메뉴 건너뛰기




Volumn 23, Issue 24, 2014, Pages 6073-6090

Key roles for freshwater Actinobacteria revealed by deep metagenomic sequencing

Author keywords

Actinobacteria; Cyanobacteria; freshwater reservoir; lignin degradation; metagenomics; rhodopsins

Indexed keywords

ACIDIMICROBIALES; ACTINOBACTERIA; ACTINOMYCETALES; CYANOBACTERIA; MICROCOCCINEAE; PROKARYOTA;

EID: 84919740760     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.12985     Document Type: Article
Times cited : (152)

References (103)
  • 1
    • 0023410628 scopus 로고
    • Mixed fungal populations and lignocellulosic tissue degradation in the bovine rumen
    • Akin D, Rigsby L, (1987) Mixed fungal populations and lignocellulosic tissue degradation in the bovine rumen. Applied and Environmental Microbiology, 53, 1987-1995.
    • (1987) Applied and Environmental Microbiology , vol.53 , pp. 1987-1995
    • Akin, D.1    Rigsby, L.2
  • 2
    • 84879678051 scopus 로고    scopus 로고
    • Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
    • Albertsen M, Hugenholtz P, Skarshewski A, et al,. (2013) Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nature Biotechnology, 31, 533-538.
    • (2013) Nature Biotechnology , vol.31 , pp. 533-538
    • Albertsen, M.1    Hugenholtz, P.2    Skarshewski, A.3
  • 3
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul SF, Madden TL, Schaffer AA, et al,. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, 25, 3389-3402.
    • (1997) Nucleic Acids Research , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3
  • 4
    • 0001925363 scopus 로고
    • Sulfonate S: A major form of forest soil organic sulfur
    • Autry A, Fitzgerald J, (1990) Sulfonate S: a major form of forest soil organic sulfur. Biology and Fertility of Soils, 10, 50-56.
    • (1990) Biology and Fertility of Soils , vol.10 , pp. 50-56
    • Autry, A.1    Fitzgerald, J.2
  • 5
    • 0031688318 scopus 로고    scopus 로고
    • Status of global reservoirs: The position in the late twentieth century
    • Avakyan A, Iakovleva V, (1998) Status of global reservoirs: the position in the late twentieth century. Lakes & Reservoirs: Research & Management, 3, 45-52.
    • (1998) Lakes & Reservoirs: Research & Management , vol.3 , pp. 45-52
    • Avakyan, A.1    Iakovleva, V.2
  • 6
    • 40549120596 scopus 로고    scopus 로고
    • The RAST Server: Rapid annotations using subsystems technology
    • Aziz RK, Bartels D, Best AA, et al,. (2008) The RAST Server: rapid annotations using subsystems technology. BMC Genomics, 9, 75.
    • (2008) BMC Genomics , vol.9 , pp. 75
    • Aziz, R.K.1    Bartels, D.2    Best, A.A.3
  • 7
    • 77149125919 scopus 로고    scopus 로고
    • Efficient aquatic bacterial metabolism of dissolved low-molecular-weight compounds from terrestrial sources
    • Berggren M, Laudon H, Haei M, Ström L, Jansson M, (2010) Efficient aquatic bacterial metabolism of dissolved low-molecular-weight compounds from terrestrial sources. The ISME Journal, 4, 408-416.
    • (2010) The ISME Journal , vol.4 , pp. 408-416
    • Berggren, M.1    Laudon, H.2    Haei, M.3    Ström, L.4    Jansson, M.5
  • 10
    • 0035397372 scopus 로고    scopus 로고
    • Using light scatter signal to estimate bacterial biovolume by flow cytometry
    • Bouvier T, Troussellier M, Anzil A, Courties C, Servais P, (2001) Using light scatter signal to estimate bacterial biovolume by flow cytometry. Cytometry, 44, 188-194.
    • (2001) Cytometry , vol.44 , pp. 188-194
    • Bouvier, T.1    Troussellier, M.2    Anzil, A.3    Courties, C.4    Servais, P.5
  • 11
    • 0034607410 scopus 로고    scopus 로고
    • Herbicides and herbicide degradates in shallow groundwater and the Cedar River near a municipal well field, Cedar Rapids, Iowa
    • Boyd R, (2000) Herbicides and herbicide degradates in shallow groundwater and the Cedar River near a municipal well field, Cedar Rapids, Iowa. Science of the Total Environment, 248, 241-253.
    • (2000) Science of the Total Environment , vol.248 , pp. 241-253
    • Boyd, R.1
  • 13
    • 84894028767 scopus 로고    scopus 로고
    • Symbiotic digestion of lignocellulose in termite guts
    • Brune A, (2014) Symbiotic digestion of lignocellulose in termite guts. Nature Reviews Microbiology, 12, 168-180.
