-
1
-
-
25144516095
-
Fungal community analysis by large-scale sequencing of environmental samples
-
PubMed
-
O'Brien HE, Parrent JL, Jackson JA, Moncalvo JM, Vilgalys R. Fungal community analysis by large-scale sequencing of environmental samples. Appl Environ Microbiol 2005; 71:5544-5550.PubMed http://dx.doi.org/10.1128/AEM.71.9.5544-5550.2005
-
(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
-
2
-
-
70349493057
-
Massively parallel 454 sequencing indicates hyperdiverse fungal com-munities in temperate Quercus macrocarpa phyllosphere
-
PubMed
-
Jumpponen A, Jones KL. Massively parallel 454 sequencing indicates hyperdiverse fungal com-munities in temperate Quercus macrocarpa phyllosphere. New Phytol 2009; 184:438-448.PubMed http://dx.doi.org/10.1111/j.1469-8137.2009.02990.x
-
(2009)
New Phytol
, vol.184
, pp. 438-448
-
-
Jumpponen, A.1
Jones, K.L.2
-
3
-
-
84863981120
-
Ultra-high-throughput microbi-al community analysis on the Illumina HiSeq and MiSeq platforms
-
PubMed
-
Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, Fierer N, Betley J, Fraser L, Bauer M, Gormley N, et al. Ultra-high-throughput microbi-al community analysis on the Illumina HiSeq and MiSeq platforms. ISME J 2012; 6:1621-1624.PubMed http://dx.doi.org/10.1038/ismej.2012.8
-
(2012)
ISME J
, vol.6
, pp. 1621-1624
-
-
Caporaso, J.G.1
Lauber, C.L.2
Walters, W.A.3
Berg-Lyons, D.4
Huntley, J.5
Fierer, N.6
Betley, J.7
Fraser, L.8
Bauer, M.9
Gormley, N.10
-
4
-
-
84875083468
-
Five simple guidelines for establishing basic authentic-ity and reliability of newly generated fungal ITS sequences
-
Nilsson RH, Tedersoo L, Abarenkov K, Ryberg M, Kristiansson E, Hartmann M, Schoch CL, Nylander JAA, Bergsten J, Porter TM, et al. Five simple guidelines for establishing basic authentic-ity and reliability of newly generated fungal ITS sequences. MycoKeys 2012; 4:37-63.http://dx.doi.org/10.3897/mycokeys.4.3606
-
(2012)
MycoKeys
, vol.4
, pp. 37-63
-
-
Nilsson, R.H.1
Tedersoo, L.2
Abarenkov, K.3
Ryberg, M.4
Kristiansson, E.5
Hartmann, M.6
Schoch, C.L.7
Nylander, J.A.A.8
Bergsten, J.9
Porter, T.M.10
-
5
-
-
53149135089
-
Fungal com-munity ecology: A hybrid beast with a molecular master
-
Peay KG, Kennedy PK, Bruns TD. Fungal com-munity ecology: a hybrid beast with a molecular master. Bioscience 2008; 58:799-810.http://dx.doi.org/10.1641/B580907
-
(2008)
Bioscience
, vol.58
, pp. 799-810
-
-
Peay, K.G.1
Kennedy, P.K.2
Bruns, T.D.3
-
6
-
-
84859972408
-
Nuclear ribo-somal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi
-
Pub-Med
-
Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, Chen W. Nuclear ribo-somal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi. Proc Natl Acad Sci USA 2012; 109:6241-6246.Pub-Med http://dx.doi.org/10.1073/pnas.1117018109
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 6241-6246
-
-
Schoch, C.L.1
Seifert, K.A.2
Huhndorf, S.3
Robert, V.4
Spouge, J.L.5
Levesque, C.A.6
Chen, W.7
-
7
-
-
84857122937
-
An improved Greengenes tax-onomy with explicit ranks for ecological and evo-lutionary analyses of bacteria and archaea
-
PubMed
-
McDonald D, Price MN, Goodrich J, Nawrocki EP, DeSantis TZ, Probst A, Andersen GL, Knight R, Hugenholtz P. An improved Greengenes tax-onomy with explicit ranks for ecological and evo-lutionary analyses of bacteria and archaea. ISME J 2012; 6:610-618.PubMed http://dx.doi.org/10.1038/ismej.2011.139
