메뉴 건너뛰기




Volumn 9, Issue 8, 2015, Pages 1693-1699

Relationships between protein-encoding gene abundance and corresponding process are commonly assumed yet rarely observed

Author keywords

[No Author keywords available]

Indexed keywords

ABUNDANCE; CARBON CYCLE; CATALYSIS; ENZYME ACTIVITY; GENE EXPRESSION; GENOMICS; HABITAT TYPE; META-ANALYSIS; NITROGEN CYCLE; PROTEIN;

EID: 84937735251     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2014.252     Document Type: Review
Times cited : (248)

References (42)
  • 1
    • 77951492052 scopus 로고    scopus 로고
    • Teacher verbal ability and school outcomes: Where is the evidence?
    • Aloe AM, Becker BJ. (2009). Teacher verbal ability and school outcomes: where is the evidence? Educ Res 38: 612-624.
    • (2009) Educ Res , vol.38 , pp. 612-624
    • Aloe, A.M.1    Becker, B.J.2
  • 2
    • 0031687820 scopus 로고    scopus 로고
    • Development of PCR primer systems for amplification of nitrite reductase genes (nirK and nirS) to detect denitrifying bacteria in environmental samples
    • Braker G, Fesefeldt A, Witzel K. (1998). Development of PCR primer systems for amplification of nitrite reductase genes (nirK and nirS) to detect denitrifying bacteria in environmental samples. Appl Environ Microbiol 64: 3769-3775.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3769-3775
    • Braker, G.1    Fesefeldt, A.2    Witzel, K.3
  • 3
    • 0037978972 scopus 로고    scopus 로고
    • Nitric oxide reductase (norB) genes from pure cultures and environmental samples
    • Braker G, Tiedje JM. (2003). Nitric oxide reductase (norB) genes from pure cultures and environmental samples. Appl Environ Microbiol 69: 3476-3483.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 3476-3483
    • Braker, G.1    Tiedje, J.M.2
  • 4
    • 0038771927 scopus 로고    scopus 로고
    • Molecular characterization of dioxygenases from polycyclic aromatic hydrocarbon-degrading Mycobacterium spp.
    • Brezna B, Khan AA, Cerniglia CE. (2003). Molecular characterization of dioxygenases from polycyclic aromatic hydrocarbon-degrading Mycobacterium spp. FEMS Microbiol Lett 223: 177-183.
    • (2003) FEMS Microbiol Lett , vol.223 , pp. 177-183
    • Brezna, B.1    Khan, A.A.2    Cerniglia, C.E.3
  • 5
    • 0033764695 scopus 로고    scopus 로고
    • Life at the oxic-anoxic interface: Microbial activities and adaptations
    • Brune A, Frenzel P, Cypionka H. (2000). Life at the oxic-anoxic interface: microbial activities and adaptations. FEMS Microbiol Rev 24: 691-710.
    • (2000) FEMS Microbiol Rev , vol.24 , pp. 691-710
    • Brune, A.1    Frenzel, P.2    Cypionka, H.3
  • 7
    • 70449209123 scopus 로고
    • On protein synthesis
    • Crick F. (1958). On protein synthesis. Symp Soc Exp Biol 12: 138-163.
    • (1958) Symp Soc Exp Biol , vol.12 , pp. 138-163
    • Crick, F.1
  • 8
    • 63849208854 scopus 로고    scopus 로고
    • Diverse and novel nifH and nifH-like gene sequences in the deep-sea methane seep sediments of the okhotsk sea
    • Dang H, Luan X, Zhao J, Li J. (2009). Diverse and novel nifH and nifH-like gene sequences in the deep-sea methane seep sediments of the okhotsk sea. Appl Environ Microbiol 75: 2238-2245.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 2238-2245
    • Dang, H.1    Luan, X.2    Zhao, J.3    Li, J.4
  • 9
    • 84871826193 scopus 로고    scopus 로고
    • Cross-biome metagenomic analyses of soil microbial communities and their functional attributes
    • Fierer N, Leff JW, Adams BJ, Nielsen UN, Bates ST, Lauber CL et al. (2012). Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc Natl Acad Sci USA 109: 21390-21395.
