-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. Lipman, D.J. (1990) Basic local alignment search tool. J Mol Biol 215 : 403 410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W. Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25 : 3389 3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
3
-
-
19144363310
-
PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information
-
Angly, F., Rodriguez-Brito, B., Bangor, D., McNairnie, P., Breitbart, M., Salamon, P., et al. (2005) PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information. BMC Bioinformatics 6 : 41.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 41
-
-
Angly, F.1
Rodriguez-Brito, B.2
Bangor, D.3
McNairnie, P.4
Breitbart, M.5
Salamon, P.6
-
4
-
-
33751059692
-
The marine viromes of four oceanic regions
-
Angly, F.E., Felts, B., Breitbart, M., Salamon, P., Edwards, R.A., Carlson, C., et al. (2006) The marine viromes of four oceanic regions. PLoS Biol 4 : e368.
-
(2006)
PLoS Biol
, vol.4
-
-
Angly, F.E.1
Felts, B.2
Breitbart, M.3
Salamon, P.4
Edwards, R.A.5
Carlson, C.6
-
5
-
-
0032542220
-
Bacterial suspension feeding by coral reef benthic organisms
-
Bak, R., Joenje, M., de Jong, I., Lambrechts, D. Nieuwland, G. (1998) Bacterial suspension feeding by coral reef benthic organisms. Mar Ecol Prog Ser 175 : 285 288.
-
(1998)
Mar Ecol Prog Ser
, vol.175
, pp. 285-288
-
-
Bak, R.1
Joenje, M.2
De Jong, I.3
Lambrechts, D.4
Nieuwland, G.5
-
6
-
-
0037478769
-
Temperature-regulated bleaching and lysis of the coral Pocillopora damicornis by the novel pathogen Vibrio coralliilyticus
-
Ben-Haim, Y., Zicherman-Keren, M. Rosenberg, E. (2003) Temperature-regulated bleaching and lysis of the coral Pocillopora damicornis by the novel pathogen Vibrio coralliilyticus. Appl Environ Microbiol 69 : 4236 4242.
-
(2003)
Appl Environ Microbiol
, vol.69
, pp. 4236-4242
-
-
Ben-Haim, Y.1
Zicherman-Keren, M.2
Rosenberg, E.3
-
7
-
-
33644873469
-
Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing
-
Breitbart, M. Rohwer, F. (2005) Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing. Biotechniques 39 : 729 736.
-
(2005)
Biotechniques
, vol.39
, pp. 729-736
-
-
Breitbart, M.1
Rohwer, F.2
-
8
-
-
0037195156
-
Genomic analysis of uncultured marine viral communities
-
Breitbart, M., Salamon, P., Andresen, B., Mahaffy, J.M., Segall, A.M., Mead, D., et al. (2002) Genomic analysis of uncultured marine viral communities. P Natl Acad Sci USA 99 : 14250 14255.
-
(2002)
P Natl Acad Sci USA
, vol.99
, pp. 14250-14255
-
-
Breitbart, M.1
Salamon, P.2
Andresen, B.3
Mahaffy, J.M.4
Segall, A.M.5
Mead, D.6
-
9
-
-
0141891348
-
Metagenomic analyses of an uncultured viral community from human feces
-
Breitbart, M., Hewson, I., Felts, B., Mahaffy, J.M., Nulton, J., Salamon, P. Rohwer, F. (2003) Metagenomic analyses of an uncultured viral community from human feces. J Bacteriol 185 : 6220 6223.
-
(2003)
J Bacteriol
, vol.185
, pp. 6220-6223
-
-
Breitbart, M.1
Hewson, I.2
Felts, B.3
Mahaffy, J.M.4
Nulton, J.5
Salamon, P.6
Rohwer, F.7
-
10
-
-
1642363900
-
Diversity and population structure of a nearshore marine sediment viral community
-
Breitbart, M., Felts, B., Kelley, S., Mahaffy, J., Nulton, J., Salamon, P. Rohwer, F. (2004) Diversity and population structure of a nearshore marine sediment viral community. Philos Trans R Soc Lond B Biol Sci 271 : 565 574.
-
(2004)
Philos Trans R Soc Lond B Biol Sci
, vol.271
, pp. 565-574
-
-
Breitbart, M.1
Felts, B.2
Kelley, S.3
Mahaffy, J.4
Nulton, J.5
Salamon, P.6
Rohwer, F.7
-
11
-
-
2642524016
-
-
New York, USA; Berlin, Germany: Springer-Verlag.
