메뉴 건너뛰기




Volumn 76, Issue 20, 2010, Pages 6724-6732

Randomly amplified polymorphic dna reveals tight links between viruses and microbes in the bathypelagic zone of the northwestern mediterranean sea

Author keywords

[No Author keywords available]

Indexed keywords

BATHYPELAGIC ZONE; CO-DEVELOPMENT; CORRELATION ANALYSIS; DEEP WATER; FIRMICUTES; GAMMAPROTEOBACTERIA; GENBANK; IN-SILICO; MANTEL TESTS; MEDITERRANEAN SEA; MESOPELAGIC; NORTHWESTERN MEDITERRANEAN SEA; RANDOMLY AMPLIFIED POLYMORPHIC DNA; RAPD-PCR; SIZE FRACTION; STUDY SITES; TEMPORAL DYNAMICS; VIRUS COMMUNITY; WATER COLUMNS;

EID: 77958540602     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.00531-10     Document Type: Article
Times cited : (18)

References (42)
  • 3
    • 0033754285 scopus 로고    scopus 로고
    • PCR bias in ecological analysis: A case study for quantitative taq nuclease assay in analysis of microbial communities
    • Becker, S., P. Böger, R. Oehlmann, and A. Ernst. 2000. PCR bias in ecological analysis: a case study for quantitative Taq nuclease assay in analysis of microbial communities. Appl. Environ. Microbiol. 66:4945-4953.
    • (2000) Appl. Environ. Microbiol , vol.66 , pp. 4945-4953
    • Becker, S.1    Böger, P.2    Oehlmann, R.3    Ernst, A.4
  • 5
    • 33846060282 scopus 로고    scopus 로고
    • Key role of selective viral-induced mortality in determining marine bacterial community composition
    • Bouvier, T., and P. A. del Giorgio. 2007. Key role of selective viral-induced mortality in determining marine bacterial community composition. Environ. Microbiol. 9:287-297.
    • (2007) Environ. Microbiol , vol.9 , pp. 287-297
    • Bouvier, T.1    Del Giorgio, P.A.2
  • 7
    • 1642386112 scopus 로고    scopus 로고
    • Optimization of procedures for counting viruses by flow cytometryf
    • Brussaard, C. P. D. 2004. Optimization of procedures for counting viruses by flow cytometry. Appl. Environ. Microbiol. 70:1506-1513.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 1506-1513
    • Brussaard, C.P.D.1
  • 8
    • 0029762609 scopus 로고    scopus 로고
    • Genetic diversity in marine algal virus communities as revealed by sequence analysis of DNA polymerase genes
    • Chen, F., C. A. Suttle, and S. M. Short. 1996. Genetic diversity in marine algal virus communities as revealed by sequence analysis of DNA polymerase genes. Appl. Environ. Microbiol. 62:2869-2874.
    • (1996) Appl. Environ. Microbiol , vol.62 , pp. 2869-2874
    • Chen, F.1    Suttle, C.A.2    Short, M.S.3
  • 9
    • 1842736168 scopus 로고    scopus 로고
    • The use of degenerateprimed random amplification of polymorphic DNA (DP-RAPD) for straintyping and inferring the genetic similarity among closely related viruses
    • Comeau, A. M., S. M. Short, and C. A. Suttle. 2004. The use of degenerateprimed random amplification of polymorphic DNA (DP-RAPD) for straintyping and inferring the genetic similarity among closely related viruses. J. Virol. Methods 118:95-100.
    • (2004) J. Virol. Methods , vol.118 , pp. 95-100
    • Comeau, A.M.1    Short, S.M.2    Suttle, C.A.3
  • 10
    • 0037388225 scopus 로고    scopus 로고
    • Understanding bias in microbial community analysis techniques due to rrn operon copy number heterogeneity
    • Crosby, L. D., and C. S. Criddle. 2003. Understanding bias in microbial community analysis techniques due to rrn operon copy number heterogeneity. Biotechniques 34:790-802.
    • (2003) Biotechniques , vol.34 , pp. 790-802
    • Crosby, L.D.1    Criddle, S.C.2
  • 11
    • 0042364932 scopus 로고    scopus 로고
    • High diversity of unknown picorna-like viruses in the sea
    • Culley, A. I., A. S. Lang, and C. A. Suttle. 2003. High diversity of unknown picorna-like viruses in the sea. Nature 424:1054-1057.
    • (2003) Nature , vol.424 , pp. 1054-1057