    • (2012) Proc Natl Acad Sci USA , vol.109 , pp. 21390-21395
    • Fierer, N.1    Leff, J.W.2    Adams, B.J.3    Nielsen, U.N.4    Bates, S.T.5    Lauber, C.L.6
  • 11
    • 26844541457 scopus 로고    scopus 로고
    • Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean
    • Francis CA, Roberts KJ, Beman JM, Santoro AE, Oakley BB. (2005). Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean. Proc Natl Acad Sci USA 102: 14683-14688.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 14683-14688
    • Francis, C.A.1    Roberts, K.J.2    Beman, J.M.3    Santoro, A.E.4    Oakley, B.B.5
  • 12
    • 66149150877 scopus 로고    scopus 로고
    • Microbial community structure and its functional implications
    • Fuhrman JA. (2009). Microbial community structure and its functional implications. Nature 459: 193-199.
    • (2009) Nature , vol.459 , pp. 193-199
    • Fuhrman, J.A.1
  • 13
    • 0037259086 scopus 로고    scopus 로고
    • Characterization of a nitrate-respiring bacterial community using the nitrate reductase gene (narG) as a functional marker
    • Graham LG, Bond PL, Richardson DJ, Spiro S. (2003). Characterization of a nitrate-respiring bacterial community using the nitrate reductase gene (narG) as a functional marker. Microbiology 149: 229-237.
    • (2003) Microbiology , vol.149 , pp. 229-237
    • Graham, L.G.1    Bond, P.L.2    Richardson, D.J.3    Spiro, S.4
  • 14
    • 84886792999 scopus 로고    scopus 로고
    • Do we need to understand microbial communities to predict ecosystem function? A comparison of statistical models of nitrogen cycling processes
    • Graham EB, Wieder WR, Leff JW, Weintraub SR, Townsend AR, Cleveland CC et al. (2014). Do we need to understand microbial communities to predict ecosystem function? A comparison of statistical models of nitrogen cycling processes. Soil Biol Biochem 68: 279-282.
    • (2014) Soil Biol Biochem , vol.68 , pp. 279-282
    • Graham, E.B.1    Wieder, W.R.2    Leff, J.W.3    Weintraub, S.R.4    Townsend, A.R.5    Cleveland, C.C.6
  • 15
    • 34248159046 scopus 로고    scopus 로고
    • GeoChip: A comprehensive microarray for investigating biogeochemical, ecological and environmental processes
    • He Z, Gentry TJ, Schadt CW, Wu L, Liebich J, Chong SC et al. (2007). GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes. ISME J 1: 67-77.
    • (2007) ISME J , vol.1 , pp. 67-77
    • He, Z.1    Gentry, T.J.2    Schadt, C.W.3    Wu, L.4    Liebich, J.5    Chong, S.C.6
  • 16
    • 0036738269 scopus 로고    scopus 로고
    • Molecular phylogeny of type II methane-oxidizing bacteria isolated from various environments
    • Heyer J, Galchenko VF, Dunfield PF. (2002). Molecular phylogeny of type II methane-oxidizing bacteria isolated from various environments. Microbiology 148: 2831-2846.
    • (2002) Microbiology , vol.148 , pp. 2831-2846
    • Heyer, J.1    Galchenko, V.F.2    Dunfield, P.F.3
  • 17
    • 84885950513 scopus 로고    scopus 로고
    • Protein-encoding gene arraybased analysis of microbial communities in heavy metals-contaminated lake sediment
    • Kang S, Van Nostrand JD, Gough HL, He Z, Hazen TC, Stahl DA et al. (2013). Protein-encoding gene arraybased analysis of microbial communities in heavy metals-contaminated lake sediment. FEMS Microbiol Ecol 86: 200-214.
    • (2013) FEMS Microbiol Ecol , vol.86 , pp. 200-214
    • Kang, S.1    Van Nostrand, J.D.2    Gough, H.L.3    He, Z.4    Hazen, T.C.5    Stahl, D.A.6
  • 18
    • 0034788680 scopus 로고    scopus 로고
    • Denitrification within the genus Azospirillum and other associative bacteria
