메뉴 건너뛰기




Volumn 18, Issue 9, 2015, Pages 974-982

Microbial ecosystems are dominated by specialist taxa

Author keywords

Abundance; Beta diversity; Communities; Microbial ecology; Microbiota; Specialist taxa; Specificity

Indexed keywords

ABUNDANCE; BIODIVERSITY; DATA SET; DOMINANCE; ENVIRONMENTAL CONDITIONS; HABITAT TYPE; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; MICROORGANISM; POPULATION DISTRIBUTION; TAXONOMY;

EID: 84939581424     PISSN: 1461023X     EISSN: 14610248     Source Type: Journal    
DOI: 10.1111/ele.12478     Document Type: Article
Times cited : (72)

References (50)
  • 1
    • 84855949949 scopus 로고    scopus 로고
    • Using network analysis to explore co-occurrence patterns in soil microbial communities
    • Barberán, A., Bates, S.T., Casamayor, E.O. & Fierer, N. (2012). Using network analysis to explore co-occurrence patterns in soil microbial communities. ISME J., 6, 343-351.
    • (2012) ISME J. , vol.6 , pp. 343-351
    • Barberán, A.1    Bates, S.T.2    Casamayor, E.O.3    Fierer, N.4
  • 4
    • 79953029749 scopus 로고    scopus 로고
    • Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis
    • Burke, C., Thomas, T., Lewis, M., Steinberg, P. & Kjelleberg, S. (2011b). Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis. ISME J., 5, 590-600.
    • (2011) ISME J. , vol.5 , pp. 590-600
    • Burke, C.1    Thomas, T.2    Lewis, M.3    Steinberg, P.4    Kjelleberg, S.5
  • 9
    • 72949091232 scopus 로고    scopus 로고
    • Bacterial community variation in human body habitats across space and time
    • Costello, E.K., Lauber, C.L., Hamady, M., Fierer, N., Gordon, J.I. & Knight, R. (2009). Bacterial community variation in human body habitats across space and time. Science, 326, 1694-1697.
    • (2009) Science , vol.326 , pp. 1694-1697
    • Costello, E.K.1    Lauber, C.L.2    Hamady, M.3    Fierer, N.4    Gordon, J.I.5    Knight, R.6
  • 10
    • 84861992014 scopus 로고    scopus 로고
    • The application of ecological theory toward an understanding of the human microbiome
    • Costello, E.K., Stagaman, K., Dethlefsen, L., Bohannan, B.J.M. & Relman, D.A. (2012). The application of ecological theory toward an understanding of the human microbiome. Science, 336, 1255-1262.
    • (2012) Science , vol.336 , pp. 1255-1262
    • Costello, E.K.1    Stagaman, K.2    Dethlefsen, L.3    Bohannan, B.J.M.4    Relman, D.A.5
  • 12
    • 0031284508 scopus 로고    scopus 로고
    • Species assemblages and indicator species: the need for a flexible asymmetrical approach
    • Dufrene, M. & Legendre, P. (1997). Species assemblages and indicator species: the need for a flexible asymmetrical approach. Ecol. Monogr., 67, 345-366.
    • (1997) Ecol. Monogr. , vol.67 , pp. 345-366
    • Dufrene, M.1    Legendre, P.2
  • 14
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar, R.C. (2010). Search and clustering orders of magnitude faster than BLAST. Bioinformatics, 26, 2460-2461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 15
    • 33947236971 scopus 로고    scopus 로고
    • Toward an ecological classification of soil bacteria
    • Fierer, N., Bradford, M.A. & Jackson, R.B. (2007). Toward an ecological classification of soil bacteria. Ecology, 88, 1354-1364.
    • (2007) Ecology , vol.88 , pp. 1354-1364
    • Fierer, N.1    Bradford, M.A.2    Jackson, R.B.3
  • 16
    • 84884672457 scopus 로고    scopus 로고
    • Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin
    • Fortunato, C.S., Eiler, A., Herfort, L., Needoba, J.A., Peterson, T.D. & Crump, B.C. (2013). Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin. ISME J., 7, 1899-1911.
    • (2013) ISME J. , vol.7 , pp. 1899-1911
    • Fortunato, C.S.1    Eiler, A.2    Herfort, L.3    Needoba, J.A.4    Peterson, T.D.5    Crump, B.C.6
  • 17
