메뉴 건너뛰기




Volumn 62, Issue 4, 2011, Pages 765-775

Phylogenetic and Gene Expression Analysis of Cyanobacteria and Diatoms in the Twilight Waters of the Temperate Northeast Pacific Ocean

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; RNA 16S; RNA 23S; SEA WATER;

EID: 80255137390     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-011-9891-y     Document Type: Article
Times cited : (7)

References (66)
  • 1
    • 57649114800 scopus 로고    scopus 로고
    • Major gradients in putatively nitrifying and non-nitrifying Archaea in the deep North Atlantic
    • Agogué H, Brink M, Dinasquet J, Herndl GJ (2008) Major gradients in putatively nitrifying and non-nitrifying Archaea in the deep North Atlantic. Nature 456: 788-791.
    • (2008) Nature , vol.456 , pp. 788-791
    • Agogué, H.1    Brink, M.2    Dinasquet, J.3    Herndl, G.J.4
  • 4
    • 6044252163 scopus 로고    scopus 로고
    • The genome of the diatom Thalassiosira pseudonana: ecology evolution and metabolism
    • Armbrust EV, Berges JA, Bowler C, Green BR, Martinez D, Putnam NH et al (2004) The genome of the diatom Thalassiosira pseudonana: ecology evolution and metabolism. Science 306: 79-86.
    • (2004) Science , vol.306 , pp. 79-86
    • Armbrust, E.V.1    Berges, J.A.2    Bowler, C.3    Green, B.R.4    Martinez, D.5    Putnam, N.H.6
  • 9
    • 0035033936 scopus 로고    scopus 로고
    • Phytoplankton population dynamics at the Bermuda Atlantic Time-series station in the Sargasso Sea
    • DuRand MD, Olson RJ, Chisholm SW (2001) Phytoplankton population dynamics at the Bermuda Atlantic Time-series station in the Sargasso Sea. Deep-Sea Res II 48: 1983-2003.
    • (2001) Deep-Sea Res II , vol.48 , pp. 1983-2003
    • Durand, M.D.1    Olson, R.J.2    Chisholm, S.W.3
  • 11
    • 0032504117 scopus 로고    scopus 로고
    • Biogeochemical controls and feedbacks on ocean primary production
    • Falkowski PG, Barber RT, Smetacek V (1998) Biogeochemical controls and feedbacks on ocean primary production. Science 281: 200-206.
    • (1998) Science , vol.281 , pp. 200-206
    • Falkowski, P.G.1    Barber, R.T.2    Smetacek, V.3
  • 14
    • 0036286617 scopus 로고    scopus 로고
    • Genome-wide dynamic transcriptional profiling of the light-to-dark transition in Synechocystis sp, strain PCC 6803
    • Gill RT, Katsoulakis E, Schmitt W, Taroncher-Oldenburg G, Misra J, Stephanopoulos G (2002) Genome-wide dynamic transcriptional profiling of the light-to-dark transition in Synechocystis sp, strain PCC 6803. J Bacteriol 184: 3671-3681.
    • (2002) J Bacteriol , vol.184 , pp. 3671-3681
    • Gill, R.T.1    Katsoulakis, E.2    Schmitt, W.3    Taroncher-Oldenburg, G.4    Misra, J.5    Stephanopoulos, G.6
  • 16
    • 70349559205 scopus 로고    scopus 로고
    • Hydrostatic pressure affects physiology and community structure of marine bacteria during settling to 4000 m: an experimental approach
    • Grossart H, Gust G (2009) Hydrostatic pressure affects physiology and community structure of marine bacteria during settling to 4000 m: an experimental approach. Mar Ecol Prog Ser 390: 97-104.
    • (2009) Mar Ecol Prog Ser , vol.390 , pp. 97-104
    • Grossart, H.1    Gust, G.2
  • 17
    • 0001914227 scopus 로고
    • Culture of phytoplankton for feeding marine invertebrates
    • W. L. Smith and M. H. Canley (Eds.), New York: Plenum Press
    • Guillard RL (1975) Culture of phytoplankton for feeding marine invertebrates. In: Smith WL, Canley MH (eds) Culture of Marine Invertebrate Animals. Plenum Press, New York, pp 29-60.
