메뉴 건너뛰기




Volumn 5, Issue 12, 2010, Pages

Response of archaeal communities in the rhizosphere of maize and soybean to elevated atmospheric CO2 concentrations

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; AMMONIA MONOOXYGENASE; CARBON; CARBON DIOXIDE; NITRITE; NITROGEN; POTASSIUM CHLORIDE; RNA 16S; UNCLASSIFIED DRUG; UNSPECIFIC MONOOXYGENASE; VEGETABLE PROTEIN;

EID: 78650850445     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0015897     Document Type: Article
Times cited : (28)

References (69)
  • 2
    • 33644963915 scopus 로고    scopus 로고
    • 2 modifies total and metabolically active bacterial communities in the rhizosphere of two perennial grasses grown under field conditions
    • 2 modifies total and metabolically active bacterial communities in the rhizosphere of two perennial grasses grown under field conditions. Fems Microbiology Ecology 55: 339-350.
    • (2006) Fems Microbiology Ecology , vol.55 , pp. 339-350
    • Jossi, M.1    Fromin, N.2    Tarnawski, S.3    Kohler, F.4    Gillet, F.5
  • 9
    • 52949113790 scopus 로고    scopus 로고
    • Relative contributions of archaea and bacteria to aerobic ammonia oxidation in the environment
    • Prosser JI, Nicol GW (2008) Relative contributions of archaea and bacteria to aerobic ammonia oxidation in the environment. Environmental Microbiology 10: 2931-2941.
    • (2008) Environmental Microbiology , vol.10 , pp. 2931-2941
    • Prosser, J.I.1    Nicol, G.W.2
  • 10
    • 34248178641 scopus 로고    scopus 로고
    • New processes and players in the nitrogen cycle: The microbial ecology of anaerobic and archaeal ammonia oxidation
    • Francis CA, Beman JM, Kuypers MMM (2007) New processes and players in the nitrogen cycle: the microbial ecology of anaerobic and archaeal ammonia oxidation. ISME Journal 1: 19-27.
    • (2007) ISME Journal , vol.1 , pp. 19-27
    • Francis, C.A.1    Beman, J.M.2    Kuypers, M.M.M.3
  • 11
    • 23644433664 scopus 로고    scopus 로고
    • In situ stable isotope probing of methanogenic archaea in the rice rhizosphere
    • Lu YH, Conrad R (2005) In situ stable isotope probing of methanogenic archaea in the rice rhizosphere. Science 309: 1088-1090.
    • (2005) Science , vol.309 , pp. 1088-1090
    • Lu, Y.H.1    Conrad, R.2
  • 12
    • 28644435323 scopus 로고    scopus 로고
    • Novel genes for nitrite reductase and Amo-related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling
    • Treusch AH, Leininger S, Kletzin A, Schuster SC, Klenk HP, et al. (2005) Novel genes for nitrite reductase and Amo-related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling. Environmental Microbiology 7: 1985-1995.
    • (2005) Environmental Microbiology , vol.7 , pp. 1985-1995
    • Treusch, A.H.1    Leininger, S.2    Kletzin, A.3    Schuster, S.C.4    Klenk, H.P.5
  • 15
    • 52949137846 scopus 로고    scopus 로고
    • The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidizing archaea and bacteria
    • Nicol GW, Leininger S, Schleper C, Prosser JI (2008) The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidizing archaea and bacteria. Environmental Microbiology 10: 2966-2978.
    • (2008) Environmental Microbiology , vol.10 , pp. 2966-2978
    • Nicol, G.W.1    Leininger, S.2    Schleper, C.3    Prosser, J.I.4
  • 16
    • 33747479446 scopus 로고    scopus 로고
    • Archaea predominate among ammonia-oxidizing prokaryotes in soils
    • Leininger S, Urich T, Schloter M, Schwark L, Qi J, et al. (2006) Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature 442: 806-809.
    • (2006) Nature , vol.442 , pp. 806-809
    • Leininger, S.1    Urich, T.2    Schloter, M.3    Schwark, L.4    Qi, J.5
  • 19
    • 66749133568 scopus 로고    scopus 로고
    • Rising atmospheric carbon dioxide concentration and the future of C4 crops for food and fuel
    • Leakey ADB (2009) Rising atmospheric carbon dioxide concentration and the future of C4 crops for food and fuel. Proceedings of the Royal Society BBiological Sciences 276: 2333-2343.