    • (2014) Nature Reviews Microbiology , vol.12 , pp. 168-180
    • Brune, A.1
  • 14
    • 0033754309 scopus 로고    scopus 로고
    • Key aromatic-ring-cleaving enzyme, protocatechuate 3, 4-dioxygenase, in the ecologically important marineRoseobacter lineage
    • Buchan A, Collier LS, Neidle EL, Moran MA, (2000) Key aromatic-ring-cleaving enzyme, protocatechuate 3, 4-dioxygenase, in the ecologically important marineRoseobacter lineage. Applied and Environmental Microbiology, 66, 4662-4672.
    • (2000) Applied and Environmental Microbiology , vol.66 , pp. 4662-4672
    • Buchan, A.1    Collier, L.S.2    Neidle, E.L.3    Moran, M.A.4
  • 16
    • 0025458892 scopus 로고
    • Atrazine and other s-triazine herbicides in lakes and in rain in Switzerland
    • Buser H-R, (1990) Atrazine and other s-triazine herbicides in lakes and in rain in Switzerland. Environmental Science & Technology, 24, 1049-1058.
    • (1990) Environmental Science & Technology , vol.24 , pp. 1049-1058
    • Buser, H.-R.1
  • 18
    • 67650757433 scopus 로고    scopus 로고
    • TrimAl: A tool for automated alignment trimming in large-scale phylogenetic analyses
    • Capella-Gutiérrez S, Silla-Martínez JM, Gabaldón T, (2009) trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics, 25, 1972-1973.
    • (2009) Bioinformatics , vol.25 , pp. 1972-1973
    • Capella-Gutiérrez, S.1    Silla-Martínez, J.M.2    Gabaldón, T.3
  • 19
    • 58149200948 scopus 로고    scopus 로고
    • The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis
    • Cole JR, Wang Q, Cardenas E, 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 , pp. D141-D145
    • Cole, J.R.1    Wang, Q.2    Cardenas, E.3
  • 20
    • 7344234302 scopus 로고    scopus 로고
    • Summer phytoplankton assemblages across trophic gradients in hard-water reservoirs
    • Dasi MJ, Miracle MA, Camacho A, Soria JM, Vicente E, (1998) Summer phytoplankton assemblages across trophic gradients in hard-water reservoirs. Hydrobiologia, 369/370, 27-43.
    • (1998) Hydrobiologia , vol.369-370 , pp. 27-43
    • Dasi, M.J.1    Miracle, M.A.2    Camacho, A.3    Soria, J.M.4    Vicente, E.5
  • 21
    • 7344234302 scopus 로고    scopus 로고
    • Summer phytoplankton assemblages across trophic gradients in hard-water reservoirs
    • Springer, Belgium
    • Dasí M, Miracle M, Camacho A, Soria J, Vicente E, (1998) Summer phytoplankton assemblages across trophic gradients in hard-water reservoirs. In: Phytoplankton and Trophic Gradients, pp. 27-43. Springer, Belgium.
    • (1998) Phytoplankton and Trophic Gradients , pp. 27-43
    • Dasí, M.1    Miracle, M.2    Camacho, A.3    Soria, J.4    Vicente, E.5
  • 23
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • Edgar RC, (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32, 1792-1797.
    • (2004) Nucleic Acids Research , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 24
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar RC, (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
  • 25
    • 84906944762 scopus 로고    scopus 로고
    • Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics
    • Eiler A, Zaremba-Niedzwiedzka K, Martínez-García M, et al,. (2013) Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics. Environmental Microbiology, 16, 2682-2698.
    • (2013) Environmental Microbiology , vol.16 , pp. 2682-2698
    • Eiler, A.1    Zaremba-Niedzwiedzka, K.2    Martínez-García, M.3
  • 26
    • 0017490201 scopus 로고
    • Chromatographic investigation of inositol phosphate esters in lake waters
    • Eisenreich SJ, Armstrong DE, (1977) Chromatographic investigation of inositol phosphate esters in lake waters. Environmental Science & Technology, 11, 497-501.
    • (1977) Environmental Science & Technology , vol.11 , pp. 497-501
    • Eisenreich, S.J.1    Armstrong, D.E.2
  • 27
    • 0035209925 scopus 로고    scopus 로고
    • Alkanesulfonate degradation by novel strains of Achromobacter xylosoxidans, Tsukamurella wratislaviensis and Rhodococcus sp., and evidence for an ethanesulfonate monooxygenase in A. Xylosoxidans strain AE4
    • Erdlenbruch BN, Kelly DP, Murrell CJ, (2001) Alkanesulfonate degradation by novel strains of Achromobacter xylosoxidans, Tsukamurella wratislaviensis and Rhodococcus sp., and evidence for an ethanesulfonate monooxygenase in A. xylosoxidans strain AE4. Archives of Microbiology, 176, 406-414.
