-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
COI: 1:CAS:528:DyaK2sXlvFyhu7w%3D, PID: 9254694
-
Altschul SF, Madden TL, Schaffer AA, Zhang JH, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acid Res 25:3389–3402
-
(1997)
Nucleic Acid Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.H.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
2
-
-
33751059692
-
The marine viromes of four oceanic regions
-
COI: 1:CAS:528:DC%2BD28XhtlenurvE
-
Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, Carlson C, Chan AM, Haynes M, Kelley S, Liu H, Mahaffy JM, Mueller JE, Nulton J, Olson R, Parsons R, Rayhawk S, Suttle CA, Rohwer F (2006) The marine viromes of four oceanic regions. PLoS Biol 4:2121–2131
-
(2006)
PLoS Biol
, vol.4
, pp. 2121-2131
-
-
Angly, F.E.1
Felts, B.2
Breitbart, M.3
Salamon, P.4
Edwards, R.A.5
Carlson, C.6
Chan, A.M.7
Haynes, M.8
Kelley, S.9
Liu, H.10
Mahaffy, J.M.11
Mueller, J.E.12
Nulton, J.13
Olson, R.14
Parsons, R.15
Rayhawk, S.16
Suttle, C.A.17
Rohwer, F.18
-
3
-
-
34547513507
-
Phylogenetic and physiological diversity of cultured deep-biosphere bacteria from equatorial Pacific Ocean and Peru Margin sediments
-
COI: 1:CAS:528:DC%2BD2sXotV2rurw%3D
-
Batzke A, Engelen B, Sass H, Cypionka H (2007) Phylogenetic and physiological diversity of cultured deep-biosphere bacteria from equatorial Pacific Ocean and Peru Margin sediments. Geomicrobiol J 24:261–273
-
(2007)
Geomicrobiol J
, vol.24
, pp. 261-273
-
-
Batzke, A.1
Engelen, B.2
Sass, H.3
Cypionka, H.4
-
4
-
-
0035875343
-
GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions
-
COI: 1:CAS:528:DC%2BD3MXltlOqtr0%3D, PID: 11410670
-
Besemer J, Lomsadze A, Borodovsky M (2001) GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 29:2607–2618
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2607-2618
-
-
Besemer, J.1
Lomsadze, A.2
Borodovsky, M.3
-
5
-
-
33846060282
-
Key role of selective viral-induced mortality in determining marine bacterial community composition
-
COI: 1:STN:280:DC%2BD2s%2FisV2ruw%3D%3D, PID: 17222128
-
Bouvier T, del Giorgio PA (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
-
6
-
-
0038724281
-
Prophage genomics
-
COI: 1:CAS:528:DC%2BD3sXlsVeht7k%3D, PID: 12794192
-
Canchaya C, Proux C, Fournous G, Bruttin A, Brüssow H (2003) Prophage genomics. Microbiol Mol Biol Rev 67:238–276
-
(2003)
Microbiol Mol Biol Rev
, vol.67
, pp. 238-276
-
-
Canchaya, C.1
Proux, C.2
Fournous, G.3
Bruttin, A.4
Brüssow, H.5
-
7
-
-
33847662974
-
Phage metagenomics
-
COI: 1:CAS:528:DC%2BD2sXmtV2murY%3D, PID: 17352928
-
Casas V, Rohwer F (2007) Phage metagenomics. Methods Enzymol 421:259–268
-
(2007)
Methods Enzymol
, vol.421
, pp. 259-268
-
-
Casas, V.1
Rohwer, F.2
-
8
-
-
22544441328
-
Comparative genomics and evolution of the tailed bacteriophages
-
COI: 1:CAS:528:DC%2BD2MXmvVCmsL0%3D, PID: 16019256
-
Casjens SR (2005) Comparative genomics and evolution of the tailed bacteriophages. Curr Opin Microbiol 8:451–458
-
(2005)
Curr Opin Microbiol
, vol.8
, pp. 451-458
-
-
Casjens, S.R.1
-
9
-
-
49149101876
-
Diversity among the tailed-bacteriophages that infect the Enterobacteriaceae
-
COI: 1:CAS:528:DC%2BD1cXhtVSiu77F, PID: 18550341
-
Casjens SR (2008) Diversity among the tailed-bacteriophages that infect the Enterobacteriaceae. Res Microbiol 159:340–348
-
(2008)
Res Microbiol
, vol.159
, pp. 340-348
-
-
Casjens, S.R.1
-
10
-
-
19944434101
-
The generalized transducing Salmonella bacteriophage ES18: complete genome sequence and DNA packaging strategy