    • (2009) Proceedings of the Royal Society BBiological Sciences , vol.276 , pp. 2333-2343
    • Leakey, A.D.B.1
  • 20
    • 13144283719 scopus 로고    scopus 로고
    • 2 enrichment (FACE)? A meta-analytic review of the responses of photosynthesis, canopy
    • 2 enrichment (FACE)? A meta-analytic review of the responses of photosynthesis, canopy. New Phytologist 165: 351-371.
    • (2005) New Phytologist , vol.165 , pp. 351-371
    • Ainsworth, E.A.1    Long, S.P.2
  • 21
    • 14944385367 scopus 로고    scopus 로고
    • 2] enrichment (FACE) stimulates photosynthesis while decreasing in vivo Rubisco capacity
    • 2] enrichment (FACE) stimulates photosynthesis while decreasing in vivo Rubisco capacity. Planta 220: 434-446.
    • (2005) Planta , vol.220 , pp. 434-446
    • Bernacchi, C.J.1    Morgan, P.B.2    Ort, D.R.3    Long, S.P.4
  • 25
    • 70349785705 scopus 로고    scopus 로고
    • Will elevated carbon dioxide concentration amplify the benefits of nitrogen fixation in legumes?
    • Rogers A, Ainsworth EA, Leakey ADB (2009) Will elevated carbon dioxide concentration amplify the benefits of nitrogen fixation in legumes? Plant Physiology 151: 1009-1016.
    • (2009) Plant Physiology , vol.151 , pp. 1009-1016
    • Rogers, A.1    Ainsworth, E.A.2    Leakey, A.D.B.3
  • 26
    • 33748487811 scopus 로고    scopus 로고
    • Increased C availability at elevated carbon dioxide concentration improves N assimilation in a legume
    • Rogers A, Gibon Y, Stitt M, Morgan PB, Bernacchi CJ, et al. (2006) Increased C availability at elevated carbon dioxide concentration improves N assimilation in a legume. Plant Cell and Environment 29: 1651-1658.
    • (2006) Plant Cell and Environment , vol.29 , pp. 1651-1658
    • Rogers, A.1    Gibon, Y.2    Stitt, M.3    Morgan, P.B.4    Bernacchi, C.J.5
  • 28
    • 0034964968 scopus 로고    scopus 로고
    • The diversity of archaea and bacteria in association with the roots of Zea mays L
    • Chelius MK, Triplett EW (2001) The diversity of archaea and bacteria in association with the roots of Zea mays L. Microbial Ecology 41: 252-263.
    • (2001) Microbial Ecology , vol.41 , pp. 252-263
    • Chelius, M.K.1    Triplett, E.W.2
  • 29
    • 0028983870 scopus 로고
    • Molecular phylogenetic analysis of a soil microbial community in a soybean field
    • Ueda T, Suga Y, Matsuguchi T (1995) Molecular phylogenetic analysis of a soil microbial community in a soybean field. European Journal of Soil Science 46: 415-421.
    • (1995) European Journal of Soil Science , vol.46 , pp. 415-421
    • Ueda, T.1    Suga, Y.2    Matsuguchi, T.3
  • 33
    • 22144470189 scopus 로고    scopus 로고
    • Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays
    • Fierer N, Jackson JA, Vilgalys R, Jackson RB (2005) Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays. Applied and Environmental Microbiology 71: 4117-4120.
    • (2005) Applied and Environmental Microbiology , vol.71 , pp. 4117-4120
    • Fierer, N.1    Jackson, J.A.2    Vilgalys, R.3    Jackson, R.B.4
  • 34
    • 2542508293 scopus 로고    scopus 로고
    • Diversity and structure of the methanogenic community in anoxic rice paddy soil microcosms as examined by cultivation and direct 16S rRNA gene sequence retrieval
    • Grosskopf R, Janssen PH, Liesack W (1998) Diversity and structure of the methanogenic community in anoxic rice paddy soil microcosms as examined by cultivation and direct 16S rRNA gene sequence retrieval. Applied and Environmental Microbiology 64: 960-969.
    • (1998) Applied and Environmental Microbiology , vol.64 , pp. 960-969
    • Grosskopf, R.1    Janssen, P.H.2    Liesack, W.3
  • 35
    • 3042802223 scopus 로고    scopus 로고
    • Decadalscale fates of 15N tracers added to oak and pine stands under ambient and elevated N inputs at the Harvard Forest (USA)
    • Nadelhoffer KJ, Colman BP, Currie WS, Magill A, Aber JD (2004) Decadalscale fates of 15N tracers added to oak and pine stands under ambient and elevated N inputs at the Harvard Forest (USA). Forest Ecology and Management 196: 89-107.