    • (2001) Archives of Microbiology , vol.176 , pp. 406-414
    • Erdlenbruch, B.N.1    Kelly, D.P.2    Murrell, C.J.3
  • 28
    • 34247261436 scopus 로고    scopus 로고
    • Changes in cyanobacterial dominance following the invasion of the zebra musselDreissena polymorpha: Long-term results from the Hudson River estuary
    • Fernald SH, Caraco NF, Cole JJ, (2007) Changes in cyanobacterial dominance following the invasion of the zebra musselDreissena polymorpha: long-term results from the Hudson River estuary. Estuaries and Coasts, 30, 163-170.
    • (2007) Estuaries and Coasts , vol.30 , pp. 163-170
    • Fernald, S.H.1    Caraco, N.F.2    Cole, J.J.3
  • 29
    • 0027508335 scopus 로고
    • Cloning, sequencing, and expression of the Pseudomonas putida protocatechuate 3, 4-dioxygenase genes
    • Frazee RW, Livingston D, LaPorte D, Lipscomb J, (1993) Cloning, sequencing, and expression of the Pseudomonas putida protocatechuate 3, 4-dioxygenase genes. Journal of Bacteriology, 175, 6194-6202.
    • (1993) Journal of Bacteriology , vol.175 , pp. 6194-6202
    • Frazee, R.W.1    Livingston, D.2    Laporte, D.3    Lipscomb, J.4
  • 30
  • 31
    • 84871359129 scopus 로고    scopus 로고
    • Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton
    • Garcia SL, McMahon KD, Martinez-Garcia M, et al,. (2012) Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton. The ISME Journal, 7, 137-147.
    • (2012) The ISME Journal , vol.7 , pp. 137-147
    • Garcia, S.L.1    McMahon, K.D.2    Martinez-Garcia, M.3
  • 33
    • 77956095592 scopus 로고    scopus 로고
    • Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing
    • Ghai R, Martin-Cuadrado A-B, Molto AG, et al,. (2010) Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing. The ISME Journal, 4, 1154-1166.
    • (2010) The ISME Journal , vol.4 , pp. 1154-1166
    • Ghai, R.1    Martin-Cuadrado, A.-B.2    Molto, A.G.3
  • 34
    • 84883703281 scopus 로고    scopus 로고
    • New abundant microbial groups in aquatic hypersaline environments
    • Ghai R, Pasic L, Fernandez AB, et al,. (2011a) New abundant microbial groups in aquatic hypersaline environments. Scientific Reports, 1, 135.
    • (2011) Scientific Reports , vol.1 , pp. 135
    • Ghai, R.1    Pasic, L.2    Fernandez, A.B.3
  • 35
    • 80051840169 scopus 로고    scopus 로고
    • Metagenomics of the water column in the pristine upper course of the Amazon river
    • Ghai R, Rodriguez-Valera F, McMahon KD, et al,. (2011b) Metagenomics of the water column in the pristine upper course of the Amazon river. PLoS One, 6, e23785.
    • (2011) PLoS One , vol.6 , pp. e23785
    • Ghai, R.1    Rodriguez-Valera, F.2    McMahon, K.D.3
  • 36
  • 37
    • 84856742115 scopus 로고    scopus 로고
    • Breaking a paradigm: Cosmopolitan and abundant freshwater actinobacteria are low GC
    • Ghai R, McMahon KD, Rodriguez-Valera F, (2012b) Breaking a paradigm: cosmopolitan and abundant freshwater actinobacteria are low GC. Environmental Microbiology Reports, 4, 29-35.
    • (2012) Environmental Microbiology Reports , vol.4 , pp. 29-35
    • Ghai, R.1    McMahon, K.D.2    Rodriguez-Valera, F.3
  • 39
    • 84926228825 scopus 로고    scopus 로고
    • Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage
    • Ghylin TW, Garcia SL, Moya F, et al,. (2014) Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage. The ISME Journal, doi: 10.1038/ismej.2014.135.
    • (2014) The ISME Journal
    • Ghylin, T.W.1    Garcia, S.L.2    Moya, F.3
  • 40
    • 0033754255 scopus 로고    scopus 로고
    • Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria
    • Glockner FO, Zaichikov E, Belkova N, et al,. (2000) Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria. Applied and Environment Microbiology, 66, 5053-5065.
