메뉴 건너뛰기




Volumn 5, Issue 10, 2011, Pages 1621-1633

Metatranscriptomic analysis of extremely halophilic viral communities

Author keywords

haloquadratum; halovirus; metagenome; metatranscriptome; salinibacter; virus

Indexed keywords

AQUATIC ENVIRONMENT; BACTERIUM; CLONE; DILUTION; ENVIRONMENTAL CONDITIONS; GENE EXPRESSION; GENETIC ANALYSIS; GENOMICS; HYPERSALINE ENVIRONMENT; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; POLYMORPHISM; POND; ULTRAVIOLET RADIATION; VIRUS;

EID: 80052961403     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2011.34     Document Type: Article
Times cited : (33)

References (59)
  • 1
    • 33746214684 scopus 로고    scopus 로고
    • Locus-specific gene expression pattern suggests a unique propagation strategy for a giant algal virus
    • DOI 10.1128/JVI.00491-06
    • Allen MJ, Forster T, Schroeder DC, Hall M, Roy D, Ghazal P et al. (2006). Locus-specific gene expression pattern suggests a unique propagation strategy for a giant algal virus. J Virol 80: 7699-7705. (Pubitemid 44092590)
    • (2006) Journal of Virology , vol.80 , Issue.15 , pp. 7699-7705
    • Allen, M.J.1    Forster, T.2    Schroeder, D.C.3    Hall, M.4    Roy, D.5    Ghazal, P.6    Wilson, W.H.7
  • 3
    • 33947166361 scopus 로고    scopus 로고
    • The coccolithovirus microarray: And array of uses
    • Allen MJ, Wilson WH. (2006). The coccolithovirus microarray: And array of uses. Brief Funct Genomic Proteomic 5: 273-279.
    • (2006) Brief Funct Genomic Proteomic , vol.5 , pp. 273-279
    • Allen, M.J.1    Wilson, W.H.2
  • 4
    • 0025099312 scopus 로고
    • Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology
    • Amann RI, Krumholz L, Stahl DA. (1990). Fluorescentoligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J Bacteriol 172: 762-770. (Pubitemid 20070387)
    • (1990) Journal of Bacteriology , vol.172 , Issue.2 , pp. 762-770
    • Amann, R.I.1    Krumholz, L.2    Stahl, D.A.3
  • 5
    • 0033301308 scopus 로고    scopus 로고
    • Fluorescence in situ hybridization analysis of the prokaryotic community inhabiting crystallizer ponds
    • Antón J, Llobet-Brossa E, Rodríguez-Valera F, Amann R. (1999). Fluorescente in situ hybridization analysis of the prokaryotic community inhabiting crystallizer ponds. Environ Microbiol 1: 517-523. (Pubitemid 129640065)
    • (1999) Environmental Microbiology , vol.1 , Issue.6 , pp. 517-523
    • Anton, J.1    Llobet-Brossa, E.2    Rodriguez-Valera, F.3    Amann, R.4
  • 9
    • 33747334086 scopus 로고    scopus 로고
    • The genome of the square archaeon Haloquadratum walsbyi: Life at the limits of water activity
    • Bolhuis H, Palm P, Wende A, Falb M, Rampp M, Rodriguez-Valera F et al. (2006). The genome of the square archaeon Haloquadratum walsbyi: Life at the limits of water activity. BMC Genomics 4: 169.
    • (2006) BMC Genomics , vol.4 , pp. 169
    • Bolhuis, H.1    Palm, P.2    Wende, A.3    Falb, M.4    Rampp, M.5    Rodriguez-Valera, F.6
  • 11
    • 33846060282 scopus 로고    scopus 로고
    • Key role of selective viral-induced mortality in determining marine bacterial community composition
    • DOI 10.1111/j.1462-2920.2006.01137.x
    • Bouvier T, del Giorgio PA. (2007). Key role of selective viral-induced mortality in determining marine bacterial community composition. Environ Microbiol 9: 287-297. (Pubitemid 46072118)
    • (2007) Environmental Microbiology , vol.9 , Issue.2 , pp. 287-297
    • Bouvier, T.1    Del Giorgio, P.A.2
  • 13
    • 20344382957 scopus 로고    scopus 로고
    • Here a virus, there a virus, everywhere the same virus?