    • (1975) Culture of Marine Invertebrate Animals , pp. 29-60
    • Guillard, R.L.1
  • 18
    • 54549084679 scopus 로고    scopus 로고
    • Regulation of aquatic microbial processes: the 'microbial loop' of the sunlit surface waters and the dark ocean dissected
    • Herndl GJ, Agogué H, Baltar F, Reinthaler T, Sintes E, Varela MM (2008) Regulation of aquatic microbial processes: the 'microbial loop' of the sunlit surface waters and the dark ocean dissected. Aquat Microb Ecol 53: 59-68.
    • (2008) Aquat Microb Ecol , vol.53 , pp. 59-68
    • Herndl, G.J.1    Agogué, H.2    Baltar, F.3    Reinthaler, T.4    Sintes, E.5    Varela, M.M.6
  • 19
    • 50849137907 scopus 로고    scopus 로고
    • RNA:DNA ratios of calanoid copepods from the epipelagic through abyssopelagic zones of the North Pacific Ocean
    • Ikeda T, Sano F, Yamaguchi A, Matsuishi T (2007) RNA: DNA ratios of calanoid copepods from the epipelagic through abyssopelagic zones of the North Pacific Ocean. Aquat Biol 1: 99-108.
    • (2007) Aquat Biol , vol.1 , pp. 99-108
    • Ikeda, T.1    Sano, F.2    Yamaguchi, A.3    Matsuishi, T.4
  • 20
    • 69949094273 scopus 로고    scopus 로고
    • Ammonia-oxidizing Archaea in the Arctic Ocean and Antarctic waters
    • Kalanetra KM, Bano N, Hollibaugh JT (2009) Ammonia-oxidizing Archaea in the Arctic Ocean and Antarctic waters. Environ Microbiol 11: 2434-2445.
    • (2009) Environ Microbiol , vol.11 , pp. 2434-2445
    • Kalanetra, K.M.1    Bano, N.2    Hollibaugh, J.T.3
  • 21
    • 0021613580 scopus 로고
    • Bacterial chemolithotrophy in the ocean is associated with sinking particles
    • Karl DM, Knauer GA, Martin JH, Ward BB (1984) Bacterial chemolithotrophy in the ocean is associated with sinking particles. Nature 309: 54-56.
    • (1984) Nature , vol.309 , pp. 54-56
    • Karl, D.M.1    Knauer, G.A.2    Martin, J.H.3    Ward, B.B.4
  • 22
    • 34547583680 scopus 로고    scopus 로고
    • MultiPhyl: a high-throughput phylogenomics webserver using distributed computing
    • Keane TM, Naughton TJ, McInerney JO (2007) MultiPhyl: a high-throughput phylogenomics webserver using distributed computing. Nucleic Acids Res 35: W33-W37.
    • (2007) Nucleic Acids Res , vol.35
    • Keane, T.M.1    Naughton, T.J.2    McInerney, J.O.3
  • 24
    • 0141447287 scopus 로고    scopus 로고
    • Activity distribution and divisity of sulfate reducers and other bacteria in sediments above gas hydrate (Cascadia margin Oregon)
    • Knittel K, Boetius A, Lemke A, Eilers H, Lochte K, Pfannkuche O, Linke P, Amann R (2003) Activity distribution and divisity of sulfate reducers and other bacteria in sediments above gas hydrate (Cascadia margin Oregon). Geomicrobiol J 20: 269-294.
    • (2003) Geomicrobiol J , vol.20 , pp. 269-294
    • Knittel, K.1    Boetius, A.2    Lemke, A.3    Eilers, H.4    Lochte, K.5    Pfannkuche, O.6    Linke, P.7    Amann, R.8
  • 27
    • 0032882298 scopus 로고    scopus 로고
    • Microbial diversity in sediments collected from the deepest cold-seep area the Japan Trench
    • Li L, Kato C, Horikoshi K (1999) Microbial diversity in sediments collected from the deepest cold-seep area the Japan Trench. Mar Biotechnol 1: 391-400.
    • (1999) Mar Biotechnol , vol.1 , pp. 391-400
    • Li, L.1    Kato, C.2    Horikoshi, K.3
  • 29
    • 27744480467 scopus 로고    scopus 로고
    • Photosynthesis genes in marine viruses yield proteins during host infection
    • Lindell D, Jaffe JD, Johnson ZI, Church GM, Chisholm SW (2005) Photosynthesis genes in marine viruses yield proteins during host infection. Nature 438: 86-89.