    • (2000) Applied and Environment Microbiology , vol.66 , pp. 5053-5065
    • Glockner, F.O.1    Zaichikov, E.2    Belkova, N.3
  • 42
    • 84881108901 scopus 로고    scopus 로고
    • Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria
    • Gushchin I, Chervakov P, Kuzmichev P, et al,. (2013) Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria. Proceedings of the National Academy of Sciences, 110, 12631-12636.
    • (2013) Proceedings of the National Academy of Sciences , vol.110 , pp. 12631-12636
    • Gushchin, I.1    Chervakov, P.2    Kuzmichev, P.3
  • 43
    • 0035175673 scopus 로고    scopus 로고
    • TIGRFAMs: A protein family resource for the functional identification of proteins
    • Haft DH, Loftus BJ, Richardson DL, et al,. (2001) TIGRFAMs: a protein family resource for the functional identification of proteins. Nucleic Acids Research, 29, 41-43.
    • (2001) Nucleic Acids Research , vol.29 , pp. 41-43
    • Haft, D.H.1    Loftus, B.J.2    Richardson, D.L.3
  • 44
    • 0141816854 scopus 로고    scopus 로고
    • Isolation of strains belonging to the cosmopolitan Polynucleobacter necessarius cluster from freshwater habitats located in three climatic zones
    • Hahn MW, (2003) Isolation of strains belonging to the cosmopolitan Polynucleobacter necessarius cluster from freshwater habitats located in three climatic zones. Applied and Environment Microbiology, 69, 5248-5254.
    • (2003) Applied and Environment Microbiology , vol.69 , pp. 5248-5254
    • Hahn, M.W.1
  • 45
    • 60549112907 scopus 로고    scopus 로고
    • Description of seven candidate species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria
    • Hahn MW, (2009) Description of seven candidate species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria. International Journal of Systematic and Evolutionary Microbiology, 59, 112-117.
    • (2009) International Journal of Systematic and Evolutionary Microbiology , vol.59 , pp. 112-117
    • Hahn, M.W.1
  • 46
    • 0345269205 scopus 로고    scopus 로고
    • Isolation of novel ultramicrobacteria classified as actinobacteria from five freshwater habitats in Europe and Asia
    • Hahn MW, Lunsdorf H, Wu Q, et al,. (2003) Isolation of novel ultramicrobacteria classified as actinobacteria from five freshwater habitats in Europe and Asia. Applied and Environment Microbiology, 69, 1442-1451.
    • (2003) Applied and Environment Microbiology , vol.69 , pp. 1442-1451
    • Hahn, M.W.1    Lunsdorf, H.2    Wu, Q.3
  • 47
    • 2342608928 scopus 로고    scopus 로고
    • The filtration-acclimatization method for isolation of an important fraction of the not readily cultivable bacteria
    • Hahn MW, Stadler P, Wu QL, Pöckl M, (2004) The filtration-acclimatization method for isolation of an important fraction of the not readily cultivable bacteria. Journal of Microbiological Methods, 57, 379-390.
    • (2004) Journal of Microbiological Methods , vol.57 , pp. 379-390
    • Hahn, M.W.1    Stadler, P.2    Wu, Q.L.3    Pöckl, M.4
  • 49
    • 0035498333 scopus 로고    scopus 로고
    • Oxidative mechanisms involved in lignin degradation by white-rot fungi
    • ten Have R, Teunissen PJ, (2001) Oxidative mechanisms involved in lignin degradation by white-rot fungi. Chemical Reviews, 101, 3397-3414.
    • (2001) Chemical Reviews , vol.101 , pp. 3397-3414
    • Ten Have, R.1    Teunissen, P.J.2
  • 50
    • 65549160988 scopus 로고    scopus 로고
    • Identification of ribosomal RNA genes in metagenomic fragments
    • Huang Y, Gilna P, Li W, (2009) Identification of ribosomal RNA genes in metagenomic fragments. Bioinformatics, 25, 1338-1340.
    • (2009) Bioinformatics , vol.25 , pp. 1338-1340
    • Huang, Y.1    Gilna, P.2    Li, W.3
  • 51
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: Prokaryotic gene recognition and translation initiation site identification
    • Hyatt D, Chen GL, LoCascio PF, et al,. (2010) Prodigal: Prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics, 11, 119.
    • (2010) BMC Bioinformatics , vol.11 , pp. 119
    • Hyatt, D.1    Chen, G.L.2    Locascio, P.F.3
  • 53
    • 38949204866 scopus 로고    scopus 로고
    • Summer heatwaves promote blooms of harmful cyanobacteria
    • Johnk KD, Huisman JEF, Sharples J, et al,. (2008) Summer heatwaves promote blooms of harmful cyanobacteria. Global Change Biology, 14, 495-512.