-
Buddemeier, R.W., Baker, A.C., Fautin, D.G. Jacobs, J.R. (2004) The Adaptive Hypothesis of Bleaching. New York, USA; Berlin, Germany : Springer-Verlag.
-
(2004)
The Adaptive Hypothesis of Bleaching.
-
-
Buddemeier, R.W.1
Baker, A.C.2
Fautin, D.G.3
Jacobs, J.R.4
-
12
-
-
0002160694
-
Cnidarian histology
-
In. Lenhoff, H.M. Muscatine, L. (eds). New York, USA: Academic Press, pp.
-
Chapman, D.M. (1974) Cnidarian histology. In Coelenterate Biology. Lenhoff, H.M. Muscatine, L. (eds). New York, USA : Academic Press, pp. 1 92.
-
(1974)
Coelenterate Biology.
, pp. 1-92
-
-
Chapman, D.M.1
-
13
-
-
33646247846
-
Viruses: Agents of coral disease?
-
Davy, S.K., Burchett, S.G., Dale, A.L., Davies, P., Davy, J.E., Muncke, C., et al. (2006) Viruses: agents of coral disease? Dis Aquat Organ 69 : 101 110.
-
(2006)
Dis Aquat Organ
, vol.69
, pp. 101-110
-
-
Davy, S.K.1
Burchett, S.G.2
Dale, A.L.3
Davies, P.4
Davy, J.E.5
Muncke, C.6
-
14
-
-
33947664968
-
Phage therapy of coral disease
-
Efrony, R., Loya, Y., Bacharach, E. Rosenberg, E. (2007) Phage therapy of coral disease. Coral Reefs 26 : 7 13.
-
(2007)
Coral Reefs
, vol.26
, pp. 7-13
-
-
Efrony, R.1
Loya, Y.2
Bacharach, E.3
Rosenberg, E.4
-
15
-
-
0031978181
-
Base-calling of automated sequencer traces using phred. II. Error probabilities
-
Ewing, B. Green, P. (1998) Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res 8 : 186 194.
-
(1998)
Genome Res
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
16
-
-
0031955518
-
Base-calling of automated sequencer traces using phred. I. Accuracy assessment
-
Ewing, B., Hillier, L., Wendl, M.C. Green, P. (1998) Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res 8 : 175 185.
-
(1998)
Genome Res
, vol.8
, pp. 175-185
-
-
Ewing, B.1
Hillier, L.2
Wendl, M.C.3
Green, P.4
-
17
-
-
69249118591
-
Metagenomic and small-subunit rRNA analyses of the genetic diversity of bacteria, archaea, fungi, and viruses in soil
-
Fierer, N., Breitbart, M., Nulton, J., Salamon, P., Lozupone, C., Jones, R., et al. (2007) Metagenomic and small-subunit rRNA analyses of the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Appl Environ Microbiol 73 : 7059 7066.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 7059-7066
-
-
Fierer, N.1
Breitbart, M.2
Nulton, J.3
Salamon, P.4
Lozupone, C.5
Jones, R.6
-
18
-
-
0036253488
-
Partitioning of bacterial communities between seawater and healthy, black band diseased, and dead coral surfaces
-
Frias-Lopez, J., Zerkle, A.L., Bonheyo, G.T. Fouke, B.W. (2002) Partitioning of bacterial communities between seawater and healthy, black band diseased, and dead coral surfaces. Appl Environ Microbiol 68 : 2214 2228.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 2214-2228
-
-
Frias-Lopez, J.1
Zerkle, A.L.2
Bonheyo, G.T.3
Fouke, B.W.4
-
19
-
-
33749599545
-
Most corals may not change their symbionts
-
Goulet, T.L. (2006) Most corals may not change their symbionts. Mar Ecol Prog Ser 321 : 1 7.
-
(2006)
Mar Ecol Prog Ser
, vol.321
, pp. 1-7
-
-
Goulet, T.L.1
-
20
-
-
0006479633
-
-
[WWW document]. URL
-
Green, P. (1994) Phrap-phragment assembly program. [WWW document]. URL http://www.genome.washington.edu/UWGC/analysistools/Phrap.cfm
-
(1994)
Phrap-phragment Assembly Program
-
-
Green, P.1
-
21
-
-
0242709343
-
Multispecies microbial mutualisms on coral reefs: The host as a habitat
-
Knowlton, N. Rohwer, F. (2003) Multispecies microbial mutualisms on coral reefs: the host as a habitat. Am Nat 162 : S51 S62.