    • Kloos K, Mergel A, Rösch C, Bothe H. (2001). Denitrification within the genus Azospirillum and other associative bacteria. Funct Plant Biol 28: 991-998.
    • (2001) Funct Plant Biol , vol.28 , pp. 991-998
    • Kloos, K.1    Mergel, A.2    Rösch, C.3    Bothe, H.4
  • 22
    • 0036856362 scopus 로고    scopus 로고
    • The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill
    • Luton PE, Wayne JM, Sharp RJ, Riley PW. (2002). The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. Microbiology 148: 3521-3530.
    • (2002) Microbiology , vol.148 , pp. 3521-3530
    • Luton, P.E.1    Wayne, J.M.2    Sharp, R.J.3    Riley, P.W.4
  • 26
    • 34547900079 scopus 로고    scopus 로고
    • Effect size, confidence intervals and statistical significance: A practical guide for biologists
    • Nakagawa S, Cuthill IC. (2007). Effect size, confidence intervals and statistical significance: a practical guide for biologists. Biol Rev Camb Philos Soc 82: 591-605.
    • (2007) Biol Rev Camb Philos Soc , vol.82 , pp. 591-605
    • Nakagawa, S.1    Cuthill, I.C.2
  • 27
    • 52949107741 scopus 로고    scopus 로고
    • Transcription of nitrification genes by the methane-oxidizing bacterium, Methylococcus capsulatus strain Bath
    • Poret-Peterson AT, Graham JE, Gulledge J, Klotz MG. (2008). Transcription of nitrification genes by the methane-oxidizing bacterium, Methylococcus capsulatus strain Bath. ISME J 2: 1213-1220.
    • (2008) ISME J , vol.2 , pp. 1213-1220
    • Poret-Peterson, A.T.1    Graham, J.E.2    Gulledge, J.3    Klotz, M.G.4
  • 29
    • 0030814870 scopus 로고    scopus 로고
    • The ammonia monooxygenase structural gene amoA as a functional marker: Molecular fine-scale analysis of natural ammonia-oxidizing populations
    • Rotthauwe JH, Witzel KP, Liesack W. (1997). The ammonia monooxygenase structural gene amoA as a functional marker: molecular fine-scale analysis of natural ammonia-oxidizing populations. Appl Environ Microbiol 63: 4704-4712.
    • (1997) Appl Environ Microbiol , vol.63 , pp. 4704-4712
    • Rotthauwe, J.H.1    Witzel, K.P.2    Liesack, W.3
  • 30
    • 0000980499 scopus 로고
    • Ecosystem consequences of microbial diversity and community structure
    • Chapin FS, Korner C (eds) Springer-Verlag: Berlin, Germany
    • Schimel JP. (1995). Ecosystem consequences of microbial diversity and community structure. In: Chapin FS, Korner C (eds) Arctic and Alpine Biodiversity: Patterns, Causes, and Ecosystem Consequences. Springer-Verlag: Berlin, Germany, pp 239-254.
    • (1995) Arctic and Alpine Biodiversity: Patterns, Causes, and Ecosystem Consequences , pp. 239-254
    • Schimel, J.P.1
  • 31
    • 27744537545 scopus 로고    scopus 로고
    • Microbial community composition and soil N cycling: Is there really a connection?
    • Bardgett RD, Hopkins DW, Usher MB (eds) Cambridge University Press: Cambridge, UK
    • Schimel JP, Bennett J, Fierer N. (2005). Microbial community composition and soil N cycling: is there really a connection? In: Bardgett RD, Hopkins DW, Usher MB (eds) Biological Diversity and Function in Soils. Cambridge University Press: Cambridge, UK, pp 171-188.
    • (2005) Biological Diversity and Function in Soils , pp. 171-188
    • Schimel, J.P.1    Bennett, J.2    Fierer, N.3
  • 32
    • 79960711843 scopus 로고    scopus 로고
    • Effect of nitrate and glucose addition on denitrification and nitric oxide reductase (cnorB) gene abundance and mRNA levels in Pseudomonas mandelii inoculated into anoxic soil
