-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, MillerWet al. (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
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
-
2
-
-
0034665853
-
Bacterial rhodopsin: Evidence for a new type of phototrophy in the sea
-
Beja O, Aravind L, Koonin EV, Suzuki MT, Hadd A, Nguyen LP et al. (2000a). Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. Science 289: 1902-1906.
-
(2000)
Science
, vol.289
, pp. 1902-1906
-
-
Beja, O.1
Aravind, L.2
Koonin, E.V.3
Suzuki, M.T.4
Hadd, A.5
Nguyen, L.P.6
-
3
-
-
0034554741
-
Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage
-
Beja O, Suzuki MT, Koonin EV, Aravind L, Hadd A, Nguyen LP et al. (2000b). Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage. Environ Microbiol 2: 516-529.
-
(2000)
Environ Microbiol
, vol.2
, pp. 516-529
-
-
Beja, O.1
Suzuki, M.T.2
Koonin, E.V.3
Aravind, L.4
Hadd, A.5
Nguyen, L.P.6
-
4
-
-
33846572372
-
The impact of phages on interspecific competition in experimental populations of bacteria
-
Brockhurst MA, Fenton A, Roulston B, Rainey PB. (2006). The impact of phages on interspecific competition in experimental populations of bacteria. BMC Ecol 6: 19.
-
(2006)
BMC Ecol
, vol.6
, pp. 19
-
-
Brockhurst, M.A.1
Fenton, A.2
Roulston, B.3
Rainey, P.B.4
-
5
-
-
58149200948
-
The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis
-
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ et al. (2009). The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: D141-D145.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Cole, J.R.1
Wang, Q.2
Cardenas, E.3
Fish, J.4
Chai, B.5
Farris, R.J.6
-
6
-
-
31544483932
-
Community genomics among stratified microbial assemblages in the ocean's interior
-
DeLong EF, Preston CM, Mincer T, Rich V, Hallam SJ, Frigaard NU et al. (2006). Community genomics among stratified microbial assemblages in the ocean's interior. Science 311: 496-503.
-
(2006)
Science
, vol.311
, pp. 496-503
-
-
Delong, E.F.1
Preston, C.M.2
Mincer, T.3
Rich, V.4
Hallam, S.J.5
Frigaard, N.U.6
-
7
-
-
3042666256
-
MUSCLE: A multiple sequence alignment with high accuracy and high throughput
-
Edgar RC. (2004). MUSCLE: a multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 5: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
8
-
-
0027800454
-
Variability of the deep chlorophyll máximum in the Northwestern Mediterranean Sea
-
Estrada M, Marrase C, Latasa M, Berdalet E, Delgado M, Riera T. (1993). Variability of the deep chlorophyll máximum in the Northwestern Mediterranean Sea. Mar Ecol Prog Ser 92: 289-300.
-
(1993)
Mar Ecol Prog ser
, vol.92
, pp. 289-300
-
-
Estrada, M.1
Marrase, C.2
Latasa, M.3
Berdalet, E.4
Delgado, M.5
Riera, T.6
-
9
-
-
70349448573
-
Bias in assessments of marine SAR11 biodiversity in environmental fosmid and BAC libraries?
-
Feingersch R, Béjà O. (2009). Bias in assessments of marine SAR11 biodiversity in environmental fosmid and BAC libraries? ISME J 10: 1117-1119.
-
(2009)
ISME J
, vol.10
, pp. 1117-1119
-
-
Feingersch, R.1
Béjà, O.2
-
10
-
-
73449148325
-
Microbial community genomics in eastern Mediterranean Sea surface waters
-
Feingersch R, Suzuki MT, Shmoish M, Sharon I, Sabehi G, Partensky F et al. 2010. Microbial community genomics in eastern Mediterranean Sea surface waters. ISME J 4: 78-87.
-
(2010)
ISME J
, vol.4
, pp. 78-87
-
-
Feingersch, R.1
Suzuki, M.T.2
Shmoish, M.3
Sharon, I.4
Sabehi, G.5
Partensky, F.6
-
11
-
-
32844465575
-
Proteorhodopsin lateral gene transfer between marine planktonic bacteria and archaea
-
Frigaard NU, Martinez A, Mincer TJ, DeLong EF. (2006). Proteorhodopsin lateral gene transfer between marine planktonic bacteria and archaea. Nature 439: 847-850.