-
COI: 1:CAS:528:DC%2BD2MXhtFyisbs%3D, PID: 15659686
-
Casjens SR, Gilcrease EB, Winn-Stapley DA, Schicklmaier P, Schmieger H, Pedulla ML, Ford ME, Houtz JM, Hatfull GF, Hendrix RW (2005) The generalized transducing Salmonella bacteriophage ES18: complete genome sequence and DNA packaging strategy. J Bacteriol 187:1091–1104
-
(2005)
J Bacteriol
, vol.187
, pp. 1091-1104
-
-
Casjens, S.R.1
Gilcrease, E.B.2
Winn-Stapley, D.A.3
Schicklmaier, P.4
Schmieger, H.5
Pedulla, M.L.6
Ford, M.E.7
Houtz, J.M.8
Hatfull, G.F.9
Hendrix, R.W.10
-
11
-
-
33746039308
-
Induction of multiple prophages from a marine bacterium: a genomic approach
-
COI: 1:CAS:528:DC%2BD28XnsVaqt7k%3D, PID: 16820498
-
Chen F, Wang K, Stewart J, Belas R (2006) Induction of multiple prophages from a marine bacterium: a genomic approach. Appl Environ Microbiol 72:4995–5001
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 4995-5001
-
-
Chen, F.1
Wang, K.2
Stewart, J.3
Belas, R.4
-
12
-
-
50649125565
-
Major viral impact on the functioning of benthic deep-sea ecosystems
-
COI: 1:CAS:528:DC%2BD1cXhtVGgsbfF, PID: 18756250
-
Danovaro R, Dell’Anno A, Corinaldesi C, Magagnini M, Noble R, Tamburini C, Weinbauer M (2008) Major viral impact on the functioning of benthic deep-sea ecosystems. Nature 454:1084–1087
-
(2008)
Nature
, vol.454
, pp. 1084-1087
-
-
Danovaro, R.1
Dell’Anno, A.2
Corinaldesi, C.3
Magagnini, M.4
Noble, R.5
Tamburini, C.6
Weinbauer, M.7
-
13
-
-
0033485517
-
Improved microbial gene identification with GLIMMER
-
COI: 1:CAS:528:DyaK1MXnvVanu7o%3D, PID: 10556321
-
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL (1999) Improved microbial gene identification with GLIMMER. Nucleic Acids Res 27:4636–4641
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 4636-4641
-
-
Delcher, A.L.1
Harmon, D.2
Kasif, S.3
White, O.4
Salzberg, S.L.5
-
14
-
-
0026755238
-
Archaea in coastal marine environments
-
COI: 1:CAS:528:DyaK38Xks1Kntrs%3D, PID: 1608980
-
Delong EF (1992) Archaea in coastal marine environments. Proc Natl Acad Sci USA 89:5685–5689
-
(1992)
Proc Natl Acad Sci USA
, vol.89
, pp. 5685-5689
-
-
Delong, E.F.1
-
15
-
-
0042812185
-
Aurantimonas coralicida gen. nov., sp. nov., the causative agent of white plague type II on Caribbean scleractinian corals
-
COI: 1:CAS:528:DC%2BD3sXmsF2it7o%3D, PID: 12892136
-
Denner EBM, Smith G, Busse H-J, Schumann P, Narzt T, Polson SW, Lubitz W, Richardson LL (2003) Aurantimonas coralicida gen. nov., sp. nov., the causative agent of white plague type II on Caribbean scleractinian corals. Int J Syst Evol Microbiol 53:1115–1122
-
(2003)
Int J Syst Evol Microbiol
, vol.53
, pp. 1115-1122
-
-
Denner, E.B.M.1
Smith, G.2
Busse, H.-J.3
Schumann, P.4
Narzt, T.5
Polson, S.W.6
Lubitz, W.7
Richardson, L.L.8
-
16
-
-
43049149363
-
Genomic insights into Mn(II) oxidation by the marine alphaproteobacterium Aurantimonas sp. strain SI85-9A1
-
COI: 1:CAS:528:DC%2BD1cXlslCiur4%3D, PID: 18344346
-
Dick GJ, Podell S, Johnson HA, Rivera-Espinoza Y, Bernier-Latmani R, McCarthy JK, Torpey JW, Clement BG, Gaasterland T, Tebo BM (2008) Genomic insights into Mn(II) oxidation by the marine alphaproteobacterium Aurantimonas sp. strain SI85-9A1. Appl Environ Microbiol 74:2646–2658
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 2646-2658
-
-
Dick, G.J.1
Podell, S.2
Johnson, H.A.3
Rivera-Espinoza, Y.4
Bernier-Latmani, R.5
McCarthy, J.K.6
Torpey, J.W.7
Clement, B.G.8
Gaasterland, T.9