    • (2004) Forest Ecology and Management , vol.196 , pp. 89-107
    • Nadelhoffer, K.J.1    Colman, B.P.2    Currie, W.S.3    Magill, A.4    Aber, J.D.5
  • 37
    • 34249050929 scopus 로고    scopus 로고
    • Monitoring and source tracking of tetracycline resistance genes in lagoons and groundwater adjacent to swine production facilities over a 3-year period
    • Koike S, Krapac IG, Oliver HD, Yannarell AC, Chee-Sanford JC, et al. (2007) Monitoring and source tracking of tetracycline resistance genes in lagoons and groundwater adjacent to swine production facilities over a 3-year period. Applied and Environmental Microbiology 73: 4813-4823.
    • (2007) Applied and Environmental Microbiology , vol.73 , pp. 4813-4823
    • Koike, S.1    Krapac, I.G.2    Oliver, H.D.3    Yannarell, A.C.4    Chee-Sanford, J.C.5
  • 39
    • 34547686149 scopus 로고    scopus 로고
    • Quantitative analyses of the abundance and composition of ammonia-oxidizing bacteria and ammoniaoxidizing archaea of a Chinese upland red soil under long-term fertilization practices
    • He J, Shen J, Zhang L, Zhu Y, Zheng Y, et al. (2007) Quantitative analyses of the abundance and composition of ammonia-oxidizing bacteria and ammoniaoxidizing archaea of a Chinese upland red soil under long-term fertilization practices. Environmental Microbiology 9: 2364-2374.
    • (2007) Environmental Microbiology , vol.9 , pp. 2364-2374
    • He, J.1    Shen, J.2    Zhang, L.3    Zhu, Y.4    Zheng, Y.5
  • 41
    • 40149103278 scopus 로고    scopus 로고
    • Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex
    • Hamady M, Walker JJ, Harris JK, Gold NJ, Knight R (2008) Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex. Nature Methods 5: 235-237.
    • (2008) Nature Methods , vol.5 , pp. 235-237
    • Hamady, M.1    Walker, J.J.2    Harris, J.K.3    Gold, N.J.4    Knight, R.5
  • 42
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied and Environmental Microbiology 73: 5261-5267.
    • (2007) Applied and Environmental Microbiology , vol.73 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4
  • 43
    • 34047240607 scopus 로고    scopus 로고
    • Query-dependent banding (QDB) for faster RNA similarity searches
    • Nawrocki EP, Eddy SR (2007) Query-dependent banding (QDB) for faster RNA similarity searches. PLoS Computational Biology 3: 540-554.
    • (2007) PLoS Computational Biology , vol.3 , pp. 540-554
    • Nawrocki, E.P.1    Eddy, S.R.2
  • 44
    • 58149200948 scopus 로고    scopus 로고
    • The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis
    • Cole JR, Wang Q, Cardenas E, Fish J, Chai B, et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Research 37: D141-D145.
    • (2009) Nucleic Acids Research , vol.37
    • Cole, J.R.1    Wang, Q.2    Cardenas, E.3    Fish, J.4    Chai, B.5
  • 47
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis A (2006) RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 48
    • 33845873289 scopus 로고    scopus 로고
    • Interactive Tree Of Life (iTOL): An online tool for phylogenetic tree display and annotation
    • Letunic I, Bork P (2007) Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics 23: 127-128.
    • (2007) Bioinformatics , vol.23 , pp. 127-128
    • Letunic, I.1    Bork, P.2
  • 49
    • 33748713890 scopus 로고    scopus 로고
    • UniFrac-An online tool for comparing microbial community diversity in a phylogenetic context
    • Lozupone C, Hamady M, Knight R (2006) UniFrac-An online tool for comparing microbial community diversity in a phylogenetic context. Bmc Bioinformatics 7.
    • (2006) Bmc Bioinformatics , pp. 7
    • Lozupone, C.1    Hamady, M.2    Knight, R.3
  • 50
    • 33644606606 scopus 로고    scopus 로고
    • FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries
    • Yu YN, Breitbart M, McNairnie P, Rohwer F (2006) FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries. Bmc Bioinformatics 7.
    • (2006) Bmc Bioinformatics , pp. 7
    • Yu, Y.N.1    Breitbart, M.2    McNairnie, P.3    Rohwer, F.4
  • 51
    • 0027968068 scopus 로고
    • Clustal-W-improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ (1994) Clustal-W-improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research 22: 4673-4680.
    • (1994) Nucleic Acids Research , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 52
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
    • Kumar S, Tamura K, Nei M (2004) MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Briefings in Bioinformatics 5: 150-163.