    • (2008) Global Change Biology , vol.14 , pp. 495-512
    • Johnk, K.D.1    Huisman, J.E.F.2    Sharples, J.3
  • 54
    • 84863997021 scopus 로고    scopus 로고
    • Genome sequence of "candidatus Aquiluna" sp. Strain IMCC13023, a marine member of the actinobacteria isolated from an arctic fjord
    • Kang I, Lee K, Yang S-J, et al,. (2012) Genome sequence of "Candidatus Aquiluna" sp. strain IMCC13023, a marine member of the actinobacteria isolated from an arctic fjord. Journal of Bacteriology, 194, 3550-3551.
    • (2012) Journal of Bacteriology , vol.194 , pp. 3550-3551
    • Kang, I.1    Lee, K.2    Yang, S.-J.3
  • 55
    • 0242712756 scopus 로고    scopus 로고
    • The influence of weather conditions (temperature and wind) on cyanobacterial bloom development in the Gulf of Finland (Baltic Sea)
    • Kanoshina I, Lips U, Leppänen J-M, (2003) The influence of weather conditions (temperature and wind) on cyanobacterial bloom development in the Gulf of Finland (Baltic Sea). Harmful Algae, 2, 29-41.
    • (2003) Harmful Algae , vol.2 , pp. 29-41
    • Kanoshina, I.1    Lips, U.2    Leppänen, J.-M.3
  • 56
    • 84867698819 scopus 로고    scopus 로고
    • Deciphering the genome of polyphosphate accumulating actinobacterium Microlunatus phosphovorus
    • Kawakoshi A, Nakazawa H, Fukada J, et al,. (2012) Deciphering the genome of polyphosphate accumulating actinobacterium Microlunatus phosphovorus. DNA Research, 19, 383-394.
    • (2012) DNA Research , vol.19 , pp. 383-394
    • Kawakoshi, A.1    Nakazawa, H.2    Fukada, J.3
  • 57
    • 0032743912 scopus 로고    scopus 로고
    • Microbial metabolism of methanesulfonic acid
    • Kelly DP, Murrell JC, (1999) Microbial metabolism of methanesulfonic acid. Archives of Microbiology, 172, 341-348.
    • (1999) Archives of Microbiology , vol.172 , pp. 341-348
    • Kelly, D.P.1    Murrell, J.C.2
  • 58
    • 33846476676 scopus 로고    scopus 로고
    • Distribution, diversity and ecology of aerobic CO-oxidizing bacteria
    • King GM, Weber CF, (2007) Distribution, diversity and ecology of aerobic CO-oxidizing bacteria. Nature Reviews Microbiology, 5, 107-118.
    • (2007) Nature Reviews Microbiology , vol.5 , pp. 107-118
    • King, G.M.1    Weber, C.F.2
  • 59
    • 29244447181 scopus 로고    scopus 로고
    • Kalign-an accurate and fast multiple sequence alignment algorithm
    • Lassmann T, Sonnhammer EL, (2005) Kalign-an accurate and fast multiple sequence alignment algorithm. BMC Bioinformatics, 6, 298.
    • (2005) BMC Bioinformatics , vol.6 , pp. 298
    • Lassmann, T.1    Sonnhammer, E.L.2
  • 63
    • 0030854739 scopus 로고    scopus 로고
    • TRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • Lowe TM, Eddy SR, (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Research, 25, 0955-0964.
    • (1997) Nucleic Acids Research , vol.25 , pp. 0955-0964
    • Lowe, T.M.1    Eddy, S.R.2
  • 64
    • 0002028306 scopus 로고
    • Enumeration of phototrophic picoplankton by autofluorescence microscopy
    • Lewis Publishers, Boca Raton, Florida
    • MacIsaac E, Stockner JG, (1993) Enumeration of phototrophic picoplankton by autofluorescence microscopy. In: Handbook of Methods in Aquatic Microbial Ecology, pp. 187-197. Lewis Publishers, Boca Raton, Florida.
    • (1993) Handbook of Methods in Aquatic Microbial Ecology , pp. 187-197
    • MacIsaac, E.1    Stockner, J.G.2
  • 65
    • 0030620443 scopus 로고    scopus 로고
    • Enumeration and cell cycle analysis of natural populations of marine picoplankton by flow cytometry using the nucleic acid stain SYBR Green i
    • Marie D, Partensky F, Jacquet S, Vaulot D, (1997) Enumeration and cell cycle analysis of natural populations of marine picoplankton by flow cytometry using the nucleic acid stain SYBR Green I. Applied and Environmental Microbiology, 63, 186-193.