-
(2006)
Nature
, vol.439
, pp. 847-850
-
-
Frigaard, N.U.1
Martinez, A.2
Mincer, T.J.3
Delong, E.F.4
-
12
-
-
34247115651
-
High vertical and low horizontal diversity of Prochlorococcus ecotypes in the Mediterranean Sea in summer
-
Garczarek L, Dufresne A, Rousval S, West NJ, Mazard S, Marie D et al. (2007). High vertical and low horizontal diversity of Prochlorococcus ecotypes in the Mediterranean Sea in summer. FEMS Microbial Ecol 60: 189-206.
-
(2007)
FEMS Microbial Ecol
, vol.60
, pp. 189-206
-
-
Garczarek, L.1
Dufresne, A.2
Rousval, S.3
West, N.J.4
Mazard, S.5
Marie, D.6
-
13
-
-
70350294348
-
Systematic artifacts in metagenomes from complex microbial communities
-
Gomez-Alvarez V, Teal TK, Schmidt TM. (2009). Systematic artifacts in metagenomes from complex microbial communities. ISME J 3: 1314-1317.
-
(2009)
ISME J
, vol.3
, pp. 1314-1317
-
-
Gomez-Alvarez, V.1
Teal, T.K.2
Schmidt, T.M.3
-
14
-
-
65449144325
-
Evaluation of next generation sequencing platforms for population targeted sequencing studies
-
Harismendy O, Ng PC, Strausberg RL,Wang X, Stockwell TB, Beeson KY et al. (2009). Evaluation of next generation sequencing platforms for population targeted sequencing studies. Genome Biol 10: R32.
-
(2009)
Genome Biol
, vol.10
-
-
Harismendy, O.1
Ng, P.C.2
Strausberg, R.L.3
Wang, X.4
Stockwell, T.B.5
Beeson, K.Y.6
-
16
-
-
13444259388
-
TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics
-
Jobb G, von Haeseler A, Strimmer K. (2004). TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. BMC Evol Biol 4: 18.
-
(2004)
BMC Evol Biol
, vol.4
, pp. 18
-
-
Jobb, G.1
Von Haeseler, A.2
Strimmer, K.3
-
17
-
-
68549085316
-
Comparative metagenomic analysis of a microbial community residing at a depth of 4000 meters at station ALOHA in the North Pacific subtropical gyre
-
Konstantinidis KT, Braff J, Karl DM, DeLong EF. (2009). Comparative metagenomic analysis of a microbial community residing at a depth of 4000 meters at station ALOHA in the North Pacific subtropical gyre. Appl Environ Microbiol 16: 5345-5355.
-
(2009)
Appl Environ Microbiol
, vol.16
, pp. 5345-5355
-
-
Konstantinidis, K.T.1
Braff, J.2
Karl, D.M.3
Delong, E.F.4
-
18
-
-
0026330630
-
Phosphorus limitation of primary productivity in the eastern Mediterranean Sea
-
Krom MD, Kress N, Brenner S. (1991). Phosphorus limitation of primary productivity in the eastern Mediterranean Sea. Limnol Oceangr 3: 424-432.
-
(1991)
Limnol Oceangr
, vol.3
, pp. 424-432
-
-
Krom, M.D.1
Kress, N.2
Brenner, S.3
-
19
-
-
0038013951
-
The bacterial universal stress protein: Function and regulation
-
Kvint K, Nachin L, Diez A, Nyström T. (2003). The bacterial universal stress protein: function and regulation. Curr Opin Microbiol 6: 140-145.
