacer sequences in GenBank and the introduction of a web-based tool for the exploration of fungal diversity
-
Ryberg M, Kristiansson E, Sjökvist E, Nilsson RH, (2009) An outlook on the fungal internal transcribed spacer sequences in GenBank and the introduction of a web-based tool for the exploration of fungal diversity. New Phytol 181: 471-477.
-
(2009)
New Phytol
, vol.181
, pp. 471-477
-
-
Ryberg, M.1
Kristiansson, E.2
Sjökvist, E.3
Nilsson, R.H.4
-
46
-
-
79959633458
-
A note on the incidence of reverse complementary fungal ITS sequences in the public sequence databases and a software tool for their detection and reorientation
-
DOI:10.1007/s10267-010-0086-z
-
Nilsson RH, Veldre V, Wang Z, Eckart M, Branco S, et al. (2011) A note on the incidence of reverse complementary fungal ITS sequences in the public sequence databases and a software tool for their detection and reorientation. Mycoscience DOI:10.1007/s10267-010-0086-z).
-
(2011)
Mycoscience
-
-
Nilsson, R.H.1
Veldre, V.2
Wang, Z.3
Eckart, M.4
Branco, S.5
-
47
-
-
0031574072
-
The Clustal-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson JD, Gibson TJ, Jeanmougin F, Higgins DG, (1997) The Clustal-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24: 4876-4882.
-
(1997)
Nucleic Acids Res
, vol.24
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Jeanmougin, F.3
Higgins, D.G.4
-
48
-
-
77956292257
-
An open source chimera checker for the fungal ITS region
-
Nilsson RH, Abarenkov K, Veldre V, Nylinder S, De Wit P, et al. (2010) An open source chimera checker for the fungal ITS region. Mol Ecol Resour 10: 1076-1081.
-
(2010)
Mol Ecol Resour
, vol.10
, pp. 1076-1081
-
-
Nilsson, R.H.1
Abarenkov, K.2
Veldre, V.3
Nylinder, S.4
De Wit, P.5
-
49
-
-
0034849408
-
MrBayes: Bayesian inference of phylogenetic trees
-
Huelsenbeck JP, Ronquist F, (2001) MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
-
(2001)
Bioinformatics
, vol.17
, pp. 754-755
-
-
Huelsenbeck, J.P.1
Ronquist, F.2
|