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Volumn 16, Issue 9, 2014, Pages 2848-2858

Pyrosequencing reveals regional differences in fruit-associated fungal communities

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA (MICROORGANISMS); EUKARYOTA; FUNGI; VITACEAE; VITIS VINIFERA;

EID: 84906944993     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/1462-2920.12456     Document Type: Article
Times cited : (142)

References (55)
  • 1
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann, R.I., Ludwig, W., and Schleifer, K.H. (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59: 143-169.
    • (1995) Microbiol Rev , vol.59 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 2
    • 78650061319 scopus 로고    scopus 로고
    • Navigating the multiple meanings of β diversity: a roadmap for the practicing ecologist
    • Anderson, M.J., Crist, T.O., Chase, J.M., Vellend, M., Inouye, B.D., Freestone, A.L., etal. (2011) Navigating the multiple meanings of β diversity: a roadmap for the practicing ecologist. Ecol Lett 14: 19-28.
    • (2011) Ecol Lett , vol.14 , pp. 19-28
    • Anderson, M.J.1    Crist, T.O.2    Chase, J.M.3    Vellend, M.4    Inouye, B.D.5    Freestone, A.L.6
  • 5
    • 84876187622 scopus 로고    scopus 로고
    • Improved selection of internal transcribed spacer-specific primers enables quantitative, ultra-high-throughput profiling of fungal communities
    • Bokulich, N.A., and Mills, D.A. (2013) Improved selection of internal transcribed spacer-specific primers enables quantitative, ultra-high-throughput profiling of fungal communities. Appl Environ Microbiol 79: 2519-2526.
    • (2013) Appl Environ Microbiol , vol.79 , pp. 2519-2526
    • Bokulich, N.A.1    Mills, D.A.2
  • 6
    • 84891933123 scopus 로고    scopus 로고
    • Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate
    • Bokulich, N.A., Thorngate, J.H., Richardson, P.M., and Mills, D.A. (2014) Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate. Proc Natl Acad Sci USA 111: E139-E148.
    • (2014) Proc Natl Acad Sci USA , vol.111
    • Bokulich, N.A.1    Thorngate, J.H.2    Richardson, P.M.3    Mills, D.A.4
  • 7
    • 78649489309 scopus 로고    scopus 로고
    • Fermenting knowledge: the history of winemaking, science and yeast research
    • Chambers, P.J., and Pretorius, I.S. (2010) Fermenting knowledge: the history of winemaking, science and yeast research. EMBO Rep 11: 914-920.
    • (2010) EMBO Rep , vol.11 , pp. 914-920
    • Chambers, P.J.1    Pretorius, I.S.2
  • 8
    • 76349114918 scopus 로고    scopus 로고
    • Controlled mixed culture fermentation: a new perspective on the use of non-Saccharomyces yeasts in winemaking
    • Ciani, M., Comitini, F., Mannazzu, I., and Domizio, P. (2010) Controlled mixed culture fermentation: a new perspective on the use of non-Saccharomyces yeasts in winemaking. FEMS Yeast Res 10: 123-133.
    • (2010) FEMS Yeast Res , vol.10 , pp. 123-133
    • Ciani, M.1    Comitini, F.2    Mannazzu, I.3    Domizio, P.4
  • 9
    • 84906944712 scopus 로고    scopus 로고
    • Estimate S: Statistical estimation of species richness and shared species from samples. URL
    • Colwell, R.K. (2013) Estimate S: Statistical estimation of species richness and shared species from samples. URL http://purl.oclc/org/estimates.
    • (2013)
    • Colwell, R.K.1
  • 11
    • 0742323166 scopus 로고    scopus 로고
    • Partitioning species diversity across landscapes and regions: a hierarchical analysis of alpha, beta, and gamma diversity
    • Crist, T.O., Veech, J.A., Gering, J.C., and Summerville, K.S. (2003) Partitioning species diversity across landscapes and regions: a hierarchical analysis of alpha, beta, and gamma diversity. Am Nat 162: 734-743.