Tebo, B.M.10
-
18
-
-
84871367784
-
Biogeography of Rhizobium radiobacter and distribution of associated temperate phages in deep subseafloor sediments
-
COI: 1:CAS:528:DC%2BC38XhvVOrsbfK, PID: 22855213
-
Engelhardt T, Sahlberg M, Cypionka H, Engelen B (2013) Biogeography of Rhizobium radiobacter and distribution of associated temperate phages in deep subseafloor sediments. ISME J 7:199–209
-
(2013)
ISME J
, vol.7
, pp. 199-209
-
-
Engelhardt, T.1
Sahlberg, M.2
Cypionka, H.3
Engelen, B.4
-
19
-
-
84903391146
-
High virus-to-cell ratios indicate ongoing production of viruses in deep subsurface sediments
-
PID: 24430483
-
Engelhardt T, Kallmeyer J, Cypionka H, Engelen B (2014) High virus-to-cell ratios indicate ongoing production of viruses in deep subsurface sediments. ISME J 8:1503–1509
-
(2014)
ISME J
, vol.8
, pp. 1503-1509
-
-
Engelhardt, S.M.1
Kallmeyer, I.B.2
Cypionka, M.J.3
Engelen, A.S.4
-
20
-
-
13444255983
-
Seasonal epidemics of cholera inversely correlate with the prevalence of environmental cholera phages
-
COI: 1:CAS:528:DC%2BD2MXhs1KlurY%3D, PID: 15653771
-
Faruque SM, Naser IB, Islam MJ, Faruque AS, Ghosh AN, Nair GB, Sack DA, Mekalanos JJ (2005) Seasonal epidemics of cholera inversely correlate with the prevalence of environmental cholera phages. Proc Natl Acad Sci USA 102:1702–1707
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 1702-1707
-
-
Faruque, S.M.1
Naser, I.B.2
Islam, M.J.3
Faruque, A.S.4
Ghosh, A.N.5
Nair, G.B.6
Sack, D.A.7
Mekalanos, J.J.8
-
21
-
-
0033542481
-
Marine viruses and their biogeochemical and ecological effects
-
COI: 1:CAS:528:DyaK1MXjvFeiurk%3D, PID: 10376593
-
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
-
-
0028995804
-
Viruses and protists cause similar bacterial mortality in coastal seawater
-
Fuhrman JA, Noble RT (1995) Viruses and protists cause similar bacterial mortality in coastal seawater. Limnol Oceanogr 40:1236–1242
-
(1995)
Limnol Oceanogr
, vol.40
, pp. 1236-1242
-
-
Fuhrman, J.A.1
Noble, R.T.2
-
23
-
-
84867880160
-
Bacterial communities in fish sauce mash using culture-dependent and-independent methods
-
COI: 1:CAS:528:DC%2BC38XhsVWrsr%2FN, PID: 22990487
-
Fukui Y, Yoshida M, Shozen K-I, Funatsu Y, Takano T, Oikawa H, Yano Y, Satomi M (2012) Bacterial communities in fish sauce mash using culture-dependent and-independent methods. J Gen Appl Microbiol 58:273–281
-
(2012)
J Gen Appl Microbiol
, vol.58
, pp. 273-281
-
-
Fukui, Y.1
Yoshida, M.2
Shozen, K.-I.3
Funatsu, Y.4
Takano, T.5
Oikawa, H.6
Yano, Y.7
Satomi, M.8
-
24
-
-
84856567690
-
TPV1, the first virus isolated from the hyperthermophilic genus Thermococcus
-
COI: 1:CAS:528:DC%2BC38XksVamsLg%3D, PID: 22151304
-
Gorlas A, Koonin EV, Bienvenu N, Prieur D, Geslin C (2012) TPV1, the first virus isolated from the hyperthermophilic genus Thermococcus. Environ Microbiol 14:503–516
-
(2012)
Environ Microbiol
, vol.14
, pp. 503-516
-
-
Gorlas, A.1
Koonin, E.V.2
Bienvenu, N.3
Prieur, D.4
Geslin, C.5
-
25
-
-
0033514996
-
Evolutionary relationships among diverse bacteriophages and prophages: all the world’s a phage
-
COI: 1:CAS:528:DyaK1MXhvVSqsbg%3D, PID: 10051617
-
Hendrix RW, Smith MC, Burns RN, Ford ME, Hatfull GF (1999) Evolutionary relationships among diverse bacteriophages and prophages: all the world’s a phage. Proc Natl Acad Sci USA 96:2192–2197
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 2192-2197
-
-
Hendrix, R.W.1
Smith, M.C.2
Burns, R.N.3
Ford, M.E.4