    • Shannon EM, Saleh-Lakha S, Burton DL, Zebarth BJ, Goyer C, Trevors JT. (2011). Effect of nitrate and glucose addition on denitrification and nitric oxide reductase (cnorB) gene abundance and mRNA levels in Pseudomonas mandelii inoculated into anoxic soil. Antonie Van Leeuwenhoek 100: 183-195.
    • (2011) Antonie Van Leeuwenhoek , vol.100 , pp. 183-195
    • Shannon, E.M.1    Saleh-Lakha, S.2    Burton, D.L.3    Zebarth, B.J.4    Goyer, C.5    Trevors, J.T.6
  • 33
    • 0023191349 scopus 로고
    • Analysis, cloning, and high-level expression of 2,4-dichlorophenoxyacetate monooxygenase gene tfdA of Alcaligenes eutrophus JMP134
    • Streber WR, Timmis KN, Zenk MH. (1987). Analysis, cloning, and high-level expression of 2,4-dichlorophenoxyacetate monooxygenase gene tfdA of Alcaligenes eutrophus JMP134. J Bacteriol 169: 2950-2955.
    • (1987) J Bacteriol , vol.169 , pp. 2950-2955
    • Streber, W.R.1    Timmis, K.N.2    Zenk, M.H.3
  • 35
    • 0037316061 scopus 로고    scopus 로고
    • Oligonucleotide microarray for the study of functional gene diversity in the nitrogen cycle in the environment
    • Taroncher-Oldenburg G, Griner EM, Francis CA, Ward BB. (2003). Oligonucleotide microarray for the study of functional gene diversity in the nitrogen cycle in the environment. Appl Environ Microbiol 69: 1159-1171.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 1159-1171
    • Taroncher-Oldenburg, G.1    Griner, E.M.2    Francis, C.A.3    Ward, B.B.4
  • 36
    • 1542377296 scopus 로고    scopus 로고
    • Community structure and metabolism through reconstruction of microbial genomes from the environment
    • Tyson GW, Chapman J, Hugenholtz P, Allen EE, Ram RJ, Richardson PM et al. (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
  • 38
    • 77958110812 scopus 로고    scopus 로고
    • Conducting a meta-analysis in R with the metafor package
    • Viechtbauer W. (2010). Conducting a meta-analysis in R with the metafor package. J Stat Softw 36: 1-48.
    • (2010) J Stat Softw , vol.36 , pp. 1-48
    • Viechtbauer, W.1
  • 39
    • 0033814304 scopus 로고    scopus 로고
    • The nrfA and nirB nitrite reductase operons in Escherichia coli are expressed differently in response to nitrate than to nitrite
    • Wang H, Gunsalus RP. (2000). The nrfA and nirB nitrite reductase operons in Escherichia coli are expressed differently in response to nitrate than to nitrite. J Bacteriol 182: 5813-5822.
    • (2000) J Bacteriol , vol.182 , pp. 5813-5822
    • Wang, H.1    Gunsalus, R.P.2
  • 40
    • 84884676102 scopus 로고    scopus 로고
    • Metagenomic insights into strategies of carbon conservation and unusual sulfur biogeochemistry in a hypersaline Antarctic lake
    • Yau S, Lauro FM, Williams TJ, DeMaere MZ, Brown MV, Rich J et al. (2013). Metagenomic insights into strategies of carbon conservation and unusual sulfur biogeochemistry in a hypersaline Antarctic lake. ISME J 7: 1944-1961.
    • (2013) ISME J , vol.7 , pp. 1944-1961
    • Yau, S.1    Lauro, F.M.2    Williams, T.J.3    DeMaere, M.Z.4    Brown, M.V.5    Rich, J.6
  • 41
    • 0021714673 scopus 로고
    • Structural genes of dinitrogenase and dinitrogenase reductase are transcribed from two separate promoters in the broad host range cowpea Rhizobium strain Irc78
    • Yun AC, Szalay AA. (1984). Structural genes of dinitrogenase and dinitrogenase reductase are transcribed from two separate promoters in the broad host range cowpea Rhizobium strain Irc78. Proc Natl Acad Sci USA 81: 7358-7362.
    • (1984) Proc Natl Acad Sci USA , vol.81 , pp. 7358-7362
    • Yun, A.C.1    Szalay, A.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.