    • (2005) Nature , vol.438 , pp. 86-89
    • Lindell, D.1    Jaffe, J.D.2    Johnson, Z.I.3    Church, G.M.4    Chisholm, S.W.5
  • 30
    • 0002671156 scopus 로고
    • Bacteria and cyanobacteria associated with phytodetritus in the deep sea
    • Lochte K, Turley CM (1988) Bacteria and cyanobacteria associated with phytodetritus in the deep sea. Nature 333: 67-69.
    • (1988) Nature , vol.333 , pp. 67-69
    • Lochte, K.1    Turley, C.M.2
  • 33
    • 0030620440 scopus 로고    scopus 로고
    • Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel
    • Massana R, Murray AE, Preston CM, DeLong EF (1997) Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel. Appl Environ Microbiol 63: 50-56.
    • (1997) Appl Environ Microbiol , vol.63 , pp. 50-56
    • Massana, R.1    Murray, A.E.2    Preston, C.M.3    Delong, E.F.4
  • 34
    • 3342929288 scopus 로고    scopus 로고
    • Genetic organization of the psbAD region in phages infecting marine Synechococcus strains
    • Millard A, Clokie MRJ, Shub DA, Mann NH (2004) Genetic organization of the psbAD region in phages infecting marine Synechococcus strains. Proc Natl Acad Sci (USA) 101: 11007-11012.
    • (2004) Proc Natl Acad Sci (USA) , vol.101 , pp. 11007-11012
    • Millard, A.1    Clokie, M.R.J.2    Shub, D.A.3    Mann, N.H.4
  • 35
    • 32244431577 scopus 로고    scopus 로고
    • Metagenomic analysis of mesopelagic Antarctic plankton reveals a novel deltaproteobacterial group
    • Moreira F, Rodriguez-Valera F, Lopez-Garcia P (2006) Metagenomic analysis of mesopelagic Antarctic plankton reveals a novel deltaproteobacterial group. Microbiol 152: 505-517.
    • (2006) Microbiol , vol.152 , pp. 505-517
    • Moreira, F.1    Rodriguez-Valera, F.2    Lopez-Garcia, P.3
  • 37
    • 0035140734 scopus 로고    scopus 로고
    • Chromatic adaptation in marine Synechococcus strains
    • Palenik B (2001) Chromatic adaptation in marine Synechococcus strains. Appl Environ Microbial 67: 991-994.
    • (2001) Appl Environ Microbial , vol.67 , pp. 991-994
    • Palenik, B.1
  • 40
    • 0033009854 scopus 로고    scopus 로고
    • Prochlorococcus a marine photosynthetic prokaryote of global significance
    • Partensky F, Hess WR, Vaulot D (1999) Prochlorococcus a marine photosynthetic prokaryote of global significance. Microbiol Mol Biol Rev 63: 106-127.
    • (1999) Microbiol Mol Biol Rev , vol.63 , pp. 106-127
    • Partensky, F.1    Hess, W.R.2    Vaulot, D.3
  • 41
    • 0027879716 scopus 로고
    • Heterotrophic flagellates and other protists associated with oceanic detritus throughout the water column in the mid North Atlantic
    • Patterson DJ, Nygaard K, Steinberg G, Turley CM (1993) Heterotrophic flagellates and other protists associated with oceanic detritus throughout the water column in the mid North Atlantic. J Mar Biol Ass UK 73: 67-95.
    • (1993) J Mar Biol Ass UK , vol.73 , pp. 67-95
    • Patterson, D.J.1    Nygaard, K.2    Steinberg, G.3    Turley, C.M.4
  • 42
    • 48749116908 scopus 로고    scopus 로고
    • Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre
    • Pham VD, Konstantinidis KT, Palden T, DeLong EF (2008) Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre. Environ Microbial 10: 2313-2330.
    • (2008) Environ Microbial , vol.10 , pp. 2313-2330
    • Pham, V.D.1    Konstantinidis, K.T.2    Palden, T.3    Delong, E.F.4
  • 43
    • 33746348668 scopus 로고    scopus 로고
    • The natural diet of a hexactinellid sponge: benthic-pelagic coupling in a deep-sea microbial food web
    • Pilea AJ, Young CM (2006) The natural diet of a hexactinellid sponge: benthic-pelagic coupling in a deep-sea microbial food web. Deep Sea Research Part I: Oceanographic Research Papers 53: 1148-1156.