Hatfull, G.F.5
-
26
-
-
0031826040
-
SOSUI: classification and secondary structure prediction system for membrane proteins
-
COI: 1:CAS:528:DyaK1cXks12gt70%3D, PID: 9632836
-
Hirokawa T, Boon-Chieng S, Mitaku S (1998) SOSUI: classification and secondary structure prediction system for membrane proteins. Bioinformatics 14:378–379
-
(1998)
Bioinformatics
, vol.14
, pp. 378-379
-
-
Hirokawa, T.1
Boon-Chieng, S.2
Mitaku, S.3
-
27
-
-
0028573701
-
Seasonal and diel abundance of viruses and occurrence of lysogeny/bacteriocinogeny in the marine environment
-
Jiang SC, Paul JH (1994) Seasonal and diel abundance of viruses and occurrence of lysogeny/bacteriocinogeny in the marine environment. Mar Ecol Prog Ser 104:163–172
-
(1994)
Mar Ecol Prog Ser
, vol.104
, pp. 163-172
-
-
Jiang, S.C.1
Paul, J.H.2
-
28
-
-
81555221014
-
-
Elsevier Academic Press, San Diego:
-
King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (2012) Virus taxonomy: ninth report of the International Committee on the Taxonomy of Viruses. Elsevier Academic Press, San Diego, p 86
-
(2012)
Virus taxonomy: ninth report of the International Committee on the Taxonomy of Viruses
, pp. 86
-
-
King, A.M.Q.1
Adams, M.J.2
Carstens, E.B.3
Lefkowitz, E.J.4
-
29
-
-
0035910270
-
Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes
-
COI: 1:CAS:528:DC%2BD3MXisFCguw%3D%3D, PID: 11152613
-
Krogh A, Larsson B, von Heijne G, Sonnhammer ELL (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol 305:567–580
-
(2001)
J Mol Biol
, vol.305
, pp. 567-580
-
-
Krogh, A.1
Larsson, B.2
von Heijne, G.3
Sonnhammer, E.L.L.4
-
30
-
-
0033764683
-
Sequence of the genome of the temperate, serotype-converting, Pseudomonas aeruginosa bacteriophage D3
-
COI: 1:CAS:528:DC%2BD3cXns1emsLY%3D, PID: 11029426
-
Kropinski AM (2000) Sequence of the genome of the temperate, serotype-converting, Pseudomonas aeruginosa bacteriophage D3. J Bacteriol 182:6066–6074
-
(2000)
J Bacteriol
, vol.182
, pp. 6066-6074
-
-
Kropinski, A.M.1
-
31
-
-
84861546721
-
Viruses in a deep oligotrophic sea: seasonal distribution of marine viruses in the epi-, meso- and bathypelagic waters of the Eastern Mediterranean Sea
-
Magiopoulos I, Pitta P (2012) Viruses in a deep oligotrophic sea: seasonal distribution of marine viruses in the epi-, meso- and bathypelagic waters of the Eastern Mediterranean Sea. Deep Sea Res Part I 66:1–10
-
(2012)
Deep Sea Res Part I
, vol.66
, pp. 1-10
-
-
Magiopoulos, I.1
Pitta, P.2
-
32
-
-
78651285748
-
CDD: a Conserved Domain Database for the functional annotation of proteins
-
COI: 1:CAS:528:DC%2BC3sXivF2ltb8%3D, PID: 21109532
-
Marchler-Bauer A, Lu S, Anderson JB, Chitsaz F, Derbyshire MK, DeWeese-Scott C, Fong JH, Geer LY, Geer RC, Gonzales NR, Gwadz M, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Lu F, Marchler GH, Mullokandov M, Omelchenko MV, Robertson CL, Song JS, Thanki N, Yamashita RA, Zhang D, Zhang N, Zheng C, Bryant SH (2011) CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res 39:D225–D229
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D225-D229
-
-
Marchler-Bauer, A.1
Lu, S.2
Anderson, J.B.3
Chitsaz, F.4
Derbyshire, M.K.5
DeWeese-Scott, C.6
Fong, J.H.7
Geer, L.Y.8
Geer, R.C.9
Gonzales, N.R.10
Gwadz, M.11
Hurwitz, D.I.12
Jackson, J.D.13
Ke, Z.14
Lanczycki, C.J.15
Lu, F.16
Marchler, G.H.17
Mullokandov, M.18
Omelchenko, M.V.19
Robertson, C.L.20
Song, J.S.21
Thanki, N.22
Yamashita, R.A.23
Zhang, D.24
Zhang, N.25
Zheng, C.26
Bryant, S.H.27
more..