    • Breitbart M, Rohwer F. (2006). Here a virus, there a virus, everywhere the same virus? Trends Microbiol 13: 278-284.
    • (2006) Trends Microbiol , vol.13 , pp. 278-284
    • Breitbart, M.1    Rohwer, F.2
  • 16
    • 33746621649 scopus 로고    scopus 로고
    • Design of microarrays probes for virus identification and detection of emerging viruses at the genus level
    • Chou CC, Lee TS, Chun-Houh C, Hsiao HY, Lin YL, Ho MS et al. (2006). Design of microarrays probes for virus identification and detection of emerging viruses at the genus level. BMC Bio 7: 232-242.
    • (2006) BMC Bio , vol.7 , pp. 232-242
    • Chou, C.C.1    Lee, T.S.2    Chun-Houh, C.3    Hsiao, H.Y.4    Lin, Y.L.5    Ho, M.S.6
  • 18
  • 19
    • 0037716583 scopus 로고    scopus 로고
    • Haloarchaeal viruses: How diverse are they?
    • DOI 10.1016/S0923-2508(03)00076-7
    • Dyall-Smith M, Tang SL, Bath C. (2003). Haloarchaeal viruses: How diverse are they? Res Microbiol 154: 309-313. (Pubitemid 36645279)
    • (2003) Research in Microbiology , vol.154 , Issue.4 , pp. 309-313
    • Dyall-Smith, M.1    Tang, S.-L.2    Bath, C.3
  • 20
    • 33845897093 scopus 로고    scopus 로고
    • Selective enrichment, isolation and molecular detection of Salinibacter and related extremely halophilic Bacteria from hypersaline environments
    • DOI 10.1007/s10750-006-0288-8, Theme: Saline Waters and their Biota
    • Elevi-Bardavid R, Ionescu D, Oren A, Rainey FA, Hollen BJ, Bagaley DR et al. (2007). Selective enrichment, isolation and molecular detection of Salinibacter ruber and related extremely halophilic Bacteria from hypersaline environments. Hydrobiologia 576: 3-13. (Pubitemid 46025574)
    • (2007) Hydrobiologia , vol.576 , Issue.1 , pp. 3-13
    • Bardavid, R.E.1    Ionescu, D.2    Oren, A.3    Rainey, F.A.4    Hollen, B.J.5    Bagaley, D.R.6    Small, A.M.7    McKay, C.8
  • 21
    • 0033542481 scopus 로고    scopus 로고
    • Marine viruses and their biogeochemical and ecological effects
    • Fuhrman JA. (1999). Marine viruses and their biogeochemical and ecological effects. Nature 399: 541-548.