-
(2012)
ISME J
, vol.6
, pp. 610-618
-
-
McDonald, D.1
Price, M.N.2
Goodrich, J.3
Nawrocki, E.P.4
Desantis, T.Z.5
Probst, A.6
Andersen, G.L.7
Knight, R.8
Hugenholtz, P.9
-
8
-
-
58149200948
-
The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis
-
PubMed
-
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Far-ris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, Tiedje JM. The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 2009; 37:D141-D145.PubMed http://dx.doi.org/10.1093/nar/gkn879
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Cole, J.R.1
Wang, Q.2
Cardenas, E.3
Fish, J.4
Chai, B.5
Far-Ris, R.J.6
Kulam-Syed-Mohideen, A.S.7
McGarrell, D.M.8
Marsh, T.9
Garrity, G.M.10
Tiedje, J.M.11
-
9
-
-
37549027613
-
SILVA: A comprehen-sive online resource for quality checked and aligned ribosomal RNA sequence data compati-ble with ARB
-
PubMed
-
Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glöckner FO. SILVA: a comprehen-sive online resource for quality checked and aligned ribosomal RNA sequence data compati-ble with ARB. Nucleic Acids Res 2007; 35:7188-7196.PubMed http://dx.doi.org/10.1093/nar/gkm864
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
Quast, C.2
Knittel, K.3
Fuchs, B.M.4
Ludwig, W.5
Peplies, J.6
Glöckner, F.O.7
-
10
-
-
84857091706
-
Accurate, rapid taxonomic classification of fungal large subunit rRNA genes
-
PubMed
-
Liu KL, Kuske CR, Porras-Alfaro A, Eichorst S, Xie G. Accurate, rapid taxonomic classification of fungal large subunit rRNA genes. Appl Environ Microbiol 2012; 78:1523-1533.PubMed http://dx.doi.org/10.1128/AEM.06826-11
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 1523-1533
-
-
Liu, K.L.1
Kuske, C.R.2
Porras-Alfaro, A.3
Eichorst, S.4
Xie, G.5
-
11
-
-
79952447866
-
Progress in molecular and mor-phological taxon discovery in Fungi and options for formal classification of environmental se-quences
-
Hibbett DS, Ohman A, Glotzer D, Nuhn M, Kirk P, Nilsson RH. Progress in molecular and mor-phological taxon discovery in Fungi and options for formal classification of environmental se-quences. Fungal Biol Rev 2011; 25:38-47. http://dx.doi.org/10.1016/j.fbr.2011.01.001
-
(2011)
Fungal Biol Rev
, vol.25
, pp. 38-47
-
-
Hibbett, D.S.1
Ohman, A.2
Glotzer, D.3
Nuhn, M.4
Kirk, P.5
Nilsson, R.H.6
-
12
-
-
85182610990
-
-
QIIME
-
QIIME. http://qiime.org
-
-
-
-
13
-
-
85182611533
-
-
PhyloSift
-
PhyloSift. http://phylosift.wordpress.com
-
-
-
-
14
-
-
85182613007
-
-
Fungal ITS workshop
-
Fungal ITS workshop
-
-
-
-
15
-
-
77954748234
-
The UNITE database for molecular identification of fungi: Recent up-dates and future perspectives
-
PubMed
-
Abarenkov K, Nilsson RH, Larsson KH, Alexander IJ, Eberhardt U, Erland S, Høiland K, Kjøller R, Larsson E, Pennanen T, et al. The UNITE database for molecular identification of fungi: recent up-dates and future perspectives. New Phytol 2010; 186:281-285.PubMed http://dx.doi.org/10.1111/j.1469-8137.2009.03160.x
-
(2010)
New Phytol
, vol.186
, pp. 281-285
-
-
Abarenkov, K.1
Nilsson, R.H.2
Larsson, K.H.3
Alexander, I.J.4
Eberhardt, U.5
Erland, S.6
Høiland, K.7