-
33
-
-
0033721611
-
Distribution and evolution of bacteriophage WO in Wolbachia, the endosymbiont causing sexual alterations in arthropods
-
COI: 1:CAS:528:DC%2BD3MXptFKn, PID: 11080372
-
Masui S, Kamoda S, Sasaki T, Ishikawa H (2000) Distribution and evolution of bacteriophage WO in Wolbachia, the endosymbiont causing sexual alterations in arthropods. J Mol Evol 51:491–497
-
(2000)
J Mol Evol
, vol.51
, pp. 491-497
-
-
Masui, S.1
Kamoda, S.2
Sasaki, T.3
Ishikawa, H.4
-
34
-
-
84865814031
-
Genome sequence of temperate bacteriophage Psymv2 from Antarctic Dry Valley soil isolate Psychrobacter sp. MV2
-
COI: 1:CAS:528:DC%2BC38XhtlSmtr3J, PID: 22760730
-
Meiring TL, Tuffin IM, Cary C, Cowan DA (2012) Genome sequence of temperate bacteriophage Psymv2 from Antarctic Dry Valley soil isolate Psychrobacter sp. MV2. Extremophiles 16:715–726
-
(2012)
Extremophiles
, vol.16
, pp. 715-726
-
-
Meiring, T.L.1
Tuffin, I.M.2
Cary, C.3
Cowan, D.A.4
-
35
-
-
0002591025
-
Production mechanisms of dissolved organic matter
-
Kirchman DL, (ed), Wiley-Liss, New York:
-
Nagata T (2000) Production mechanisms of dissolved organic matter. In: Kirchman DL (ed) Microbial ecology of the oceans. Wiley-Liss, New York, pp 121–152
-
(2000)
Microbial ecology of the oceans
, pp. 121-152
-
-
Nagata, T.1
-
36
-
-
0036443086
-
The complete nucleotide sequence of the Vibrio harveyi bacteriophage VHML
-
COI: 1:CAS:528:DC%2BD3sXlsFOitg%3D%3D, PID: 12452967
-
Oakey HJ, Cullen BR, Owens L (2002) The complete nucleotide sequence of the Vibrio harveyi bacteriophage VHML. J Appl Microbiol 93:1089–1098
-
(2002)
J Appl Microbiol
, vol.93
, pp. 1089-1098
-
-
Oakey, H.J.1
Cullen, B.R.2
Owens, L.3
-
38
-
-
0037453742
-
Origins of highly mosaic mycobacteriophage genomes
-
COI: 1:CAS:528:DC%2BD3sXjtlOqs7Y%3D, PID: 12705866
-
Pedulla ML, Ford ME, Houtz JM, Karthikeyan T, Wadsworth C, Lewis JA, Jacobs-Sera D, Falbo J, Gross J, Pannunzio NR, Brucker W, Kumar V, Kandasamy J, Keenan L, Bardarov S, Kriakov J, Lawrence JG, Jacobs WRJ, Hendrix RW, Hatfull GF (2003) Origins of highly mosaic mycobacteriophage genomes. Cell 113:171–182
-
(2003)
Cell
, vol.113
, pp. 171-182
-
-
Pedulla, M.L.1
Ford, M.E.2
Houtz, J.M.3
Karthikeyan, T.4
Wadsworth, C.5
Lewis, J.A.6
Jacobs-Sera, D.7
Falbo, J.8
Gross, J.9
Pannunzio, N.R.10
Brucker, W.11
Kumar, V.12
Kandasamy, J.13
Keenan, L.14
Bardarov, S.15
Kriakov, J.16
Lawrence, J.G.17
Jacobs, W.R.J.18
Hendrix, R.W.19
Hatfull, G.F.20
more..