    • (1999) Nature , vol.399 , pp. 541-548
    • Fuhrman, J.A.1
  • 22
    • 0037398111 scopus 로고    scopus 로고
    • Viral influence on aquatic bacterial communities
    • Fuhrman JA, Schwalbach M. (2003). Viral influence of aquatic bacterial communities. Biol Bull 204: 192-195. (Pubitemid 36516707)
    • (2003) Biological Bulletin , vol.204 , Issue.2 , pp. 192-195
    • Fuhrman, J.A.1    Schwalbach, M.2
  • 23
    • 40949106451 scopus 로고    scopus 로고
    • An oligonucleotide prokaryotic acidophile microarray: Its validation and its use to monitor seasonal variations in extreme acidic environments with total environmental RNA
    • DOI 10.1111/j.1462-2920.2008.01477.x
    • Garrido P, González-Toril E, García-Moyano A, Moreno-Paz M, Amils R, Parro V. (2008). An oligonucleotide prokaryotic acidophile microarray: Its validation and its use to monitor seasonal variations in extreme acidic environments with total environmental RNA. Environ Microbiol 10: 836-850. (Pubitemid 351406081)
    • (2008) Environmental Microbiology , vol.10 , Issue.4 , pp. 836-850
    • Garrido, P.1    Gonzalez-Toril, E.2    Garcia-Moyano, A.3    Moreno-Paz, M.4    Amils, R.5    Parro, V.6
  • 25
    • 1842457611 scopus 로고    scopus 로고
    • A simple remedy against artifactual double bands in denaturing gradient gel electrophoresis
    • DOI 10.1016/j.mimet.2003.12.006, PII S0167701203003543
    • Janse I, Bok J, Zwart G. (2004). A simple remedy against artifactual double bands in denaturing gradient gel electrophoresis. J Microbiol Meth 57: 279-281. (Pubitemid 38446872)
    • (2004) Journal of Microbiological Methods , vol.57 , Issue.2 , pp. 279-281
    • Janse, I.1    Bok, J.2    Zwart, G.3
  • 26
    • 1642465020 scopus 로고    scopus 로고
    • Abundance, distribution and diversity of viruses in alkaline, hypersaline Mono Lake, California
    • Jiang S, Steward G, Jellison R, Chu W, Choi S. (2003). Abundance, distribution and diversity of viruses in alkaline, hypersaline Mono Lake, California. Microb Ecol 47: 9-17.
    • (2003) Microb Ecol , vol.47 , pp. 9-17
    • Jiang, S.1    Steward, G.2    Jellison, R.3    Chu, W.4    Choi, S.5
  • 29
    • 33748299286 scopus 로고    scopus 로고
    • Environmental genomics of 'Haloquadratum walsbyi' in saltern crystallizer indicates a large pool of accessory genes in an otherwise coherent species
    • Legault BA, López-López A, Alba-Casado JC, Doolittle WF, Bolhius H, Rodríguez-Valera F et al. (2006). Environmental genomics of 'Haloquadratum walsbyi' in saltern crystallizer indicates a large pool of accessory genes in an otherwise coherent species. BMC Genomics 4: 171.
    • (2006) BMC Genomics , vol.4 , pp. 171
    • Legault, B.A.1    López-López, A.2    Alba-Casado, J.C.3    Doolittle, W.F.4    Bolhius, H.5    Rodríguez-Valera, F.6
  • 30
    • 33745161855 scopus 로고    scopus 로고
    • Microbial diversity in Maras salterns, a hypersaline environment in the Peruvian Andes
    • DOI 10.1128/AEM.02214-05
    • Maturrano L, Santos F, Rosselló-Mora R, Antón J. (2006). Microbial diversity in Maras salterns, a hypersaline environment in the Peruvian Andes. Appl Environ Microbiol 72: 3887-3895. (Pubitemid 43894848)
    • (2006) Applied and Environmental Microbiology , vol.72 , Issue.6 , pp. 3887-3895
    • Maturrano, L.1    Santos, F.2    Rossello-Mora, R.3    Anton, J.4
  • 31
    • 77954846383 scopus 로고    scopus 로고
    • Environmental transcriptome analysis reveals physiological differences between biofilm and planktonic modes of life of the iron oxidizing bacteria Leptospirillum spp. in their natural microbial community
    • Moreno-Paz M, Gómez MJ, Arcas A, Parro V. (2010). Environmental transcriptome analysis reveals physiological differences between biofilm and planktonic modes of life of the iron oxidizing bacteria Leptospirillum spp. in their natural microbial community. BMC Genomics 11: 404.