    • (2006) Deep Sea Research Part I: Oceanographic Research Papers , vol.53 , pp. 1148-1156
    • Pilea, A.J.1    Young, C.M.2
  • 44
    • 66649089244 scopus 로고    scopus 로고
    • Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre
    • Poretsky RS, Hewson I, Sun S, Allen AE, Zehr JP, Moran MA (2009) Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre. Environ Microbiol 11: 1358-1375.
    • (2009) Environ Microbiol , vol.11 , pp. 1358-1375
    • Poretsky, R.S.1    Hewson, I.2    Sun, S.3    Allen, A.E.4    Zehr, J.P.5    Moran, M.A.6
  • 45
    • 0002476656 scopus 로고
    • Physiological consequences of extremely small size for autotrophic organisms in the sea
    • Platt T and Li WKW (eds.)
    • Raven JA (1986) Physiological consequences of extremely small size for autotrophic organisms in the sea. In: Platt T and Li WKW (eds.) Photosynthetk picoplankton. Can. Bull. Fish. Aquat. Sci., 214, pp 1-70.
    • (1986) Photosynthetk Picoplankton. Can. Bull. Fish. Aquat. Sci , vol.214 , pp. 1-70
    • Raven, J.A.1
  • 46
    • 84946298230 scopus 로고
    • Photosynthesis in the ocean as a function of light intensity
    • Ryther JH (1956) Photosynthesis in the ocean as a function of light intensity. Limnol Oceanogr 1: 61-70.
    • (1956) Limnol Oceanogr , vol.1 , pp. 61-70
    • Ryther, J.H.1
  • 48
    • 0025860931 scopus 로고
    • Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing
    • Schmidt TM, DeLong EF, Pace NR (1991) Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing. J Bacteriol 173: 4371-4378.
    • (1991) J Bacteriol , vol.173 , pp. 4371-4378
    • Schmidt, T.M.1    Delong, E.F.2    Pace, N.R.3
  • 50
    • 34249089172 scopus 로고    scopus 로고
    • Universal primers amplify a 23S rDNA plastid marker in eukaryotic algae and cyanobacteria
    • Sherwood AR, Presting GG (2007) Universal primers amplify a 23S rDNA plastid marker in eukaryotic algae and cyanobacteria. J Phycology 43: 605-608.
    • (2007) J Phycology , vol.43 , pp. 605-608
    • Sherwood, A.R.1    Presting, G.G.2
  • 51
    • 45849087630 scopus 로고    scopus 로고
    • High throughput gene expression measurement with real time PCR in a microfluidic dynamic array
    • Spurgeon SL, Jones RC, Ramakrishnan R (2009) High throughput gene expression measurement with real time PCR in a microfluidic dynamic array. PLoS One 3: e1662.
    • (2009) PLoS One , vol.3
    • Spurgeon, S.L.1    Jones, R.C.2    Ramakrishnan, R.3
  • 52
    • 37049185150 scopus 로고
    • Analysis of hydrothermal vent-associated symbionts by ribosomal RNA sequences
    • Stahl DA, Lane DJ, Olsen GJ, Pace NR (1984) Analysis of hydrothermal vent-associated symbionts by ribosomal RNA sequences. Science 224: 409-411.
    • (1984) Science , vol.224 , pp. 409-411
    • Stahl, D.A.1    Lane, D.J.2    Olsen, G.J.3    Pace, N.R.4
  • 54
    • 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 Acid Res 22: 4673-4680.
    • (1994) Nucleic Acid Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 55
    • 84920629237 scopus 로고    scopus 로고
    • A renaissance for the pioneering 16S rRNA gene
    • Tringe SG, Hugenholtz P (2008) A renaissance for the pioneering 16S rRNA gene. Curr Opin Microbiol 11: 442-446.
    • (2008) Curr Opin Microbiol , vol.11 , pp. 442-446
    • Tringe, S.G.1    Hugenholtz, P.2
  • 56
    • 0001539383 scopus 로고
    • In: Reid PC, Turley CM, Burkill, NATO ASI Series Vol G25, Springer Berlin
    • Turley CM (1991) Protozoa associated with marine snow and fluff-session. In: Reid PC, Turley CM, Burkill (eds) NATO ASI Series Vol G25, Springer Berlin, p. 309-326.