    • (1997) Applied and Environmental Microbiology , vol.63 , pp. 186-193
    • Marie, D.1    Partensky, F.2    Jacquet, S.3    Vaulot, D.4
  • 67
    • 84862179493 scopus 로고    scopus 로고
    • New insights into Escherichia coli metabolism: Carbon scavenging, acetate metabolism and carbon recycling responses during growth on glycerol
    • Martínez-Gómez K, Flores N, Castañeda HM, et al,. (2012) New insights into Escherichia coli metabolism: carbon scavenging, acetate metabolism and carbon recycling responses during growth on glycerol. Microbial Cell Factories, 11, 46.
    • (2012) Microbial Cell Factories , vol.11 , pp. 46
    • Martínez-Gómez, K.1    Flores, N.2    Castañeda, H.M.3
  • 68
    • 67749133866 scopus 로고    scopus 로고
    • Ilumatobacter fluminis gen. Nov., sp. Nov., a novel actinobacterium isolated from the sediment of an estuary
    • Matsumoto A, Kasai H, Matsuo Y, et al,. (2009) Ilumatobacter fluminis gen. nov., sp. nov., a novel actinobacterium isolated from the sediment of an estuary. The Journal of General and Applied Microbiology, 55, 201-205.
    • (2009) The Journal of General and Applied Microbiology , vol.55 , pp. 201-205
    • Matsumoto, A.1    Kasai, H.2    Matsuo, Y.3
  • 69
    • 19944408938 scopus 로고    scopus 로고
    • Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment
    • Moran MA, Buchan A, Gonzalez JM, et al,. (2004) Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment. Nature, 432, 910-913.
    • (2004) Nature , vol.432 , pp. 910-913
    • Moran, M.A.1    Buchan, A.2    Gonzalez, J.M.3
  • 70
    • 39649103644 scopus 로고    scopus 로고
    • Fermentative utilization of glycerol by Escherichia coli and its implications for the production of fuels and chemicals
    • Murarka A, Dharmadi Y, Yazdani SS, Gonzalez R, (2008) Fermentative utilization of glycerol by Escherichia coli and its implications for the production of fuels and chemicals. Applied and Environmental Microbiology, 74, 1124-1135.
    • (2008) Applied and Environmental Microbiology , vol.74 , pp. 1124-1135
    • Murarka, A.1    Dharmadi, Y.2    Yazdani, S.S.3    Gonzalez, R.4
  • 75
    • 0025271597 scopus 로고
    • Molecular cloning of the protocatechuate 4, 5-dioxygenase genes of Pseudomonas paucimobilis
    • Noda Y, Nishikawa S, Shiozuka K, et al,. (1990) Molecular cloning of the protocatechuate 4, 5-dioxygenase genes of Pseudomonas paucimobilis. Journal of Bacteriology, 172, 2704-2709.
    • (1990) Journal of Bacteriology , vol.172 , pp. 2704-2709
    • Noda, Y.1    Nishikawa, S.2    Shiozuka, K.3
  • 76
    • 80052753042 scopus 로고    scopus 로고
    • Metagenomic insights into the evolution, function, and complexity of the planktonic microbial community of Lake Lanier, a temperate freshwater ecosystem
    • Oh S, Caro-Quintero A, Tsementzi D, et al,. (2011) Metagenomic insights into the evolution, function, and complexity of the planktonic microbial community of Lake Lanier, a temperate freshwater ecosystem. Applied and Environment Microbiology, 77, 6000-6011.
    • (2011) Applied and Environment Microbiology , vol.77 , pp. 6000-6011
    • Oh, S.1    Caro-Quintero, A.2    Tsementzi, D.3
  • 77
    • 70350203617 scopus 로고    scopus 로고
    • Climate change: A catalyst for global expansion of harmful cyanobacterial blooms
    • Paerl HW, Huisman J, (2009) Climate change: a catalyst for global expansion of harmful cyanobacterial blooms. Environmental Microbiology Reports, 1, 27-37.
    • (2009) Environmental Microbiology Reports , vol.1 , pp. 27-37
    • Paerl, H.W.1    Huisman, J.2
  • 78
    • 84861760530 scopus 로고    scopus 로고
    • IDBA-UD: A de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
    • Peng Y, Leung HC, Yiu S-M, Chin FY, (2012) IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics, 28, 1420-1428.