    • (2003) Am Nat , vol.162 , pp. 734-743
    • Crist, T.O.1    Veech, J.A.2    Gering, J.C.3    Summerville, K.S.4
  • 12
    • 77954479396 scopus 로고    scopus 로고
    • The effect of fungicides on yeast communities associated with grape berries
    • Čadež, N., Zupan, J., and Raspor, P. (2010) The effect of fungicides on yeast communities associated with grape berries. FEMS Yeast Res 10: 619-630.
    • (2010) FEMS Yeast Res , vol.10 , pp. 619-630
    • Čadež, N.1    Zupan, J.2    Raspor, P.3
  • 13
    • 36249004900 scopus 로고    scopus 로고
    • Species concepts and species delimitation
    • De Queiroz, K. (2007) Species concepts and species delimitation. Syst Biol 56: 879-886.
    • (2007) Syst Biol , vol.56 , pp. 879-886
    • De Queiroz, K.1
  • 14
    • 0037052531 scopus 로고    scopus 로고
    • Global dispersal of free-living microbial eukaryote species
    • Finlay, B.J. (2002) Global dispersal of free-living microbial eukaryote species. Science 296: 1061-1063.
    • (2002) Science , vol.296 , pp. 1061-1063
    • Finlay, B.J.1
  • 15
    • 0034636581 scopus 로고    scopus 로고
    • Global patterns in biodiversity
    • Gaston, K. (2000) Global patterns in biodiversity. Nature 405: 220-227.
    • (2000) Nature , vol.405 , pp. 220-227
    • Gaston, K.1
  • 16
    • 84862589499 scopus 로고    scopus 로고
    • Geographic delineations of yeast communities and populations associated with vines and wines in New Zealand
    • Gayevskiy, V., and Goddard, M.R. (2012) Geographic delineations of yeast communities and populations associated with vines and wines in New Zealand. ISME J 6: 1281-1290.
    • (2012) ISME J , vol.6 , pp. 1281-1290
    • Gayevskiy, V.1    Goddard, M.R.2
  • 17
    • 54549092032 scopus 로고    scopus 로고
    • Quantifying the complexities of Saccharomyces cerevisiae's ecosystem engineering via fermentation
    • Goddard, M.R. (2008) Quantifying the complexities of Saccharomyces cerevisiae's ecosystem engineering via fermentation. Ecology 89: 2077-2082.
    • (2008) Ecology , vol.89 , pp. 2077-2082
    • Goddard, M.R.1
  • 20
    • 38649142473 scopus 로고    scopus 로고
    • The unseen majority: soil microbes as drivers of plant diversity and productivity in terrestrial ecosystems
    • van der Heijden, M.G.A., Bardgett, R.D., and van Straalen, N.M. (2008) The unseen majority: soil microbes as drivers of plant diversity and productivity in terrestrial ecosystems. Ecol Lett 11: 296-310.
    • (2008) Ecol Lett , vol.11 , pp. 296-310
    • van der Heijden, M.G.A.1    Bardgett, R.D.2    van Straalen, N.M.3
  • 21
    • 0035921960 scopus 로고    scopus 로고
    • An arbuscular mycorrhizal fungus accelerates decomposition and acquires nitrogen directly from organic material
    • Hodge, A., Campbell, C.D., and Fitter, A.H. (2001) An arbuscular mycorrhizal fungus accelerates decomposition and acquires nitrogen directly from organic material. Nature 413: 297-299.
    • (2001) Nature , vol.413 , pp. 297-299
    • Hodge, A.1    Campbell, C.D.2    Fitter, A.H.3
  • 22
    • 0031662188 scopus 로고    scopus 로고
    • Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity
    • Hugenholtz, P., Goebel, B.M., and Pace, N.R. (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180: 4765-4774.
    • (1998) J Bacteriol , vol.180 , pp. 4765-4774
    • Hugenholtz, P.1    Goebel, B.M.2    Pace, N.R.3
  • 24
    • 77951924594 scopus 로고    scopus 로고
    • Massively parallel 454-sequencing of fungal communities in Quercus spp. ectomycorrhizas indicates seasonal dynamics in urban and rural sites
    • Jumpponen, A., Jones, K.L., David Mattox, J., and Yaege, C. (2010) Massively parallel 454-sequencing of fungal communities in Quercus spp. ectomycorrhizas indicates seasonal dynamics in urban and rural sites. Mol Ecol 19 (Suppl. 1): 41-53.