    • 33746732367 scopus 로고    scopus 로고
    • The evolution of virulence and host specialization in malaria parasites of primates
    • Garamszegi, L.Z. (2006). The evolution of virulence and host specialization in malaria parasites of primates. Ecol. Lett., 9, 933-940.
    • (2006) Ecol. Lett. , vol.9 , pp. 933-940
    • Garamszegi, L.Z.1
  • 18
    • 55649096185 scopus 로고    scopus 로고
    • Phylogenetic beta diversity: linking ecological and evolutionary processes across space in time
    • Graham, C.H. & Fine, P.V.A. (2008). Phylogenetic beta diversity: linking ecological and evolutionary processes across space in time. Ecol. Lett., 11, 1265-1277.
    • (2008) Ecol. Lett. , vol.11 , pp. 1265-1277
    • Graham, C.H.1    Fine, P.V.A.2
  • 19
    • 33645353062 scopus 로고    scopus 로고
    • Reconciling niche and neutrality: the continuum hypothesis
    • Gravel, D., Canham, C.D., Beaudet, M. & Messier, C. (2006). Reconciling niche and neutrality: the continuum hypothesis. Ecol. Lett., 9, 399-409.
    • (2006) Ecol. Lett. , vol.9 , pp. 399-409
    • Gravel, D.1    Canham, C.D.2    Beaudet, M.3    Messier, C.4
  • 20
    • 84899880796 scopus 로고    scopus 로고
    • Metamorphosis of a butterfly-associated bacterial community
    • Hammer, T.J., McMillan, W.O. & Fierer, N. (2014). Metamorphosis of a butterfly-associated bacterial community. PLoS ONE, 9, e86995.
    • (2014) PLoS ONE , vol.9
    • Hammer, T.J.1    McMillan, W.O.2    Fierer, N.3
  • 21
    • 84939595835 scopus 로고    scopus 로고
    • Linking statistical and ecological theory: Hubbell's unified neutral theory of biodiversity as a hierarchical Dirichlet process
    • arXiv:1410:4038 [q-bio.PE]
    • Harris, K., Parsons, T.L., Ijaz, U.Z., Lahti, L., Holmes, I. & Quince, C. (2014). Linking statistical and ecological theory: Hubbell's unified neutral theory of biodiversity as a hierarchical Dirichlet process. arXiv:1410:4038 [q-bio.PE].
    • (2014)
    • Harris, K.1    Parsons, T.L.2    Ijaz, U.Z.3    Lahti, L.4    Holmes, I.5    Quince, C.6
  • 25
    • 84866495952 scopus 로고    scopus 로고
    • Functional biogeography of ocean microbes revealed through non-negative matrix factorization
    • Jiang, X., Langille, M.G.I., Neches, R.Y., Elliot, M., Levin, S.A., Eisen, J.A. et al. (2012). Functional biogeography of ocean microbes revealed through non-negative matrix factorization. PLoS ONE, 7, e43866.
    • (2012) PLoS ONE , vol.7
    • Jiang, X.1    Langille, M.G.I.2    Neches, R.Y.3    Elliot, M.4    Levin, S.A.5    Eisen, J.A.6
  • 26
    • 63849126616 scopus 로고    scopus 로고
    • Species-sorting may explain an apparent minimal effect of immigration on freshwater bacterial community dynamics
    • Jones, S.E. & McMahon, K.D. (2009). Species-sorting may explain an apparent minimal effect of immigration on freshwater bacterial community dynamics. Environ. Microbiol., 11, 905-913.
    • (2009) Environ. Microbiol. , vol.11 , pp. 905-913
    • Jones, S.E.1    McMahon, K.D.2
  • 27
    • 84882447097 scopus 로고    scopus 로고
    • Initial symbiont contact orchestrates host-organ-wide transcriptional changes that prime tissue colonization
    • Kremer, N., Philipp, E.E.R., Carpentier, M.-C., Brennan, C.A., Kraemer, L., Altura, M.A. et al. (2013). Initial symbiont contact orchestrates host-organ-wide transcriptional changes that prime tissue colonization. Cell Host Microbe, 14, 183-194.
    • (2013) Cell Host Microbe , vol.14 , pp. 183-194
    • Kremer, N.1    Philipp, E.E.R.2    Carpentier, M.-C.3    Brennan, C.A.4    Kraemer, L.5    Altura, M.A.6
  • 28
    • 84876822224 scopus 로고    scopus 로고
    • Biogeography of bacterial communities exposed to progressive long-term environmental change