    • (2012) Bioinformatics , vol.28 , pp. 1420-1428
    • Peng, Y.1    Leung, H.C.2    Yiu, S.-M.3    Chin, F.Y.4
  • 79
    • 84929883783 scopus 로고    scopus 로고
    • Freshwater microbial communities
    • Springer, Heidelberg
    • Pernthaler J, (2013) Freshwater microbial communities. In: The Prokaryotes, pp. 97-112. Springer, Heidelberg.
    • (2013) The Prokaryotes , pp. 97-112
    • Pernthaler, J.1
  • 80
    • 84880229514 scopus 로고    scopus 로고
    • Spectrophotometric methods for the determination of photosynthetic pigments in stratified lakes: A critical analysis based on comparisons with HPLC determinations in a model lake
    • Picazo A, Rochera C, Vicente E, Miracle MR, Camacho A, (2013) Spectrophotometric methods for the determination of photosynthetic pigments in stratified lakes: a critical analysis based on comparisons with HPLC determinations in a model lake. Limnetica, 32, 139-158.
    • (2013) Limnetica , vol.32 , pp. 139-158
    • Picazo, A.1    Rochera, C.2    Vicente, E.3    Miracle, M.R.4    Camacho, A.5
  • 81
    • 84986870589 scopus 로고
    • The use of DAPI for identifying and counting aquatic microflora
    • Porter K, Feig YS, (1980) The use of DAPI for identifying and counting aquatic microflora. Limnology and Oceanography, 25, 943-948.
    • (1980) Limnology and Oceanography , vol.25 , pp. 943-948
    • Porter, K.1    Feig, Y.S.2
  • 82
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2-approximately maximum-likelihood trees for large alignments
    • Price MN, Dehal PS, Arkin AP, (2010) FastTree 2-approximately maximum-likelihood trees for large alignments. PLoS One, 5, e9490.
    • (2010) PLoS One , vol.5 , pp. e9490
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 83
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • Rice P, Longden I, Bleasby A, (2000) EMBOSS: the European molecular biology open software suite. Trends in Genetics, 16, 276-277.
    • (2000) Trends in Genetics , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 84
    • 84881138595 scopus 로고    scopus 로고
    • Insights into the phylogeny and coding potential of microbial dark matter
    • Rinke C, Schwientek P, Sczyrba A, et al,. (2013) Insights into the phylogeny and coding potential of microbial dark matter. Nature, 499, 431-437.
    • (2013) Nature , vol.499 , pp. 431-437
    • Rinke, C.1    Schwientek, P.2    Sczyrba, A.3
  • 85
    • 0033990048 scopus 로고    scopus 로고
    • Primer3 on the WWW for general users and for biologist programmers
    • Rozen S, Skaletsky H, (2000) Primer3 on the WWW for general users and for biologist programmers. Methods in Molecular Biology, 132, 365-386.
    • (2000) Methods in Molecular Biology , vol.132 , pp. 365-386
    • Rozen, S.1    Skaletsky, H.2
  • 86
    • 33947238287 scopus 로고    scopus 로고
    • The Sorcerer II Global Ocean Sampling expedition: Northwest Atlantic through eastern tropical Pacific
    • Rusch DB, Halpern AL, Sutton G, et al,. (2007) The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biology, 5, e77.
    • (2007) PLoS Biology , vol.5 , pp. e77
    • Rusch, D.B.1    Halpern, A.L.2    Sutton, G.3
  • 87
    • 58249085751 scopus 로고    scopus 로고
    • Lignocellulosic residues: Biodegradation and bioconversion by fungi
    • Sánchez C, (2009) Lignocellulosic residues: Biodegradation and bioconversion by fungi. Biotechnology Advances, 27, 185-194.
    • (2009) Biotechnology Advances , vol.27 , pp. 185-194
    • Sánchez, C.1
  • 88
    • 0037882329 scopus 로고    scopus 로고
    • An improved protocol for quantification of freshwater Actinobacteria by fluorescence in situ hybridization
    • Sekar R, Pernthaler A, Pernthaler J, et al,. (2003) An improved protocol for quantification of freshwater Actinobacteria by fluorescence in situ hybridization. Applied and Environmental Microbiology, 69, 2928-2935.
    • (2003) Applied and Environmental Microbiology , vol.69 , pp. 2928-2935
    • Sekar, R.1    Pernthaler, A.2    Pernthaler, J.3
  • 89
    • 33749557420 scopus 로고    scopus 로고
    • Microbial rhodopsins: Functional versatility and genetic mobility
    • Sharma AK, Spudich JL, Doolittle WF, (2006) Microbial rhodopsins: functional versatility and genetic mobility. Trends in Microbiology, 14, 463-469.