    • (2010) BMC Genomics , vol.11 , pp. 404
    • Moreno-Paz, M.1    Gómez, M.J.2    Arcas, A.3    Parro, V.4
  • 32
    • 33745134371 scopus 로고    scopus 로고
    • Amplification of low quantity bacterial RNA for microarray studies: Time-course analysis of Leptospirillum ferrooxidans under nitrogen-fixing conditions
    • DOI 10.1111/j.1462-2920.2006.00998.x
    • Moreno-Paz M, Parro V. (2006). Amplification of low quatity bacterial RNA for microarray studies: Time-course analysis of Leptospirillum ferrooxidans under nitrogenfixing conditions. Environ Microbiol 8: 1064-1073. (Pubitemid 43901773)
    • (2006) Environmental Microbiology , vol.8 , Issue.6 , pp. 1064-1073
    • Moreno-Paz, M.1    Parro, V.2
  • 33
    • 0027331969 scopus 로고
    • Viral dynamics II: A model of the interaction of ultraviolet light and mixing processes on virus survival in seawater
    • Murray A, Jackson G. (1993). Viral dynamics II: A model of the interaction of ultraviolet light and mixing processes on virus survival in seawater. Mar Ecol Prog Ser 102: 105-114.
    • (1993) Mar Ecol Prog Ser , vol.102 , pp. 105-114
    • Murray, A.1    Jackson, G.2
  • 35
    • 0027460328 scopus 로고
    • Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
    • Muyzer G, De Waal EC, Uitterlinden AG. (1993). Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59: 695-700. (Pubitemid 23072343)
    • (1993) Applied and Environmental Microbiology , vol.59 , Issue.3 , pp. 695-700
    • Muyzer, G.1    De Waal, E.C.2    Uitterlinden, A.G.3
  • 36
    • 0001868071 scopus 로고    scopus 로고
    • Denaturing gradient gel electrohpresis of PCR-amplified 16S rDNA. A new molecular approach to analyze the genetic diversity of mixed microbial communities
    • Akkermans ADL, van Elsas JD, de Brujin FJ (eds) Kluwer Academic Publishing: Dordrecht
    • Muyzer G, Hottentrager S, Teske A, Wagner C. (1996). Denaturing gradient gel electrohpresis of PCR-amplified 16S rDNA. A new molecular approach to analyze the genetic diversity of mixed microbial communities. In: Akkermans ADL, van Elsas JD, de Brujin FJ (eds), Molecular Microbial Ecology Manual. Kluwer Academic Publishing: Dordrecht, pp. 3.4.4.1-3.4.4.2.2.
    • (1996) Molecular Microbial Ecology Manual. , pp. 3441-34422
    • Muyzer, G.1    Hottentrager, S.2    Teske, A.3    Wagner, C.4
  • 37
    • 0001679973 scopus 로고    scopus 로고
    • Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria
    • Noble RT, Fuhrman JA. (1998). Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat Microb Ecol 14: 113-118. (Pubitemid 128474827)
    • (1998) Aquatic Microbial Ecology , vol.14 , Issue.2 , pp. 113-118
    • Noble, R.T.1    Fuhrman, J.A.2
  • 38
    • 10344243528 scopus 로고    scopus 로고
    • Frequent recombination in a saltern population of Halorubrum
    • DOI 10.1126/science.1103289
    • Papke RT, Koening JE, Rodríguez-Valera F, Doolittle WF. (2004). Frequent recombination in saltern population of Halorubrum. Science 306: 1928-1929. (Pubitemid 39627855)
    • (2004) Science , vol.306 , Issue.5703 , pp. 1928-1929
    • Papke, R.T.1    Koenig, J.E.2    Rodriguez-Valera, F.3    Doolittle, W.F.4
  • 39
    • 33846110892 scopus 로고    scopus 로고
    • Analysis of environmental transcriptomes by DNA microarrays
    • DOI 10.1111/j.1462-2920.2006.01162.x
    • Parro V, Moreno-Paz M, González-Toril E. (2007). Analysis of environmental transcriptomes by DNA microarrays. Environ Microbiol 9: 453-464. (Pubitemid 46072131)
    • (2007) Environmental Microbiology , vol.9 , Issue.2 , pp. 453-464
    • Parro, V.1    Moreno-Paz, M.2    Gonzalez-Toril, E.3
  • 40
    • 77954084359 scopus 로고    scopus 로고
    • Fine-scale evolution: Genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains
    • Peña A, Teeling H, Huerta-Cepas J, Santos F, Yarza P, Brito-Echevarría J et al. (2010). Fine-scale evolution: Genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains. ISME J 4: 882-895.