    • (1991) Protozoa Associated With Marine Snow and Fluff-session , pp. 309-326
    • Turley, C.M.1
  • 57
    • 0034759532 scopus 로고    scopus 로고
    • Microbial assemblages associated with sinking particles in the Porcupine Abyssal Plain (NE Atlantic Ocean)
    • Vanucci S, Dell'anno A, Pusceddu A, Fabiano M, Lampitt S, Danovaro R (2001) Microbial assemblages associated with sinking particles in the Porcupine Abyssal Plain (NE Atlantic Ocean). Prog Oceanogr 50: 105-121.
    • (2001) Prog Oceanogr , vol.50 , pp. 105-121
    • Vanucci, S.1    Dell'anno, A.2    Pusceddu, A.3    Fabiano, M.4    Lampitt, S.5    Danovaro, R.6
  • 58
    • 44849088381 scopus 로고    scopus 로고
    • Abundance and activity of Chloroflexi-type SAR202 bacterioplankton in the meso- and bathypelagic waters of the (sub)tropical Atlantic
    • Varela MM, van Aken HM, Herndl GJ (2008) Abundance and activity of Chloroflexi-type SAR202 bacterioplankton in the meso- and bathypelagic waters of the (sub)tropical Atlantic. Environ Microbiol 10: 1903-1911.
    • (2008) Environ Microbiol , vol.10 , pp. 1903-1911
    • Varela, M.M.1    van Aken, H.M.2    Herndl, G.J.3
  • 59
    • 46649088735 scopus 로고    scopus 로고
    • Deep water ventilation traced by Synechococcus cyanobacteria
    • Vilibic I, Santic D (2008) Deep water ventilation traced by Synechococcus cyanobacteria. Ocean Dyn 58: 119-125.
    • (2008) Ocean Dyn , vol.58 , pp. 119-125
    • Vilibic, I.1    Santic, D.2
  • 62
    • 0033986319 scopus 로고    scopus 로고
    • In situ hybridization of Prochlorococcus and Synechococcus (marine cyanobacteria) spp, with rRNA-targeted peptide nucleic acid probes
    • Worden AZ, Chisholm SW, Binder BJ (2000) In situ hybridization of Prochlorococcus and Synechococcus (marine cyanobacteria) spp, with rRNA-targeted peptide nucleic acid probes. Appl Environ Microbiol 66: 284-289.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 284-289
    • Worden, A.Z.1    Chisholm, S.W.2    Binder, B.J.3
  • 63
    • 0001228774 scopus 로고
    • Adaptation of photosynthetic apparatus of marine ultraphytoplankton to natural light fields
    • Wood AM (1985) Adaptation of photosynthetic apparatus of marine ultraphytoplankton to natural light fields. Nature 316: 252-255.
    • (1985) Nature , vol.316 , pp. 252-255
    • Wood, A.M.1
  • 64
    • 78650195187 scopus 로고    scopus 로고
    • Optimization of whole-transcriptome amplification from low cell-density deep-sea microbial samples for metatranscriptomic analysis
    • Wu J, Gao W, Zhang W, Meldrum DR (2011) Optimization of whole-transcriptome amplification from low cell-density deep-sea microbial samples for metatranscriptomic analysis. J Microbiol Methods 84: 88-93.
    • (2011) J Microbiol Methods , vol.84 , pp. 88-93
    • Wu, J.1    Gao, W.2    Zhang, W.3    Meldrum, D.R.4
  • 65
    • 68849120882 scopus 로고    scopus 로고
    • Photoheterotrophy in marine prokaryotes
    • Zubkov MV (2009) Photoheterotrophy in marine prokaryotes. J Plankton Res 31: 933-938.
    • (2009) J Plankton Res , vol.31 , pp. 933-938
    • Zubkov, M.V.1
  • 66
    • 33749472206 scopus 로고    scopus 로고
    • Syringe pumped high speed flow cytometry of oceanic hhytoplankton
    • Zubkov MV, Burkill PH (2006) Syringe pumped high speed flow cytometry of oceanic hhytoplankton. Cytometry 69A: 1010-1019.
    • (2006) Cytometry , vol.69 A , pp. 1010-1019
    • Zubkov, M.V.1    Burkill, P.H.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.