    • (2006) Trends in Microbiology , vol.14 , pp. 463-469
    • Sharma, A.K.1    Spudich, J.L.2    Doolittle, W.F.3
  • 90
    • 40949103188 scopus 로고    scopus 로고
    • Actinorhodopsins: Proteorhodopsin-like gene sequences found predominantly in non-marine environments
    • Sharma AK, Zhaxybayeva O, Papke RT, Doolittle WF, (2008) Actinorhodopsins: Proteorhodopsin-like gene sequences found predominantly in non-marine environments. Environmental Microbiology, 10, 1039-1056.
    • (2008) Environmental Microbiology , vol.10 , pp. 1039-1056
    • Sharma, A.K.1    Zhaxybayeva, O.2    Papke, R.T.3    Doolittle, W.F.4
  • 91
    • 67549134809 scopus 로고    scopus 로고
    • Actinorhodopsin genes discovered in diverse freshwater habitats and among cultivated freshwater Actinobacteria
    • Sharma AK, Sommerfeld K, Bullerjahn GS, et al,. (2009) Actinorhodopsin genes discovered in diverse freshwater habitats and among cultivated freshwater Actinobacteria. The ISME Journal, 3, 726-737.
    • (2009) The ISME Journal , vol.3 , pp. 726-737
    • Sharma, A.K.1    Sommerfeld, K.2    Bullerjahn, G.S.3
  • 95
    • 0035162592 scopus 로고    scopus 로고
    • The COG database: New developments in phylogenetic classification of proteins from complete genomes
    • Tatusov RL, Natale DA, Garkavtsev IV, et al,. (2001) The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Research, 29, 22-28.
    • (2001) Nucleic Acids Research , vol.29 , pp. 22-28
    • Tatusov, R.L.1    Natale, D.A.2    Garkavtsev, I.V.3
  • 99
    • 84890649331 scopus 로고    scopus 로고
    • Limnological management of the Amadorio Reservoir (Spain) during an extremely dry summer
    • Vicente E, Camacho A, Sendra M, et al,. (2000) Limnological management of the Amadorio Reservoir (Spain) during an extremely dry summer. Verhandlungen des Internationalen Verein Limnologie, 27, 2298-2302.
    • (2000) Verhandlungen des Internationalen Verein Limnologie , vol.27 , pp. 2298-2302
    • Vicente, E.1    Camacho, A.2    Sendra, M.3
  • 100
    • 51249177728 scopus 로고
    • Cell bound and extracellular phosphatase activities of cyanobacterial isolates
    • Whitton BA, Grainger SLJ, Hawley GRW, Simon JW, (1991) Cell bound and extracellular phosphatase activities of cyanobacterial isolates. Microbial Ecology, 21, 85-98.
    • (1991) Microbial Ecology , vol.21 , pp. 85-98
    • Whitton, B.A.1    Grainger, S.L.J.2    Hawley, G.R.W.3    Simon, J.W.4
  • 101
    • 0027293730 scopus 로고
    • Purification and characterization of protocatechuate 2, 3-dioxygenase from Bacillus macerans: A new extradiol catecholic dioxygenase
    • Wolgel S, Dege J, Perkins-Olson P, et al,. (1993) Purification and characterization of protocatechuate 2, 3-dioxygenase from Bacillus macerans: a new extradiol catecholic dioxygenase. Journal of Bacteriology, 175, 4414-4426.
    • (1993) Journal of Bacteriology , vol.175 , pp. 4414-4426
    • Wolgel, S.1    Dege, J.2    Perkins-Olson, P.3
  • 102
    • 0347130868 scopus 로고    scopus 로고
    • Within-and between-lake variability in the composition of bacterioplankton communities: Investigations using multiple spatial scales
    • Yannarell AC, Triplett EW, (2004) Within-and between-lake variability in the composition of bacterioplankton communities: investigations using multiple spatial scales. Applied and Environmental Microbiology, 70, 214-223.
    • (2004) Applied and Environmental Microbiology , vol.70 , pp. 214-223
    • Yannarell, A.C.1    Triplett, E.W.2
  • 103
    • 0037178021 scopus 로고    scopus 로고
    • Typical freshwater bacteria: An analysis of available 16S rRNA gene sequences from plankton of lakes and rivers
    • Zwart G, Crump BC, Agterveld MPKV, Hagen F, Han SK, (2002) Typical freshwater bacteria: an analysis of available 16S rRNA gene sequences from plankton of lakes and rivers. Aquatic Microbial Ecology, 28, 141-155.
    • (2002) Aquatic Microbial Ecology , vol.28 , pp. 141-155
    • Zwart, G.1    Crump, B.C.2    Agterveld, M.3    Hagen, F.4    Han, S.K.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.