Kjøller, R.8
Larsson, E.9
Pennanen, T.10
-
16
-
-
85182616403
-
-
UNITE database
-
UNITE database. http://unite.ut.ee
-
-
-
-
17
-
-
85182616907
-
-
http://qiime.org/home_static/dataFiles.html
-
-
-
-
18
-
-
85182619389
-
-
Index Fungorum
-
Index Fungorum. http://www.indexfungorum.org
-
-
-
-
19
-
-
85182615045
-
-
MycoBank
-
MycoBank. http://www.mycobank.org
-
-
-
-
20
-
-
34250341823
-
A higher-level phyloge-netic classification of the Fungi
-
PubMed
-
Hibbett DS, Binder M, Bischoff JF, Blackwell M, Cannon PF, Eriksson OE, Huhndorf S, James T, Kirk PM, Lücking R, et al. A higher-level phyloge-netic classification of the Fungi. Mycol Res 2007; 111:509-547.PubMed http://dx.doi.org/10.1016/j.mycres.2007.03.004
-
(2007)
Mycol Res
, vol.111
, pp. 509-547
-
-
Hibbett, D.S.1
Binder, M.2
Bischoff, J.F.3
Blackwell, M.4
Cannon, P.F.5
Eriksson, O.E.6
Huhndorf, S.7
James, T.8
Kirk, P.M.9
Lücking, R.10
-
23
-
-
0026911326
-
Evolutionary rela-tionships within the fungi: Analyses of nuclear small subunit rRNA sequences
-
PubMed
-
Bruns TD, Vilgalys R, Barnes SM, Gonzalez D, Hibbett DS, Lane DJ, Simon L, Stickel S, Szaro TM, Weisburg WG, Sogin ML. Evolutionary rela-tionships within the fungi: analyses of nuclear small subunit rRNA sequences. Mol Phylogenet Evol 1992; 1:231-241.PubMed http://dx.doi.org/10.1016/1055-7903(92)90020-H
-
(1992)
Mol Phylogenet Evol
, vol.1
, pp. 231-241
-
-
Bruns, T.D.1
Vilgalys, R.2
Barnes, S.M.3
Gonzalez, D.4
Hibbett, D.S.5
Lane, D.J.6
Simon, L.7
Stickel, S.8
Szaro, T.M.9
Weisburg, W.G.10
Sogin, M.L.11
-
24
-
-
85182615266
-
-
1000 Fungal Genoms Project
-
1000 Fungal Genoms Project. http://1000.fungalgenomes.org
-
-
-
-
25
-
-
33748713890
-
UniFrac: An Online Tool for Comparing Microbial Community Diversity in a Phylogenetic Context
-
PubMed
-
Lozupone C, Hamady M, Knight R. UniFrac: An Online Tool for Comparing Microbial Community Diversity in a Phylogenetic Context. BMC Bioin-formatics 2006; 7:371.PubMed http://dx.doi.org/10.1186/1471-2105-7-371
-
(2006)
BMC Bioin-formatics
, vol.7
, pp. 371
-
-
Lozupone, C.1
Hamady, M.2
Knight, R.3
-
26
-
-
77954336858
-
ITS as an environmental DNA barcode for fungi: An in silico approach re-veals potential PCR biases
-
PubMed
-
Bellemain E, Carlsen T, Brochmann C, Coissac E, Taberlet P, Kauserud H. ITS as an environmental DNA barcode for fungi: an in silico approach re-veals potential PCR biases. BMC Microbiol 2010; 10:189.PubMed http://dx.doi.org/10.1186/1471-2180-10-189
-
(2010)
BMC Microbiol
, vol.10
, pp. 189
-
-
Bellemain, E.1
Carlsen, T.2
Brochmann, C.3
Coissac, E.4
Taberlet, P.5
Kauserud, H.6
-
27
-
-
75549088448
-
The ITS2 Database III: Sequences and structures for phylogeny
-
PubMed
-
Koetschan C, Förster F, Keller A, Schleicher T, Ruderisch B, Schwarz R, Müller T, Wolf M, Schultz J. The ITS2 Database III: sequences and structures for phylogeny. Nucleic Acids Res 2010; 38:D275-D279.PubMed http://dx.doi.org/10.1093/nar/gkp966
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Koetschan, C.1
Förster, F.2
Keller, A.3
Schleicher, T.4
Ruderisch, B.5
Schwarz, R.6
Müller, T.7
Wolf, M.8
Schultz, J.9
-
28
-
-
85182609729
-
-
The ITS2 Database. III
-
The ITS2 Database. III http://its2.bioapps.biozentrum.uni-wuerzburg.de
-
-
-
|