-
(2003)
Curr Opin Microbiol
, vol.6
, pp. 140-145
-
-
Kvint, K.1
Nachin, L.2
Diez, A.3
Nyström, T.4
-
20
-
-
3342915398
-
Transfer of photosysnthesis genes to and from Prochlorococcus viruses
-
Lindell D, Sullivan MB, Johnson ZI, Tolonen AC, Rohwer F, Chisholm SW. (2004). Transfer of photosysnthesis genes to and from Prochlorococcus viruses. Proc Natl Acad Sci USA 101: 11013-11018.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 11013-11018
-
-
Lindell, D.1
Sullivan, M.B.2
Johnson, Z.I.3
Tolonen, A.C.4
Rohwer, F.5
Chisholm, S.W.6
-
22
-
-
39149124249
-
Metagenomics of the deep Mediterranean, a warm bathypelagic hábitat
-
Martín-Cuadrado AB, López-García P, Alba JC, Moreira D, Monticelli L, Strittmatter A et al. (2007). Metagenomics of the deep Mediterranean, a warm bathypelagic hábitat. PLoS One 9: e914.
-
(2007)
PLoS One
, vol.9
-
-
Martín-Cuadrado, A.B.1
López-García, P.2
Alba, J.C.3
Moreira, D.4
Monticelli, L.5
Strittmatter, A.6
-
23
-
-
49449099818
-
Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regions
-
Martin-Cuadrado AB, Rodriguez-Valera F, Moreira D, Alba JC, Ivars-Martínez E, Henn MR et al (2008). Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regions. ISME J 8: 865-886.
-
(2008)
ISME J
, vol.8
, pp. 865-886
-
-
Martin-Cuadrado, A.B.1
Rodriguez-Valera, F.2
Moreira, D.3
Alba, J.C.4
Ivars-Martínez, E.5
Henn, M.R.6
-
24
-
-
53549118607
-
The metagenomics RAST server - A public resource for the automatic phylogenetic and functional analysis of metagenomes
-
Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM, Kubal M et al. (2008). The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9: 386.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 386
-
-
Meyer, F.1
Paarmann, D.2
D'Souza, M.3
Olson, R.4
Glass, E.M.5
Kubal, M.6
-
25
-
-
59149090570
-
MetaGeneAnnotator: Detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes
-
Noguchi H, Taniguchi T, Itoh T. (2008). MetaGeneAnnotator: detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes. DNA Res 6: 387-396.
-
(2008)
DNA Res
, vol.6
, pp. 387-396
-
-
Noguchi, H.1
Taniguchi, T.2
Itoh, T.3
-
26
-
-
37549027613
-
SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
-
Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J et al. (2007). SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 21: 7188-7196.
-
(2007)
Nucleic Acids Res
, vol.21
, pp. 7188-7196
-
-
Pruesse, E.1
Quast, C.2
Knittel, K.3
Fuchs, B.M.4
Ludwig, W.5
Peplies, J.6
-
27
-
-
44349192011
-
Electron microscopy encounters with unusual thermophiles helps direct genome analysis of Aciduliprofundum boonei
-
Reysenbach AL, Flores GE. (2008). Electron microscopy encounters with unusual thermophiles helps direct genome analysis of Aciduliprofundum boonei. Geobiology 3: 331-336.
-
(2008)
Geobiology
, vol.3
, pp. 331-336
-
-
Reysenbach, A.L.1
Flores, G.E.2
-
28
-
-
0042878464
-
Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation
-
Rocap G, Larimer FW, Lamerdin J, Malfatti S, Chain P, Ahlgren NA et al. (2003). Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424: 1042-1047.
-
(2003)
Nature
, vol.424
, pp. 1042-1047
-
-
Rocap, G.1
Larimer, F.W.2
Lamerdin, J.3
Malfatti, S.4
Chain, P.5
Ahlgren, N.A.6
-
29
-
-
70350180460
-
Explaining microbial population genomics through phage predation
-
Rodriguez-Valera F, Martin-Cuadrado AB, Rodriguez-Brito B, Pasic L, Thingstad TF, Rohwer F et al. (2009). Explaining microbial population genomics through phage predation. Nat Rev Microbiol 11: 828-836.