    • Culley, A.I.1    Lang, A.S.2    Suttle, C.A.3
  • 12
    • 0033542481 scopus 로고    scopus 로고
    • Marine viruses and their biogeochemical and ecological effects
    • Fuhrman, J. A. 1999. Marine viruses and their biogeochemical and ecological effects. Nature 399:541-548.
    • (1999) Nature , vol.399 , pp. 541-548
    • Fuhrman, J.A.1
  • 13
    • 64749087387 scopus 로고    scopus 로고
    • Seasonal dynamics and metagenomic characterization of estuarine viriobenthos assemblages by randomly amplified polymorphic DNA PCR
    • Helton, R. R., and K. E. Wommack. 2009. Seasonal dynamics and metagenomic characterization of estuarine viriobenthos assemblages by randomly amplified polymorphic DNA PCR. Appl. Environ. Microbiol. 75:2259-2265.
    • (2009) Appl. Environ. Microbiol , vol.75 , pp. 2259-2265
    • Helton, R.R.1    Wommack, E.K.2
  • 14
    • 35948993040 scopus 로고    scopus 로고
    • Large variabilities in host strain susceptibility and phage host range govern interactions between lytic marine phages and their Flavobacterium hosts
    • Holmfeldt, K., M. Middelboe, O. Nybroe, and L. Riemann. 2007. Large variabilities in host strain susceptibility and phage host range govern interactions between lytic marine phages and their Flavobacterium hosts. Appl. Environ. Microbiol. 73:6730-6739.
    • (2007) Appl. Environ. Microbiol , vol.73 , pp. 6730-6739
    • Holmfeldt, K.1    Middelboe, M.2    Nybroe, O.3    Riemann, L.4
  • 15
    • 1842457611 scopus 로고    scopus 로고
    • A simple remedy against artificial double bands in denaturing gradient gel electrophoresis
    • Janse, I., J. Bok, and G. Zwart. 2004. A simple remedy against artificial double bands in denaturing gradient gel electrophoresis. J. Microb. Methods 57:279-281.
    • (2004) J. Microb. Methods , vol.57 , pp. 279-281
    • Janse, I.1    Bok, J.2    Zwart, G.3
  • 16
    • 0034074410 scopus 로고    scopus 로고
    • RRNA operon copy number reflects ecological strategies of bacteria
    • Klappenbach, J. A., J. M. Dunbar, and T. M. Schmidt. 2000. rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66:1328-1333.
    • (2000) Appl. Environ. Microbiol , vol.66 , pp. 1328-1333
    • Klappenbach, J.A.1    Dunbar, J.M.2    Schmidt, T.M.3
  • 17
    • 0004170691 scopus 로고    scopus 로고
    • Developments in environmental modeling, 2nd ed. Elsevier Science B.V., Amsterdam, Netherlands
    • Legendre, P., and L. Legendre. 1998. Numerical ecology. Developments in environmental modeling, 2nd ed. Elsevier Science B.V., Amsterdam, Netherlands.
    • (1998) Numerical ecology
    • Legendre, P.1    Legendre, L.2
  • 18
    • 0014054519 scopus 로고
    • The detection of disease clustering and a generalized regression approach
    • Mantel, N. 1967. The detection of disease clustering and a generalized regression approach. Cancer Res. 27:209-220.
    • (1967) Cancer Res. , vol.27 , pp. 209-220
    • Mantel, N.1
  • 19
    • 0003244274 scopus 로고    scopus 로고
    • 11.1-11.11.15 In J. P. Robinson, Z. Darzynkiewicz, P. N. Dean, A. Orfao, P. S. Rabinovitch, C. C. Stewart, H. J. Tanke, and L. L. Wheeless (ed.) , Current protocols in cytometry. John Wiley & Sons, Inc., New York, NY
    • Marie, D., F. Partensky, D. Vaulot, and C. P. D. Brussaard. 1999. Enumeration of phytoplankton, bacteria, and viruses in marine samples, p. 11.11.1-11.11.15. In J. P. Robinson, Z. Darzynkiewicz, P. N. Dean, A. Orfao, P. S. Rabinovitch, C. C. Stewart, H. J. Tanke, and L. L. Wheeless (ed.), Current protocols in cytometry. John Wiley & Sons, Inc., New York, NY.
    • (1999) Enumeration of phytoplankton, bacteria, and viruses in marine samples , pp. 11
    • Marie, D.1    Partensky, F.2    Vaulot, V.3    Brussaard, C.P.D.4
  • 20
    • 0032812081 scopus 로고    scopus 로고
    • Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis
    • Moeseneder, M. M., J. M. Arrieta, G. Muyzer, C. Winter, and G. J. Herndl. 1999. Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 65: 3518-3525.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 3518-3525
    • Moeseneder, M.M.1    Arrieta, J.M.2    Muyzer, G.3    Winter, C.4    Herndl, G.J.5
  • 21
    • 0027010743 scopus 로고
    • Viral dynamics: A model of the effects of size, shape, motion and abundance of single-celled planktonic organisms and other particles
    • Murray, A. G., and G. A. Jackson. 1992. Viral dynamics: a model of the effects of size, shape, motion and abundance of single-celled planktonic organisms and other particles. Mar. Ecol. Prog. Ser. 89:103-116.
    • (1992) Mar. Ecol. Prog. Ser. , vol.89 , pp. 103-116
    • Murray, A.G.1    Jackson, G.A.2
  • 22
    • 55649105226 scopus 로고    scopus 로고
    • Physical and biological correlates of virus dynamics in the southern Beaufort Sea and Amundsen Gulf
    • Payet, J. P., and C. A. Suttle. 2008. Physical and biological correlates of virus dynamics in the southern Beaufort Sea and Amundsen Gulf. J. Mar. Sys. 74:933-945.
    • (2008) J. Mar. Sys. , vol.74 , pp. 933-945
    • Payet, J.P.1    Suttle, A.C.2
  • 24
    • 21344473000 scopus 로고    scopus 로고
    • Predation on prokaryotes in the water column and its ecological implications
    • Pernthaler, J. 2005. Predation on prokaryotes in the water column and its ecological implications. Nat. Rev. Microbiol. 3:537-546.
    • (2005) Nat. Rev. Microbiol , vol.3 , pp. 537-546
    • Pernthaler, J.1
  • 25
    • 0031711754 scopus 로고    scopus 로고
    • Bias in template-to-product ratios in multitemplate PCR
    • Polz, M. F., and C. M. Cavanaugh. 1998. Bias in template-to-product ratios in multitemplate PCR. Appl. Environ. Microbiol. 64:3724-3730.
    • (1998) Appl. Environ. Microbiol , vol.64 , pp. 3724-3730
    • Polz, M.F.1    Cavanaugh, C.M.2
  • 26
    • 4143099227 scopus 로고    scopus 로고
    • Viral effects on bacterial community composition in marine plankton microcosms
    • Schwalbach, M. S., I. Hewson, and J. A. Fuhrman. 2004. Viral effects on bacterial community composition in marine plankton microcosms. Aquat. Microb. Ecol. 34:117-127.
    • (2004) Aquat. Microb. Ecol. , vol.34 , pp. 117-127
    • Schwalbach, M.S.1    Hewson, I.2    Fuhrman, J.A.3
  • 27
    • 0033988808 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis resolves virus sequences amplified with degenerate primers
    • Short, S. M., and C. A. Suttle. 2000. Denaturing gradient gel electrophoresis resolves virus sequences amplified with degenerate primers. Biotechniques 28:20-26.
    • (2000) Biotechniques , vol.28 , pp. 20-26
    • Short, S.M.1    Suttle, C.A.2
  • 29
    • 25144506135 scopus 로고    scopus 로고
    • Viruses in the sea
    • Suttle, C. A. 2005. Viruses in the sea. Nature 437:356-361.
    • (2005) Nature , vol.437 , pp. 356-361
    • Suttle, C.A.1
  • 30
    • 0030067991 scopus 로고    scopus 로고
    • Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR
    • Suzuki, M. T., and S. J. Giovannoni. 1996. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl. Environ. Microbiol. 62:625-630.
    • (1996) Appl. Environ. Microbiol , vol.62 , pp. 625-630
    • Suzuki, M.T.1    Giovannoni, S.J.2
  • 31
    • 0036273581 scopus 로고    scopus 로고
    • Full-depth profile (0-2000m) of bacteria, heterotrophic nanoflagellates and ciliates in the NW Mediterranean Sea: Vertical partitioning of microbe trophic structures
    • Tanaka, T., and F. Rassoulzadegan. 2002. Full-depth profile (0-2000m) of bacteria, heterotrophic nanoflagellates and ciliates in the NW Mediterranean Sea: vertical partitioning of microbe trophic structures. Deep Sea Res. II 49:2093-2107.
    • (2002) Deep Sea Res. II , vol.49 , pp. 2093-2107
    • Tanaka, T.1    Rassoulzadegan, F.2
  • 32
    • 0033826796 scopus 로고    scopus 로고
    • Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems
    • Thingstad, T. F. 2000. Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems. Limnol. Oceanogr. 45:1320-1328.
    • (2000) Limnol. Oceanogr , vol.45 , pp. 1320-1328
    • Thingstad, T.F.1
  • 33
    • 0002058563 scopus 로고    scopus 로고
    • Theoretical models for the control of bacterial growth rate, abundance, diversity and carbon demand
    • Thingstad, T. F., and R. Lignell. 1997. Theoretical models for the control of bacterial growth rate, abundance, diversity and carbon demand. Aquat. Microb. Ecol. 13:19-27.
    • (1997) Aquat. Microb. Ecol. , vol.13 , pp. 19-27
    • Thingstad, T.F.1    Lignell, R.2
  • 34
    • 66149117853 scopus 로고    scopus 로고
    • Enhanced viral production and infection of bacterioplankton during an ironinduced phytoplankton bloom in the Southern Ocean
    • Weinbauer, M. G., J.-M. Arrieta, C. Griebler, and G. J. Herndl. 2009. Enhanced viral production and infection of bacterioplankton during an ironinduced phytoplankton bloom in the Southern Ocean. Limnol. Oceanogr. 54:774-784.
    • (2009) Limnol. Oceanogr , vol.54 , pp. 774-784
    • Weinbauer, M.G.1    Arrieta, J.-M.2    Griebler, C.3    Herndl, G.J.4
  • 35
    • 0032858844 scopus 로고    scopus 로고
    • Viruses and nutrient cycles in the sea
    • Wilhelm, S. W., and C. A. Suttle. 1999. Viruses and nutrient cycles in the sea. Bioscience 49:781-788.
    • (1999) Bioscience , vol.49 , pp. 781-788
    • Wilhelm, S.W.1    Suttle, C.A.2
  • 37
    • 43049113858 scopus 로고    scopus 로고
    • Randomly amplified polymorphic DNA PCR as a tool for assessment of marine viral richness
    • Winget, D. M., and K. E. Wommack. 2008. Randomly amplified polymorphic DNA PCR as a tool for assessment of marine viral richness. Appl. Environ. Microbiol. 74:2612-2618.
    • (2008) Appl. Environ. Microbiol , vol.74 , pp. 2612-2618
    • Winget, D.M.1    Wommack, K.E.2
  • 38
    • 77749309301 scopus 로고    scopus 로고
    • Tradeoffs between competition and defense specialists among unicellular planktonic organisms: The "killing the winner" Hypothesis Revisited
    • Winter, C., T. Bouvier, M. G. Weinbauer, and T. F. Thingstad. 2010. Tradeoffs between competition and defense specialists 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
  • 39
    • 61649094707 scopus 로고    scopus 로고
    • Seasonal changes of bacterial and archaeal communities in the dark ocean: Evidence from the Mediterranean Sea
    • Winter, C., M.-E. Kerros, and M. G. Weinbauer. 2009. Seasonal changes of bacterial and archaeal communities in the dark ocean: evidence from the Mediterranean Sea. Limnol. Oceanogr. 54:160-170.
    • (2009) Limnol. Oceanogr , vol.54 , pp. 160-170
    • Winter, C.1    Kerros, M.-E.2    Weinbauer, M.G.3
  • 40
    • 71749111285 scopus 로고    scopus 로고
    • Seasonal and depthrelated dynamics of prokaryotes and viruses in surface and deep waters of the northwestern Mediterranean Sea
    • Winter, C., M. E. Kerros, and M. G. Weinbauer. 2009. Seasonal and depthrelated dynamics of prokaryotes and viruses in surface and deep waters of the northwestern Mediterranean Sea. Deep Sea Res. I 56:1972-1982.
    • (2009) Deep Sea Res. I , vol.56 , pp. 1972-1982
    • Winter, C.1    Kerros, M.E.2    Weinbauer, M.G.3
  • 41
    • 2342579410 scopus 로고    scopus 로고
    • Impact of virioplankton on archaeal and bacterial community richness as assessed in seawater batch cultures
    • Winter, C., A. Smit, G. J. Herndl, and M. G. Weinbauer. 2004. Impact of virioplankton on archaeal and bacterial community richness as assessed in seawater batch cultures. Appl. Environ. Microbiol. 70:804-813.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 804-813
    • Winter, C.1    Smit, A.2    Herndl, G.J.3    Weinbauer, M.G.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.