    • Logares, R., Lindström, E.S., Langenheder, S., Logue, J.B., Paterson, H., Laybourn-Parry, J. et al. (2013). Biogeography of bacterial communities exposed to progressive long-term environmental change. ISME J., 7, 937-948.
    • (2013) ISME J. , vol.7 , pp. 937-948
    • Logares, R.1    Lindström, E.S.2    Langenheder, S.3    Logue, J.B.4    Paterson, H.5    Laybourn-Parry, J.6
  • 29
    • 33947269742 scopus 로고    scopus 로고
    • Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities
    • Lozupone, C.A., Hamady, M., Kelley, S.T. & Knight, R. (2007). Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities. Appl. Environ. Microbiol., 73, 1576-1585.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 1576-1585
    • Lozupone, C.A.1    Hamady, M.2    Kelley, S.T.3    Knight, R.4
  • 30
    • 84903393770 scopus 로고    scopus 로고
    • Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill
    • Mason, O.U., Scott, N.M., Gonzalez, A., Robbins-Pianka, A., Bælum, J., Kimbrel, J. et al. (2014). Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill. ISME J., 8, 1464-1475.
    • (2014) ISME J. , vol.8 , pp. 1464-1475
    • Mason, O.U.1    Scott, N.M.2    Gonzalez, A.3    Robbins-Pianka, A.4    Bælum, J.5    Kimbrel, J.6
  • 31
    • 84857122937 scopus 로고    scopus 로고
    • An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
    • McDonald, D., Price, M.N., Goodrich, J., Nawrocki, E.P., DeSantis, T.Z., Probst, A. et al. (2011). An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J., 6, 610-618.
    • (2011) 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
  • 32
    • 84876427223 scopus 로고    scopus 로고
    • phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data
    • McMurdie, P.J. & Holmes, S. (2013). phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE, 8, e61217.
    • (2013) PLoS ONE , vol.8
    • McMurdie, P.J.1    Holmes, S.2
  • 33
    • 84901363655 scopus 로고    scopus 로고
    • Waste not, want not: why rarefying microbiome data is inadmissible
    • McMurdie, P.J. & Holmes, S. (2014). Waste not, want not: why rarefying microbiome data is inadmissible. PLoS Comput. Biol., 10, e1003531.
    • (2014) PLoS Comput. Biol. , vol.10
    • McMurdie, P.J.1    Holmes, S.2
  • 34
    • 84896363836 scopus 로고    scopus 로고
    • Specificity and transcriptional activity of microbiota associated with low and high microbial abundance sponges from the Red Sea
    • Moitinho-Silva, L., Bayer, K., Cannistraci, C.V., Giles, E.C., Ryu, T., Seridi, L. et al. (2014). Specificity and transcriptional activity of microbiota associated with low and high microbial abundance sponges from the Red Sea. Mol. Ecol., 23, 1348-1363.
    • (2014) Mol. Ecol. , vol.23 , pp. 1348-1363
    • Moitinho-Silva, L.1    Bayer, K.2    Cannistraci, C.V.3    Giles, E.C.4    Ryu, T.5    Seridi, L.6
  • 36
    • 84870912949 scopus 로고    scopus 로고
    • Reconsidering the specialist-generalist paradigm in niche breadth dynamics: resource gradient selection by Canada lynx and bobcat
    • Peers, M.J.L., Thornton, D.H. & Murray, D.L. (2012). Reconsidering the specialist-generalist paradigm in niche breadth dynamics: resource gradient selection by Canada lynx and bobcat. PLoS ONE, 7, e51488.
    • (2012) PLoS ONE , vol.7
    • Peers, M.J.L.1    Thornton, D.H.2    Murray, D.L.3
  • 38
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2: approximately maximum-likelihood trees for large alignments
    • Price, M.N., Dehal, P.S. & Arkin, A.P. (2010). FastTree 2: approximately maximum-likelihood trees for large alignments. PLoS ONE, 5, e9490.
    • (2010) PLoS ONE , vol.5
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 40
    • 84907225684 scopus 로고    scopus 로고
    • Alterations of the human gut microbiome in liver cirrhosis
    • Qin, N., Yang, F., Li, A., Prifti, E., Chen, Y., Shao, L. et al. (2014). Alterations of the human gut microbiome in liver cirrhosis. Nature, 513, 59-64.