-
(2003)
Am Nat
, vol.162
-
-
Knowlton, N.1
Rohwer, F.2
-
22
-
-
0034922401
-
Vibrio shiloi sp. nov., the causative agent of bleaching of the coral Oculina patagonica
-
Kushmaro, A., Banin, E., Loya, Y., Stackebrandt, E. Rosenberg, E. (2001) Vibrio shiloi sp. nov., the causative agent of bleaching of the coral Oculina patagonica. Int J Syst Evol Microbiol 51 : 1383 1388.
-
(2001)
Int J Syst Evol Microbiol
, vol.51
, pp. 1383-1388
-
-
Kushmaro, A.1
Banin, E.2
Loya, Y.3
Stackebrandt, E.4
Rosenberg, E.5
-
23
-
-
4043135983
-
Discovery of symbiotic nitrogen-fixing cyanobacteria in corals
-
Lesser, M.P., Mazel, C.H., Gorbunov, M.Y. Falkowski, P.G. (2004) Discovery of symbiotic nitrogen-fixing cyanobacteria in corals. Science 305 : 997 1000.
-
(2004)
Science
, vol.305
, pp. 997-1000
-
-
Lesser, M.P.1
Mazel, C.H.2
Gorbunov, M.Y.3
Falkowski, P.G.4
-
24
-
-
35748941243
-
Nitrogen fixation by symbiotic cyanobacteria provides a source of nitrogen for the scleractinian coral Montastraea cavernosa
-
Lesser, M.P., Falcón, L.I., Rodriguez-Román, A., Enriquez, S., Hoegh-Guldberg, O. Iglesias-Prieto, R. (2007) Nitrogen fixation by symbiotic cyanobacteria provides a source of nitrogen for the scleractinian coral Montastraea cavernosa. Mar Ecol Prog Ser 346 : 143 152.
-
(2007)
Mar Ecol Prog Ser
, vol.346
, pp. 143-152
-
-
Lesser, M.P.1
Falcón, L.I.2
Rodriguez-Román, A.3
Enriquez, S.4
Hoegh-Guldberg, O.5
Iglesias-Prieto, R.6
-
25
-
-
34248159333
-
Characterization of a latent virus-like infection of symbiotic zooxanthellae
-
Lohr, J., Munn, C.B. Wilson, W.H. (2007) Characterization of a latent virus-like infection of symbiotic zooxanthellae. Appl Environ Microbiol 73 : 2976 2981.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 2976-2981
-
-
Lohr, J.1
Munn, C.B.2
Wilson, W.H.3
-
26
-
-
29144464937
-
UniFrac: A new phylogenetic method for comparing microbial communities
-
Lozupone, C. Knight, R. (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 71 : 8228 8235.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 8228-8235
-
-
Lozupone, C.1
Knight, R.2
-
27
-
-
33748713890
-
UniFrac - An online tool for comparing microbial community diversity in a phylogenetic context
-
Lozupone, C., Hamady, M. Knight, R. (2006) UniFrac - an online tool for comparing microbial community diversity in a phylogenetic context. BMC Bioinformatics 7 : 371.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 371
-
-
Lozupone, C.1
Hamady, M.2
Knight, R.3
-
28
-
-
33645054794
-
Topics in herpesvirus genomics and evolution
-
McGeoch, D.J., Rixon, F.J. Davison, A.J. (2006) Topics in herpesvirus genomics and evolution. Virus Res 117 : 90 104.
-
(2006)
Virus Res
, vol.117
, pp. 90-104
-
-
McGeoch, D.J.1
Rixon, F.J.2
Davison, A.J.3
-
29
-
-
28044435355
-
The players in a mutualistic symbiosis: Insects, bacteria, viruses, and virulence genes
-
Moran, N.A., Degnan, P.H., Santos, S.R., Dunbar, H.E. Ochman, H. (2005) The players in a mutualistic symbiosis: insects, bacteria, viruses, and virulence genes. Proc Natl Acad Sci USA 102 : 16919 16926.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 16919-16926
-
-
Moran, N.A.1
Degnan, P.H.2
Santos, S.R.3
Dunbar, H.E.4
Ochman, H.5
-
30
-
-
2342535027
-
Using the TIGR assembler in shotgun sequencing projects
-
Pop, M. Kosack, D. (2004) Using the TIGR assembler in shotgun sequencing projects. Methods Mol Biol 255 : 279 294.
-
(2004)
Methods Mol Biol
, vol.255
, pp. 279-294
-
-
Pop, M.1
Kosack, D.2
-
31
-
-
33750914850
-
The coral probiotic hypothesis
-
Reshef, L., Koren, O., Loya, Y., Zilber-Rosenberg, I. Rosenberg, E. (2006) The coral probiotic hypothesis. Environ Microbiol 8 : 2068 2073.