    • (2010) Mol Ecol , vol.19 , Issue.SUPPL. 1 , pp. 41-53
    • Jumpponen, A.1    Jones, K.L.2    David Mattox, J.3    Yaege, C.4
  • 25
    • 1842560595 scopus 로고    scopus 로고
    • Tapping into microbial diversity
    • Keller, M., and Zengler, K. (2004) Tapping into microbial diversity. Nat Rev Microbiol 2: 141-150.
    • (2004) Nat Rev Microbiol , vol.2 , pp. 141-150
    • Keller, M.1    Zengler, K.2
  • 26
    • 73349110099 scopus 로고    scopus 로고
    • Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
    • Kunin, V., Engelbrektson, A., Ochman, H., and Hugenholtz, P. (2010) Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environ Microbiol 12: 118-123.
    • (2010) Environ Microbiol , vol.12 , pp. 118-123
    • Kunin, V.1    Engelbrektson, A.2    Ochman, H.3    Hugenholtz, P.4
  • 27
    • 0031792246 scopus 로고    scopus 로고
    • Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences
    • Kurtzman, C.P., and Robnett, C.J. (1998) Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences. Anton Leeuw Int J G 73: 331-371.
    • (1998) Anton Leeuw Int J G , vol.73 , pp. 331-371
    • Kurtzman, C.P.1    Robnett, C.J.2
  • 28
    • 0037540048 scopus 로고    scopus 로고
    • Phylogenetic relationships among yeasts of the 'Saccharomyces complex' determined from multigene sequence analyses
    • Kurtzman, C.P., and Robnett, C.J. (2003) Phylogenetic relationships among yeasts of the 'Saccharomyces complex' determined from multigene sequence analyses. FEMS Yeast Res 3: 417-432.
    • (2003) FEMS Yeast Res , vol.3 , pp. 417-432
    • Kurtzman, C.P.1    Robnett, C.J.2
  • 29
    • 50849085155 scopus 로고    scopus 로고
    • Biogeography and population structure of the neotropical endemic yeast species Metschnikowia lochheadii
    • Lachance, M.A., Lawrie, D., Dobson, J., and Piggott, J. (2008) Biogeography and population structure of the neotropical endemic yeast species Metschnikowia lochheadii. Anton Leeuw Int J G 94: 403-414.
    • (2008) Anton Leeuw Int J G , vol.94 , pp. 403-414
    • Lachance, M.A.1    Lawrie, D.2    Dobson, J.3    Piggott, J.4
  • 30
    • 0040953328 scopus 로고    scopus 로고
    • Ribosomal DNA, species structure, and biogeography of the cactophilic yeast Clavispora opuntiae
    • Lachance, M.A., Starmer, W.T., Bowles, J.M., Phaff, H.J., and Rosa, C.A. (2000) Ribosomal DNA, species structure, and biogeography of the cactophilic yeast Clavispora opuntiae. Can J Microbiol 46: 195-210.
    • (2000) Can J Microbiol , vol.46 , pp. 195-210
    • Lachance, M.A.1    Starmer, W.T.2    Bowles, J.M.3    Phaff, H.J.4    Rosa, C.A.5
  • 32
    • 33644745112 scopus 로고    scopus 로고
    • Ecological and evolutionary genomics of Saccharomyces cerevisiae
    • Landry, C.R., Townsend, J.P., Hartl, D.L., and Cavalieri, D. (2006) Ecological and evolutionary genomics of Saccharomyces cerevisiae. Mol Ecol 15: 575-591.
    • (2006) Mol Ecol , vol.15 , pp. 575-591
    • Landry, C.R.1    Townsend, J.P.2    Hartl, D.L.3    Cavalieri, D.4
  • 33
    • 8844230989 scopus 로고    scopus 로고
    • Lucy 2: an interactive DNA sequence quality trimming and vector removal tool
    • Li, S., and Chou, H. (2004) Lucy 2: an interactive DNA sequence quality trimming and vector removal tool. Bioinformatics 20: 2865-2866.