    • (2004) Briefings in Bioinformatics , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 53
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2-approximately maximumlikelihood trees for large alignments
    • Price MN, Dehal PS, Arkin AP (2010) FastTree 2-approximately maximumlikelihood 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
  • 54
    • 0004244096 scopus 로고    scopus 로고
    • Schinner F, Ohlinger R, Kandeler E, Margesin R, eds, New York: Springer
    • Schinner F, Ohlinger R, Kandeler E, Margesin R, eds (1996) Methods in Soil Biology. New York: Springer.
    • (1996) Methods in Soil Biology
  • 55
    • 0002562336 scopus 로고
    • Soil reaction and exchangeable acidity
    • In: Carter MR, ed, Boca Raton: Lewis Publishers
    • Hendershot WH, Lalande H, Duqutte M (1993) Soil reaction and exchangeable acidity. In: Carter MR, ed. Soil Sampling and Methods of Analysis. Boca Raton: Lewis Publishers. pp 141-145.
    • (1993) Soil Sampling and Methods of Analysis , pp. 141-145
    • Hendershot, W.H.1    Lalande, H.2    Duqutte, M.3
  • 56
    • 34748886657 scopus 로고    scopus 로고
    • PAST: Paleontological Statistics Software Package for Education and Data Analysis
    • Hammer Ø, Harper DAT, Ryan PD (2001) PAST: Paleontological Statistics Software Package for Education and Data Analysis. Palaeontologia Electronica 4: 9.
    • (2001) Palaeontologia Electronica , vol.4 , pp. 9
    • Hammer, O.1    Harper, D.A.T.2    Ryan, P.D.3
  • 59
    • 43349108617 scopus 로고    scopus 로고
    • Hydrogen emission from nodulated soybeans [Glycine max (L.) Merr.] and consequences for the productivity of a subsequent maize (Zea mays L.) crop
    • Peoples MB, McLennan PD, Brockwell J (2008) Hydrogen emission from nodulated soybeans [Glycine max (L.) Merr.] and consequences for the productivity of a subsequent maize (Zea mays L.) crop. Plant and Soil 307: 67-82.
    • (2008) Plant and Soil , vol.307 , pp. 67-82
    • Peoples, M.B.1    McLennan, P.D.2    Brockwell, J.3
  • 61
    • 63849254954 scopus 로고    scopus 로고
    • Testing the functional significance of microbial community composition
    • Strickland MS, Lauber C, Fierer N, Bradford MA (2009) Testing the functional significance of microbial community composition. Ecology 90: 441-451.
    • (2009) Ecology , vol.90 , pp. 441-451
    • Strickland, M.S.1    Lauber, C.2    Fierer, N.3    Bradford, M.A.4
  • 62
    • 19944368795 scopus 로고    scopus 로고
    • Linking microbial community composition and soil processes in a California annual grassland and mixed-conifer forest
    • Balser TC, Firestone MK (2005) Linking microbial community composition and soil processes in a California annual grassland and mixed-conifer forest. Biogeochemistry 73: 395-415.
    • (2005) Biogeochemistry , vol.73 , pp. 395-415
    • Balser, T.C.1    Firestone, M.K.2
  • 66
    • 40549127742 scopus 로고    scopus 로고
    • Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile
    • Hansel CM, Fendorf S, Jardine PM, Francis CA (2008) Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile. Applied and Environmental Microbiology 74: 1620-1633.
    • (2008) Applied and Environmental Microbiology , vol.74 , pp. 1620-1633
    • Hansel, C.M.1    Fendorf, S.2    Jardine, P.M.3    Francis, C.A.4
  • 67
    • 49649087440 scopus 로고    scopus 로고
    • Simultaneous assessment of soil microbial community structure and function through analysis of the metatranscriptome
    • Urich T, Lanzen A, Qi J, Huson DH, Schleper C, et al. (2008) Simultaneous assessment of soil microbial community structure and function through analysis of the metatranscriptome. PLoS ONE 3: e2527.
    • (2008) PLoS ONE , vol.3
    • Urich, T.1    Lanzen, A.2    Qi, J.3    Huson, D.H.4    Schleper, C.5
  • 68
    • 1642267395 scopus 로고    scopus 로고
    • Comparison of crenarchaeal consortia inhabiting the rhizosphere of diverse terrestrial plants with those in bulk soil in native environments
    • Sliwinski MK, Goodman RM (2004) Comparison of crenarchaeal consortia inhabiting the rhizosphere of diverse terrestrial plants with those in bulk soil in native environments. Applied and Environmental Microbiology 70: 1821-1826.
    • (2004) Applied and Environmental Microbiology , vol.70 , pp. 1821-1826
    • Sliwinski, M.K.1    Goodman, R.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.