    • (2014) Nature , vol.513 , pp. 59-64
    • Qin, N.1    Yang, F.2    Li, A.3    Prifti, E.4    Chen, Y.5    Shao, L.6
  • 41
    • 1842532897 scopus 로고    scopus 로고
    • Gnotobiotic zebrafish reveal evolutionarily conserved responses to the gut microbiota
    • Rawls, J.F., Samuel, B.S. & Gordon, J.I. (2004). Gnotobiotic zebrafish reveal evolutionarily conserved responses to the gut microbiota. Proc. Natl. Acad. Sci. USA, 101, 4596-4601.
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 4596-4601
    • Rawls, J.F.1    Samuel, B.S.2    Gordon, J.I.3
  • 42
    • 84901263103 scopus 로고    scopus 로고
    • Host-specificity among abundant and rare taxa in the sponge microbiome
    • Reveillaud, J., Maignien, L., Eren, A.M., Huber, J.A., Apprill, A., Sogin, M.L. et al. (2014). Host-specificity among abundant and rare taxa in the sponge microbiome. ISME J., 8, 1198-1209.
    • (2014) ISME J. , vol.8 , pp. 1198-1209
    • Reveillaud, J.1    Maignien, L.2    Eren, A.M.3    Huber, J.A.4    Apprill, A.5    Sogin, M.L.6
  • 43
    • 84927695117 scopus 로고    scopus 로고
    • Water fleas require microbiota for survival, growth and reproduction
    • Sison-Mangus, M.P., Mushegian, A.A. & Ebert, D. (2015). Water fleas require microbiota for survival, growth and reproduction. ISME J., 9, 59-67.
    • (2015) ISME J. , vol.9 , pp. 59-67
    • Sison-Mangus, M.P.1    Mushegian, A.A.2    Ebert, D.3
  • 44
    • 33644843833 scopus 로고    scopus 로고
    • Quantifying the roles of immigration and chance in shaping prokaryote community structure
    • Sloan, W.T., Lunn, M., Woodcock, S., Head, I.M., Nee, S. & Curtis, T.P. (2006). Quantifying the roles of immigration and chance in shaping prokaryote community structure. Environ. Microbiol., 8, 732-740.
    • (2006) Environ. Microbiol. , vol.8 , pp. 732-740
    • Sloan, W.T.1    Lunn, M.2    Woodcock, S.3    Head, I.M.4    Nee, S.5    Curtis, T.P.6
  • 45
    • 84865345637 scopus 로고    scopus 로고
    • Stochastic and deterministic assembly processes in subsurface microbial communities
    • Stegen, J.C., Lin, X., Konopka, A.E. & Fredrickson, J.K. (2012). Stochastic and deterministic assembly processes in subsurface microbial communities. ISME J., 6, 1653-1664.
    • (2012) ISME J. , vol.6 , pp. 1653-1664
    • Stegen, J.C.1    Lin, X.2    Konopka, A.E.3    Fredrickson, J.K.4
  • 46
    • 84891483718 scopus 로고    scopus 로고
    • The importance of species sorting differs between habitat generalists and specialists in bacterial communities
    • Székely, A.J. & Langenheder, S. (2014). The importance of species sorting differs between habitat generalists and specialists in bacterial communities. FEMS Microbiol. Ecol., 87, 102-112.
    • (2014) FEMS Microbiol. Ecol. , vol.87 , pp. 102-112
    • Székely, A.J.1    Langenheder, S.2
  • 47
    • 77952803493 scopus 로고    scopus 로고
    • Conceptual synthesis in community ecology
    • Vellend, M. (2010). Conceptual synthesis in community ecology. Q. Rev. Biol., 85, 183-206.
    • (2010) Q. Rev. Biol. , vol.85 , pp. 183-206
    • Vellend, M.1
  • 48
    • 84874536596 scopus 로고    scopus 로고
    • The variability of the 16S rRNA gene in bacterial genomes and its consequences for bacterial community analyses
    • Vetrovsky, T. & Baldrian, P. (2013). The variability of the 16S rRNA gene in bacterial genomes and its consequences for bacterial community analyses. PLoS ONE, 8, e57923.
    • (2013) PLoS ONE , vol.8
    • Vetrovsky, T.1    Baldrian, P.2
  • 49
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • Wang, Q., Garrity, G.M., Tiedje, J.M. & Cole, J.R. (2007). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol., 73, 5261-5267.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.