-
(2009)
Nat Rev Microbiol
, vol.11
, pp. 828-836
-
-
Rodriguez-Valera, F.1
Martin-Cuadrado, A.B.2
Rodriguez-Brito, B.3
Pasic, L.4
Thingstad, T.F.5
Rohwer, F.6
-
30
-
-
33947238287
-
The Sorcerer II Global Ocean Sampling expedition: Northwest Atlantic through eastern tropical Pacific
-
Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, Yooseph S et al. (2007). The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol 3: e77.
-
(2007)
PLoS Biol
, vol.3
-
-
Rusch, D.B.1
Halpern, A.L.2
Sutton, G.3
Heidelberg, K.B.4
Williamson, S.5
Yooseph, S.6
-
31
-
-
66749151555
-
Ecological genomics of marine picocyanobacteria
-
Scanlan DJ, Ostrowski M, Mazard S, Dufresne A, Garczarek L, Hess WR et al. (2009). Ecological genomics of marine picocyanobacteria. Microbiol Mol Biol Rev 2: 249-299.
-
(2009)
Microbiol Mol Biol Rev
, vol.2
, pp. 249-299
-
-
Scanlan, D.J.1
Ostrowski, M.2
Mazard, S.3
Dufresne, A.4
Garczarek, L.5
Hess, W.R.6
-
32
-
-
36249021315
-
Genome-wide experimental determination of barriers to horizontal gene transfer
-
Sorek R, Zhu Y, Creevey CJ, Francino MP, Bork P, Rubin EM. (2007). Genome-wide experimental determination of barriers to horizontal gene transfer. Science 318: 1449-1452.
-
(2007)
Science
, vol.318
, pp. 1449-1452
-
-
Sorek, R.1
Zhu, Y.2
Creevey, C.J.3
Francino, M.P.4
Bork, P.5
Rubin, E.M.6
-
33
-
-
33747369803
-
Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts
-
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 8: e234.
-
(2006)
PLoS Biol
, vol.8
-
-
Sullivan, M.B.1
Lindell, D.2
Lee, J.A.3
Thompson, L.R.4
Bielawski, J.P.5
Chisholm, S.W.6
-
34
-
-
67949095970
-
Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing
-
Temperton B, Field D, Oliver A, Tiwari B, Mühling M, Joint I et al. (2009). Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing. ISME J, 2009 7: 792-796.
-
(2009)
ISME J
, vol.2009
, Issue.7
, pp. 792-796
-
-
Temperton, B.1
Field, D.2
Oliver, A.3
Tiwari, B.4
Mühling, M.5
Joint, I.6
-
35
-
-
49649093132
-
The diversity of small eukaryotic phytoplankton (o or=3 microm) in marine ecosystems
-
Vaulot D, Eikrem W, Viprey M, Moreau H. (2008). The diversity of small eukaryotic phytoplankton (o or=3 microm) in marine ecosystems. FEMS Microbiol Rev 32: 795-820.
-
(2008)
FEMS Microbiol Rev
, vol.32
, pp. 795-820
-
-
Vaulot, D.1
Eikrem, W.2
Viprey, M.3
Moreau, H.4
-
36
-
-
11144354360
-
Environmental genome shotgun sequencing of the Sargasso Sea
-
Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA et al. (2004). Environmental genome shotgun sequencing of the Sargasso Sea. Science 304: 66-74.
-
(2004)
Science
, vol.304
, pp. 66-74
-
-
Venter, J.C.1
Remington, K.2
Heidelberg, J.F.3
Halpern, A.L.4
Rusch, D.5
Eisen, J.A.6
-
37
-
-
32244448898
-
Comparison of prokaryotic diversity at offshore oceanic locations reveals a different microbiota in the Mediterranean Sea
-
Zaballos M, López-López A, Ovreas L, Bartual SG, D'Auria G, Alba JC et al. (2006). Comparison of prokaryotic diversity at offshore oceanic locations reveals a different microbiota in the Mediterranean Sea. FEMS Microbiol Ecol 3: 389-405.
-
(2006)
FEMS Microbiol Ecol
, vol.3
, pp. 389-405
-
-
Zaballos, M.1
López-López, A.2
Ovreas, L.3
Bartual, S.G.4
D'Auria, G.5
Alba, J.C.6
|