-
39
-
-
84858077472
-
The Pfam protein families database
-
COI: 1:CAS:528:DC%2BC3MXhs12hurvK, PID: 22127870
-
Punta M, Coggill PC, Eberhardt RY, Mistry J, Tate J, Boursnell C, Pang N, Forslund K, Ceric G, Clements J, Heger A, Holm L, Sonnhammer EL, Eddy SR, Bateman A, Finn RD (2012) The Pfam protein families database. Nucleic Acids Res 40:D290–D301
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D290-D301
-
-
Punta, M.1
Coggill, P.C.2
Eberhardt, R.Y.3
Mistry, J.4
Tate, J.5
Boursnell, C.6
Pang, N.7
Forslund, K.8
Ceric, G.9
Clements, J.10
Heger, A.11
Holm, L.12
Sonnhammer, E.L.13
Eddy, S.R.14
Bateman, A.15
Finn, R.D.16
-
40
-
-
23144458473
-
InterProScan: protein domains identifier
-
COI: 1:CAS:528:DC%2BD2MXlslyqsbs%3D, PID: 15980438
-
Quevillon E, Silventoinen V, Pillai S, Harte N, Mulder N, Apweiler R, Lopez R (2005) InterProScan: protein domains identifier. Nucleic Acids Res 33:W116–W120
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W116-W120
-
-
Quevillon, E.1
Silventoinen, V.2
Pillai, S.3
Harte, N.4
Mulder, N.5
Apweiler, R.6
Lopez, R.7
-
41
-
-
80455129109
-
Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and Fulvimarina
-
COI: 1:CAS:528:DC%2BC38Xks1ChsQ%3D%3D, PID: 21186293
-
Rathsack K, Reitner J, Stackebrandt E, Tindall BJ (2011) Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and Fulvimarina. Int J Syst Evol Microbiol 61:2722–2728
-
(2011)
Int J Syst Evol Microbiol
, vol.61
, pp. 2722-2728
-
-
Rathsack, K.1
Reitner, J.2
Stackebrandt, E.3
Tindall, B.J.4
-
42
-
-
77954934312
-
Genetic and phenotypic diversity in Burkholderia: contributions by prophage and phage-like elements
-
PID: 20667135
-
Ronning CM, Losada L, Brinkac L, Inman J, Ulrich RL, Schell M, Nierman WC, Deshazer D (2010) Genetic and phenotypic diversity in Burkholderia: contributions by prophage and phage-like elements. BMC Microbiol 10:202
-
(2010)
BMC Microbiol
, vol.10
, pp. 202
-
-
Ronning, C.M.1
Losada, L.2
Brinkac, L.3
Inman, J.4
Ulrich, R.L.5
Schell, M.6
Nierman, W.C.7
Deshazer, D.8
-
43
-
-
0023375195
-
The neighbor-joining method: a new method for reconstructing phylogenetic trees
-
COI: 1:STN:280:DyaL1c7ovFSjsA%3D%3D, PID: 3447015
-
Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
44
-
-
33746102191
-
Seasonal variations in virus-host populations in Norwegian coastal waters: focusing on the cyanophage community infecting marine Synechococcus spp
-
COI: 1:CAS:528:DC%2BD28XnsVaqs78%3D, PID: 16820451
-
Sandaa RA, Larsen A (2006) Seasonal variations in virus-host populations in Norwegian coastal waters: focusing on the cyanophage community infecting marine Synechococcus spp. Appl Environ Microbiol 72:4610–4618
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 4610-4618
-
-
Sandaa, R.A.1
Larsen, A.2
-
45
-
-
23144460836
-
The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs
-
COI: 1:CAS:528:DC%2BD2MXlslyrt7c%3D, PID: 15980563
-
Schattner P, Brooks AN, Lowe TM (2005) The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res 33:W686–W689
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W686-W689
-
-
Schattner, P.1
Brooks, A.N.2
Lowe, T.M.3
-
46
-
-
33747369803
-
Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts
-
PID: 16802857
-
Sullivan MB, Lindell D, Lee JA, Thompson LR, Bielawski JP, Chisholm SW (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
, pp. e234
-
-
Sullivan, M.B.1
Lindell, D.2
Lee, J.A.3
Thompson, L.R.4
Bielawski, J.P.5