    • (2004) Bioinformatics , vol.20 , pp. 2865-2866
    • Li, S.1    Chou, H.2
  • 34
    • 0035955371 scopus 로고    scopus 로고
    • Biodiversity and ecosystem functioning: current knowledge and future challenges
    • Loreau, M. (2001) Biodiversity and ecosystem functioning: current knowledge and future challenges. Science 294: 804-808.
    • (2001) Science , vol.294 , pp. 804-808
    • Loreau, M.1
  • 35
    • 0035133496 scopus 로고    scopus 로고
    • Fitting multivariate models to community data: a comment on distance-based redundancy analysis
    • McArdle, B., and Anderson, M. (2001) Fitting multivariate models to community data: a comment on distance-based redundancy analysis. Ecology 82: 290-297.
    • (2001) Ecology , vol.82 , pp. 290-297
    • McArdle, B.1    Anderson, M.2
  • 37
    • 33847291893 scopus 로고    scopus 로고
    • Quantitative phylogenetic assessment of microbial communities in diverse environments
    • von Mering, C., Hugenholtz, P., Raes, J., Tringe, S.G., Doerks, T., Jensen, L.J., etal. (2007) Quantitative phylogenetic assessment of microbial communities in diverse environments. Science 315: 1126-1130.
    • (2007) Science , vol.315 , pp. 1126-1130
    • von Mering, C.1    Hugenholtz, P.2    Raes, J.3    Tringe, S.G.4    Doerks, T.5    Jensen, L.J.6
  • 40
    • 84878366500 scopus 로고    scopus 로고
    • 454 pyrosequencing analysis of fungal assemblages from geographically distant, disparate soils reveals spatial patterning and a core mycobiome
    • Orgiazzi, A., Bianciotto, V., Bonfante, P., Daghino, S., Ghignone, S., Lazzari, A., etal. (2013) 454 pyrosequencing analysis of fungal assemblages from geographically distant, disparate soils reveals spatial patterning and a core mycobiome. Diversity 5: 73-98.
    • (2013) Diversity , vol.5 , pp. 73-98
    • Orgiazzi, A.1    Bianciotto, V.2    Bonfante, P.3    Daghino, S.4    Ghignone, S.5    Lazzari, A.6
  • 43
    • 4344691709 scopus 로고    scopus 로고
    • Application and evaluation of denaturing gradient gel electrophoresis to analyse the yeast ecology of wine grapes
    • Prakitchaiwattana, C.J., Fleet, G.H., and Heard, G.M. (2004) Application and evaluation of denaturing gradient gel electrophoresis to analyse the yeast ecology of wine grapes. FEMS Yeast Res 4: 865-877.
    • (2004) FEMS Yeast Res , vol.4 , pp. 865-877
    • Prakitchaiwattana, C.J.1    Fleet, G.H.2    Heard, G.M.3
  • 44
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Pruesse, E., Quast, C., Knittel, K., Fuchs, B.M., Ludwig, W., Peplies, J., and Glöckner, F.O. (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196.
    • (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
  • 45
    • 49049120999 scopus 로고    scopus 로고
    • Saccharomyces sensu stricto as a model system for evolution and ecology
    • Replansky, T., Koufopanou, V., Greig, D., and Bell, G. (2008) Saccharomyces sensu stricto as a model system for evolution and ecology. Trends Ecol Evol 23: 494-501.
    • (2008) Trends Ecol Evol , vol.23 , pp. 494-501
    • Replansky, T.1    Koufopanou, V.2    Greig, D.3    Bell, G.4
  • 46
    • 77749298797 scopus 로고    scopus 로고
    • Sequence-based identification of filamentous basidiomycetous fungi from clinical specimens: a cautionary note
    • Romanelli, A.M., Sutton, D.A., Thompson, E.H., Rinaldi, M.G., and Wickes, B.L. (2010) Sequence-based identification of filamentous basidiomycetous fungi from clinical specimens: a cautionary note. J Clin Microbiol 48: 741-752.