-
(2006)
Environ Microbiol
, vol.8
, pp. 2068-2073
-
-
Reshef, L.1
Koren, O.2
Loya, Y.3
Zilber-Rosenberg, I.4
Rosenberg, E.5
-
32
-
-
33750201132
-
Regulation of microbial populations by coral surface mucus and mucus-associated bacteria
-
Ritchie, K.B. (2006) Regulation of microbial populations by coral surface mucus and mucus-associated bacteria. Mar Ecol Prog Ser 322 : 1 14.
-
(2006)
Mar Ecol Prog Ser
, vol.322
, pp. 1-14
-
-
Ritchie, K.B.1
-
33
-
-
0036330981
-
The phage proteomic tree: A genome based taxonomy for phage
-
Rohwer, F. Edwards, R. (2002) The phage proteomic tree: a genome based taxonomy for phage. J Bacteriol 184 : 4529 4535.
-
(2002)
J Bacteriol
, vol.184
, pp. 4529-4535
-
-
Rohwer, F.1
Edwards, R.2
-
34
-
-
0034947811
-
Production of shotgun libraries using random amplification
-
Rohwer, F., Seguritan, V., Choi, D.H., Segall, A.M. Azam, F. (2001a) Production of shotgun libraries using random amplification. Biotechniques 31 : 108 118.
-
(2001)
Biotechniques
, vol.31
, pp. 108-118
-
-
Rohwer, F.1
Seguritan, V.2
Choi, D.H.3
Segall, A.M.4
Azam, F.5
-
35
-
-
0034890481
-
Diversity of bacteria associated with the Caribbean coral Montastraea franksi
-
Rohwer, F., Breitbart, M., Jara, J., Azam, F. Knowlton, N. (2001b) Diversity of bacteria associated with the Caribbean coral Montastraea franksi. Coral Reefs 20 : 85 91.
-
(2001)
Coral Reefs
, vol.20
, pp. 85-91
-
-
Rohwer, F.1
Breitbart, M.2
Jara, J.3
Azam, F.4
Knowlton, N.5
-
36
-
-
0037073391
-
Diversity and distribution of coral-associated bacteria
-
Rohwer, F., Seguritan, V., Azam, F. Knowlton, N. (2002) Diversity and distribution of coral-associated bacteria. Mar Ecol Prog Ser 243 : 1 10.
-
(2002)
Mar Ecol Prog Ser
, vol.243
, pp. 1-10
-
-
Rohwer, F.1
Seguritan, V.2
Azam, F.3
Knowlton, N.4
-
38
-
-
0028160388
-
Nitrogen fixation (acetylene reduction) in stony corals: Evidence for coral-bacteria interactions
-
Shashar, N., Cohen, Y., Loya, Y. Sar, N. (1994) Nitrogen fixation (acetylene reduction) in stony corals: evidence for coral-bacteria interactions. Mar Ecol Prog Ser 111 : 259 264.
-
(1994)
Mar Ecol Prog Ser
, vol.111
, pp. 259-264
-
-
Shashar, N.1
Cohen, Y.2
Loya, Y.3
Sar, N.4
-
39
-
-
0000595591
-
Trophical role of bacteria in the ecosystem of the coral reef
-
Sorokin, Y.I. (1973) Trophical role of bacteria in the ecosystem of the coral reef. Nature 242 : 415 417.
-
(1973)
Nature
, vol.242
, pp. 415-417
-
-
Sorokin, Y.I.1
-
40
-
-
0034517760
-
Genome size distributions indicate variability and similarities among marine viral assemblages from diverse environments
-
Steward, G., Montiel, J. Azam, F. (2000) Genome size distributions indicate variability and similarities among marine viral assemblages from diverse environments. Limnol Oceanogr 45 : 1697 1706.
-
(2000)
Limnol Oceanogr
, vol.45
, pp. 1697-1706
-
-
Steward, G.1
Montiel, J.2
Azam, F.3
-
41
-
-
33747369803
-
Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts
-
Sullivan, M.B., Lindell, D., Lee, J.A., Thompson, L.R., Bielawski, J.P. Chisholm, S.W. (2006) Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. PLoS Biol 4 : e234.
-
(2006)
PLoS Biol
, vol.4
-
-
Sullivan, M.B.1
Lindell, D.2
Lee, J.A.3
Thompson, L.R.4
Bielawski, J.P.5
Chisholm, S.W.6
-
42
-
-
0000874527
-
Viruses of symbiotic Chlorella-like algae isolated from Paramecium bursaria and Hydra viridis
-
Van Etten, J.L., Meints, R.H., Kuczmarski, D., Burbank, D.E. Lee, K. (1982) Viruses of symbiotic Chlorella-like algae isolated from Paramecium bursaria and Hydra viridis. Proc Natl Acad Sci USA 79 : 3867 3871.