Chisholm, S.W.6
-
47
-
-
25144506135
-
Viruses in the sea
-
COI: 1:CAS:528:DC%2BD2MXpvFOrtLY%3D, PID: 16163346
-
Suttle CA (2005) Viruses in the sea. Nature 437:356–361
-
(2005)
Nature
, vol.437
, pp. 356-361
-
-
Suttle, C.A.1
-
48
-
-
34548792911
-
Marine viruses—major players in the global ecosystem
-
COI: 1:CAS:528:DC%2BD2sXhtVeis7nK, PID: 17853907
-
Suttle CA (2007) Marine viruses—major players in the global ecosystem. Nat Rev Microbiol 5:801–812
-
(2007)
Nat Rev Microbiol
, vol.5
, pp. 801-812
-
-
Suttle, C.A.1
-
49
-
-
79957613599
-
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
COI: 1:CAS:528:DC%2BC3MXht1eiu73K, PID: 21546353
-
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
Kumar, S.6
-
50
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice
-
COI: 1:CAS:528:DyaK2MXitlSgu74%3D, PID: 7984417
-
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 Acids Res 22:4673–4680
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
51
-
-
78650357390
-
Genome analysis of deep-sea thermophilic phage D6E
-
COI: 1:CAS:528:DC%2BC3MXktFKmsA%3D%3D, PID: 20889772
-
Wang Y, Zhang X (2010) Genome analysis of deep-sea thermophilic phage D6E. Appl Environ Microbiol 76:7861–7866
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 7861-7866
-
-
Wang, Y.1
Zhang, X.2
-
52
-
-
1942486000
-
Ecology of prokaryotic viruses
-
COI: 1:CAS:528:DC%2BD2cXjsVentLw%3D, PID: 15109783
-
Weinbauer MG (2004) Ecology of prokaryotic viruses. FEMS Microbiol Rev 28:127–181
-
(2004)
FEMS Microbiol Rev
, vol.28
, pp. 127-181
-
-
Weinbauer, M.G.1
-
53
-
-
55549133935
-
Lysogenic virus–host interactions predominate at deep-sea diffuse-flow hydrothermal vents
-
COI: 1:CAS:528:DC%2BD1cXhsFWrur%2FJ, PID: 18719614
-
Williamson SJ, Cary SC, Williamson KE, Helton RR, Bench SR, Winget D, Wommack KE (2008) Lysogenic virus–host interactions predominate at deep-sea diffuse-flow hydrothermal vents. ISME J 2:1112–1121
-
(2008)
ISME J
, vol.2
, pp. 1112-1121
-
-
Williamson, S.J.1
Cary, S.C.2
Williamson, K.E.3
Helton, R.R.4
Bench, S.R.5
Winget, D.6
Wommack, K.E.7
-
54
-
-
0034053843
-
Virioplankton: viruses in aquatic ecosystems
-
COI: 1:STN:280:DC%2BD3c7ntF2jsw%3D%3D, PID: 10704475
-
Wommack KE, Colwell RR (2000) Virioplankton: viruses in aquatic ecosystems. Microbiol Mol Biol Rev 64:69–114
-
(2000)
Microbiol Mol Biol Rev
, vol.64
, pp. 69-114
-
-
Wommack, K.E.1
Colwell, R.R.2
-
55
-
-
84898057391
-
Variability of subseafloor viral abundance at the geographically and geologically distinct continental margins
-
COI: 1:CAS:528:DC%2BC2cXltF2rtbY%3D, PID: 24308555
-
Yanagawa K, Morono Y, Yoshida-Takashima Y, Eitoku M, Sunamura M, Inagaki F, Imachi H, Takai K, Nunoura T (2014) Variability of subseafloor viral abundance at the geographically and geologically distinct continental margins. FEMS Microbiol Ecol 88:60–68
-
(2014)
FEMS Microbiol Ecol
, vol.88
, pp. 60-68
-
-
Yanagawa, K.1
Morono, Y.2
Yoshida-Takashima, Y.3
Eitoku, M.4
Sunamura, M.5
Inagaki, F.6
Imachi, H.7
Takai, K.8
Nunoura, T.9
-
56
-
-
79955006806
-
Virophage control of antarctic algal host-virus dynamics
-
COI: 1:CAS:528:DC%2BC3MXltVymurc%3D, PID: 21444812
-
Yau S, Lauro FM, DeMaere MZ, Brown MV, Thomas T, Raftery MJ, Andrews-Pfannkoch C, Lewis M, Hoffman JM, Gibson JA, Cavicchioli R (2011) Virophage control of antarctic algal host-virus dynamics. Proc Natl Acad Sci USA 108:6163–6168
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 6163-6168