    • (2010) J Clin Microbiol , vol.48 , pp. 741-752
    • Romanelli, A.M.1    Sutton, D.A.2    Thompson, E.H.3    Rinaldi, M.G.4    Wickes, B.L.5
  • 47
    • 72949107142 scopus 로고    scopus 로고
    • Introducing MOTHUR: open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss, P.D., Westcott, S.L., Ryabin, T., Hall, J.R., Hartmann, M., Hollister, E.B., etal. (2009) Introducing MOTHUR: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 7537-7541
    • Schloss, P.D.1    Westcott, S.L.2    Ryabin, T.3    Hall, J.R.4    Hartmann, M.5    Hollister, E.B.6
  • 48
    • 84871585089 scopus 로고    scopus 로고
    • The vineyard yeast microbiome, a mixed model microbial map
    • Setati, M.E., Jacobson, D., Andong, U.-C., and Bauer, F. (2012) The vineyard yeast microbiome, a mixed model microbial map. PLoS ONE 7: e52609.
    • (2012) PLoS ONE , vol.7
    • Setati, M.E.1    Jacobson, D.2    Andong, U.-C.3    Bauer, F.4
  • 49
    • 21944446848 scopus 로고    scopus 로고
    • Yeast modulation of wine flavor
    • Swiegers, J., and Pretorius, I. (2005) Yeast modulation of wine flavor. Adv Appl Microbiol 57: 131-175.
    • (2005) Adv Appl Microbiol , vol.57 , pp. 131-175
    • Swiegers, J.1    Pretorius, I.2
  • 50
    • 33751213586 scopus 로고    scopus 로고
    • Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi
    • Taylor, J.W., Turner, E., Townsend, J.P., Dettman, J.R., and Jacobson, D. (2006) Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi. Philos Trans R Soc B 361: 1947-1963.
    • (2006) Philos Trans R Soc B , vol.361 , pp. 1947-1963
    • Taylor, J.W.1    Turner, E.2    Townsend, J.P.3    Dettman, J.R.4    Jacobson, D.5
  • 51
    • 1142306012 scopus 로고    scopus 로고
    • Host specificity in marine sponge-associated bacteria, and potential implications for marine microbial diversity
    • Taylor, M., Schupp, P., Dahllof, I., Kjelleberg, S., and Steinberg, P. (2004) Host specificity in marine sponge-associated bacteria, and potential implications for marine microbial diversity. Environ Microbiol 6: 121-130.
    • (2004) Environ Microbiol , vol.6 , pp. 121-130
    • Taylor, M.1    Schupp, P.2    Dahllof, I.3    Kjelleberg, S.4    Steinberg, P.5
  • 52
    • 84906945093 scopus 로고    scopus 로고
    • R: A Language and environment for statistical computing.
    • Team, R.C. (2013) R: A Language and environment for statistical computing.
    • (2013)
    • Team, R.C.1
  • 53
    • 84883553716 scopus 로고    scopus 로고
    • Community composition of root-associated fungi in a Quercus-dominated temperate forest: 'codominance' of mycorrhizal and root-endophytic fungi
    • Toju, H., Yamamoto, S., Sato, H., Tanabe, A.S., Gilbert, G.S., and Kadowaki, K. (2013) Community composition of root-associated fungi in a Quercus-dominated temperate forest: 'codominance' of mycorrhizal and root-endophytic fungi. Ecol Evol 3: 1281-1293.
    • (2013) Ecol Evol , vol.3 , pp. 1281-1293
    • Toju, H.1    Yamamoto, S.2    Sato, H.3    Tanabe, A.S.4    Gilbert, G.S.5    Kadowaki, K.6
  • 54
    • 1542377296 scopus 로고    scopus 로고
    • Community structure and metabolism through reconstruction of microbial genomes from the environment
    • Tyson, G.W., Chapman, J., Hugenholtz, P., Allen, E.E., Ram, R.J., Richardson, P.M., etal. (2004) Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature 428: 37-43.
    • (2004) Nature , vol.428 , pp. 37-43
    • Tyson, G.W.1    Chapman, J.2    Hugenholtz, P.3    Allen, E.E.4    Ram, R.J.5    Richardson, P.M.6


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