-
(1982)
Proc Natl Acad Sci USA
, vol.79
, pp. 3867-3871
-
-
Van Etten, J.L.1
Meints, R.H.2
Kuczmarski, D.3
Burbank, D.E.4
Lee, K.5
-
43
-
-
34347333267
-
Virus-host symbiosis mediated by persistence
-
Villarreal, L.P. (2007) Virus-host symbiosis mediated by persistence. Symbiosis 44 : 1 9.
-
(2007)
Symbiosis
, vol.44
, pp. 1-9
-
-
Villarreal, L.P.1
-
44
-
-
0033768655
-
HOLINS: The protein clocks of bacteriophage infections
-
Wang, I., Smith, D. Young, R. (2000) HOLINS: the protein clocks of bacteriophage infections. Annu Rev Microbiol 54 : 799 825.
-
(2000)
Annu Rev Microbiol
, vol.54
, pp. 799-825
-
-
Wang, I.1
Smith, D.2
Young, R.3
-
45
-
-
0019248608
-
Modified bases in bacteriophage DNAs
-
Warren, R. (1980) Modified bases in bacteriophage DNAs. Annu Rev Microbiol 34 : 137 158.
-
(1980)
Annu Rev Microbiol
, vol.34
, pp. 137-158
-
-
Warren, R.1
-
46
-
-
3042805387
-
Coral-associated archaea
-
Wegley, L., Yu, Y.N., Breitbart, M., Casas, V., Kline, D.I. Rohwer, F. (2004) Coral-associated archaea. Mar Ecol Prog Ser 273 : 89 96.
-
(2004)
Mar Ecol Prog Ser
, vol.273
, pp. 89-96
-
-
Wegley, L.1
Yu, Y.N.2
Breitbart, M.3
Casas, V.4
Kline, D.I.5
Rohwer, F.6
-
47
-
-
0028247937
-
Bacterial viruses in coastal seawater: Lytic rather than lysogenic production
-
Wilcox, R.M. Fuhrman, J.A. (1994) Bacterial viruses in coastal seawater: lytic rather than lysogenic production. Mar Ecol Prog Ser 114 : 35 45.
-
(1994)
Mar Ecol Prog Ser
, vol.114
, pp. 35-45
-
-
Wilcox, R.M.1
Fuhrman, J.A.2
-
48
-
-
0035212259
-
Observation of virus-like particles in thin sections of the plumose anemone, Metridium senile
-
Wilson, W.H. Chapman, D.M. (2001) Observation of virus-like particles in thin sections of the plumose anemone, Metridium senile. J Mar Biol Assoc UK 81 : 879 880.
-
(2001)
J Mar Biol Assoc UK
, vol.81
, pp. 879-880
-
-
Wilson, W.H.1
Chapman, D.M.2
-
49
-
-
17044398985
-
An enemy within? Observations of virus-like particles in reef corals
-
Wilson, W.H., Dale, A.L., Davy, J.E. Davy, S.K. (2005) An enemy within? Observations of virus-like particles in reef corals. Coral Reefs 24 : 145 148.
-
(2005)
Coral Reefs
, vol.24
, pp. 145-148
-
-
Wilson, W.H.1
Dale, A.L.2
Davy, J.E.3
Davy, S.K.4
-
50
-
-
33644606606
-
FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries
-
Yu, Y.N., Breitbart, M., McNairnie, P. Rohwer, F. (2006) FastGroupII: a web-based bioinformatics platform for analyses of large 16S rDNA libraries. BMC Bioinformatics 7 : 57.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 57
-
-
Yu, Y.N.1
Breitbart, M.2
McNairnie, P.3
Rohwer, F.4
-
51
-
-
31144459030
-
RNA viral community in human feces: Prevalence of plant pathogenic viruses
-
Zhang, T., Breitbart, M., Lee, W.H., Run, J.Q., Wei, C.L., Soh, S.W.L., et al. (2006) RNA viral community in human feces: prevalence of plant pathogenic viruses. PloS Biol 4 : 108 118.
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(2006)
PloS Biol
, vol.4
, pp. 108-118
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Zhang, T.1
Breitbart, M.2
Lee, W.H.3
Run, J.Q.4
Wei, C.L.5
Soh, S.W.L.6
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