-
-
Yau, S.1
Lauro, F.M.2
DeMaere, M.Z.3
Brown, M.V.4
Thomas, T.5
Raftery, M.J.6
Andrews-Pfannkoch, C.7
Lewis, M.8
Hoffman, J.M.9
Gibson, J.A.10
Cavicchioli, R.11
-
57
-
-
84895067506
-
Heavy oil exposure increases viral production in natural marine bacterial populations
-
COI: 1:CAS:528:DC%2BC2cXhsVChsbY%3D
-
Yoshida M, Suzuki S (2014) Heavy oil exposure increases viral production in natural marine bacterial populations. J Oceanogr 70:115–122
-
(2014)
J Oceanogr
, vol.70
, pp. 115-122
-
-
Yoshida, M.1
Suzuki, S.2
-
58
-
-
44249119076
-
Ecological dynamics of the toxic bloom-forming cyanobacterium Microcystis aeruginosa and its cyanophages in freshwater
-
COI: 1:CAS:528:DC%2BD1cXmsVOku7k%3D, PID: 18344338
-
Yoshida M, Yoshida T, Kashima A, Takashima Y, Hosoda N, Nagasaki K, Hiroishi S (2008) Ecological dynamics of the toxic bloom-forming cyanobacterium Microcystis aeruginosa and its cyanophages in freshwater. Appl Environ Microbiol 74:3269–3273
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 3269-3273
-
-
Yoshida, M.1
Yoshida, T.2
Kashima, A.3
Takashima, Y.4
Hosoda, N.5
Nagasaki, K.6
Hiroishi, S.7
-
59
-
-
77957141407
-
Real-time PCR detection of host-mediated cyanophage gene transcripts during infection of a natural Microcystis aeruginosa population
-
PID: 21576874
-
Yoshida M, Yoshida T, Yoshida-Takashima Y, Kashima A, Hiroishi S (2010) Real-time PCR detection of host-mediated cyanophage gene transcripts during infection of a natural Microcystis aeruginosa population. Microbes Environ 25:211–215
-
(2010)
Microbes Environ
, vol.25
, pp. 211-215
-
-
Yoshida, M.1
Yoshida, T.2
Yoshida-Takashima, Y.3
Kashima, A.4
Hiroishi, S.5
-
60
-
-
84874520341
-
Metagenomic analysis of viral communities in (hado) pelagic sediments
-
COI: 1:CAS:528:DC%2BC3sXjvV2hur0%3D, PID: 23468952
-
Yoshida M, Takaki Y, Eitoku M, Nunoura T, Takai K (2013) Metagenomic analysis of viral communities in (hado) pelagic sediments. PLoS ONE 8:e57271
-
(2013)
PLoS ONE
, vol.8
, pp. e57271
-
-
Yoshida, M.1
Takaki, Y.2
Eitoku, M.3
Nunoura, T.4
Takai, K.5
-
61
-
-
84857088339
-
Spatial distribution of viruses associated with planktonic and attached microbial communities in hydrothermal environments
-
COI: 1:CAS:528:DC%2BC38XjtVSntr8%3D, PID: 22210205
-
Yoshida-Takashima Y, Nunoura T, Kazama H, Noguchi T, Inoue K, Akashi H, Yamanaka T, Toki T, Yamamoto M, Furushima Y, Ueno Y, Yamamoto H, Takai K (2012) Spatial distribution of viruses associated with planktonic and attached microbial communities in hydrothermal environments. Appl Environ Microbiol 78:1311–1320
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 1311-1320
-
-
Yoshida-Takashima, Y.1
Nunoura, T.2
Kazama, H.3
Noguchi, T.4
Inoue, K.5
Akashi, H.6
Yamanaka, T.7
Toki, T.8
Yamamoto, M.9
Furushima, Y.10
Ueno, Y.11
Yamamoto, H.12
Takai, K.13
-
62
-
-
84876687650
-
Genome sequence of a novel deep-sea vent epsilonproteobacterial phage provides new insight into the co-evolution of Epsilonproteobacteria and their phages
-
PID: 23512119
-
Yoshida-Takashima Y, Takaki Y, Shimamura S, Nunoura T, Takai K (2013) Genome sequence of a novel deep-sea vent epsilonproteobacterial phage provides new insight into the co-evolution of Epsilonproteobacteria and their phages. Extremophiles 17:405–419
-
(2013)
Extremophiles
, vol.17
, pp. 405-419
-
-
Yoshida-Takashima, Y.1
Takaki, Y.2
Shimamura, S.3
Nunoura, T.4
Takai, K.5
|