    • (2010) ISME J , vol.4 , pp. 882-895
    • Pena, A.1    Teeling, H.2    Huerta-Cepas, J.3    Santos, F.4    Yarza, P.5    Brito-Echevarría, J.6
  • 43
    • 1842614234 scopus 로고    scopus 로고
    • Substrate uptake in extremely halophilic microbial communities revealed by microautoradiography and fluorescence in situ hybridization
    • DOI 10.1007/s00792-003-0336-5
    • Rosselló-Mora R, Lee N, Antón J, Wagner M. (2003). Substrate uptake in extremely halophilic microbial communities revealed by microautoradiography and fluorescence in situ hybridization. Extremophiles 7: 409-413. (Pubitemid 41512720)
    • (2003) Extremophiles , vol.7 , Issue.5 , pp. 409-413
    • Rossello-Mora, R.1    Lee, N.2    Anton, J.3    Wagner, M.4
  • 44
    • 3042780438 scopus 로고    scopus 로고
    • Virioplankton community structure along a salinity gradient in a solar saltern
    • DOI 10.1007/s00792-003-0328-5
    • Sandaa RA, Skjoldal EF, Bratbak G. (2003). Virioplankton community structure along a salinity gradient in a solar saltern. Extremophiles 7: 347-351. (Pubitemid 41512712)
    • (2003) Extremophiles , vol.7 , Issue.5 , pp. 347-351
    • Sandaa, R.-A.1    Skjoldal, E.F.2    Bratbak, G.3
  • 45
    • 34250206625 scopus 로고    scopus 로고
    • Metagenomic approach to the study of halophages: The environmental halophage 1
    • DOI 10.1111/j.1462-2920.2007.01289.x
    • Santos F, Meyerdierks A, Peña A, Rosselló-Mora R, Amann R, Antón J. (2007). Metagenomic approach to the study of halophages: The environmental halophage 1. Environ Microbiol 9: 1711-1723. (Pubitemid 46905408)
    • (2007) Environmental Microbiology , vol.9 , Issue.7 , pp. 1711-1723
    • Santos, F.1    Meyerdierks, A.2    Pena, A.3    Rossello-Mora, R.4    Amann, R.5    Anton, J.6
  • 47
    • 78149449833 scopus 로고    scopus 로고
    • The use of cellular CRISPR spacer-based microarrays for detection of viruses in 1 environmental samples
    • Snyder JC, Bateson MB, Lavin M, Young MJ. (2010). The use of cellular CRISPR spacer-based microarrays for detection of viruses in 1 environmental samples. Appl Environ Microbiol 76: 7251.
    • (2010) Appl Environ Microbiol , vol.76 , pp. 7251
    • Snyder, J.C.1    Bateson, M.B.2    Lavin, M.3    Young, M.J.4
  • 48
    • 0003341851 scopus 로고
    • Development and application of nucleic acid probes in bacterial systematics
    • Stackebrandt E, Goodfellow M (eds). Wiley & Sons Ltd: Chichester, England
    • Stahl DA, Amann RI. (1991). Development and application of nucleic acid probes in bacterial systematics. In: Stackebrandt E, Goodfellow M (eds). Nucleic Acid Techniques in Bacterial Systematics. Wiley & Sons Ltd: Chichester, England, pp 205-248.
    • (1991) Nucleic Acid Techniques in Bacterial Systematics , pp. 205-248
    • Stahl, D.A.1    Amann, R.I.2
  • 49
    • 0026458628 scopus 로고
    • Mechanisms and rates of decay of marine viruses in seawater
    • Suttle CA, Chen F. (1992). Mechanisms and rates of decay of marine viruses in seawater. Appl Environ Microbiol 58: 3721-3729. (Pubitemid 24406256)
    • (1992) Applied & Environmental Microbiology , vol.58 , Issue.11 , pp. 3721-3729
    • Suttle, C.A.1    Feng Chen2
  • 50
    • 0002058563 scopus 로고    scopus 로고
    • Theoretical models for the control of bacterial growth rate, abundance, diversity and carbon demand
    • Thingstad TF, Lignell R. (1997). Theoretical models for the control of bacterial growth rate, abundance, diversity and carbon demand. Aquat Microb Ecol J 13: 19-27. (Pubitemid 127476494)
    • (1997) Aquatic Microbial Ecology , vol.13 , Issue.1 , pp. 19-27
    • Thingstad, T.F.1    Lignell, R.2
  • 51
    • 0036566806 scopus 로고    scopus 로고
    • Heteroduplexes in mixed-template amplifications: Formation, consequence and elimination by 'reconditioning PCR'
    • Thompson JR, Marcelino LA, Polz MF. (2002). Heteroduplexes in mixed-template amplifications: Formation, consequence and elimination by 'reconditioning PCR'. Nucl Acids Res 30: 2083-2088. (Pubitemid 34537607)
    • (2002) Nucleic Acids Research , vol.30 , Issue.9 , pp. 2083-2088
    • Thompson, J.R.1    Marcelino, L.A.2    Polz, M.F.3
  • 53
    • 70449441476 scopus 로고    scopus 로고
    • An enhanced single base extension technique for the analysis of complex viral populations
    • Webster DR, Hekele AG, Lauring AS, Fischer KF, Li H, Yino R et al. (2009). An enhanced single base extension technique for the analysis of complex viral populations. PLoS One 410: E7453.
    • (2009) PLoS One , vol.410
    • Webster, D.R.1    Hekele, A.G.2    Lauring, A.S.3    Fischer, K.F.4    Li, H.5    Yino, R.6
  • 54
    • 1942486000 scopus 로고    scopus 로고
    • Ecology of prokaryotic viruses
    • DOI 10.1016/j.femsre.2003.08.001, PII S0168644503000895
    • Weinbauer MG. (2004). Ecology of prokaryotic viruses. FEMS Microbiol Rev 28: 127-181. (Pubitemid 38510500)
    • (2004) FEMS Microbiology Reviews , vol.28 , Issue.2 , pp. 127-181
    • Weinbauer, M.G.1
  • 55
    • 0036050311 scopus 로고    scopus 로고
    • A dilution technique for the direct measurement of viral production: A comparison in stratified and tidally mixed coastal waters
    • DOI 10.1007/s00248-001-1021-9
    • Wilhelm SW, Brigden SM, Suttle CA. (2002). A dilution technique for the direct measurement of viral production: A comparison in stratified and tidally mixed coastal waters. Microb Ecol 43: 168-173. (Pubitemid 36940956)
    • (2002) Microbial Ecology , vol.43 , Issue.1 , pp. 168-173
    • Wilhelm, S.W.1    Brigden, S.M.2    Suttle, C.A.3
  • 57
    • 77749309301 scopus 로고    scopus 로고
    • Trade-offs between competition and defense specialist among unicellular planktonic organisms: The 'Killing the Winner' hypothesis revisited
    • Winter C, Bouvier T, Weinbauer MG, Thingstad TF. (2010). Trade-offs between competition and defense specialist among unicellular planktonic organisms: The 'Killing the Winner' hypothesis revisited. Microb Mol Biol Rev 74: 42-57.
    • (2010) Microb Mol Biol Rev , vol.74 , pp. 42-57
    • Winter, C.1    Bouvier, T.2    Weinbauer, M.G.3    Thingstad, T.F.4
  • 59
    • 0035841226 scopus 로고    scopus 로고
    • A statistical method for flagging weak spots improves normalization and ratio estimates in microarrays
    • Yang MC, Ruan QG, Yang JJ, Eckenrode S, Wu S, McIndoe RA et al. (2001). A statistical method for flagging weak spots improves normalization and ratio estimates in microarrays. Physiol Genomics 7: 45-53. (Pubitemid 135707256)
    • (2002) Physiological Genomics , vol.2002 , Issue.7 , pp. 45-53
    • Yang, M.C.K.1    Ruan, Q.G.2    Yang, J.J.3    Eckenrode, S.4    Wu, S.5    McIndoe, R.A.6    She, J.X.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.