-
1
-
-
78649449219
-
High bicarbonate assimilation in the dark by Arctic bacteria
-
Alonso-Sáez, L., Galand, P.E., Casamayor, E.O., Pedrós-Alió, C., and Bertilsson, S. (2010) High bicarbonate assimilation in the dark by Arctic bacteria. ISME J 4: 1581-1590.
-
(2010)
ISME J
, vol.4
, pp. 1581-1590
-
-
Alonso-Sáez, L.1
Galand, P.E.2
Casamayor, E.O.3
Pedrós-Alió, C.4
Bertilsson, S.5
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J., Zhang, Z., Miller, W., etal. (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
-
3
-
-
67949124536
-
Microbial oceanography of the dark ocean's pelagic realm
-
Aristegui, J., Gasol, J.M., Duarte, C.M., and Herndl, G.J. (2009) Microbial oceanography of the dark ocean's pelagic realm. Limnol Oceanogr 54: 1501-1529.
-
(2009)
Limnol Oceanogr
, vol.54
, pp. 1501-1529
-
-
Aristegui, J.1
Gasol, J.M.2
Duarte, C.M.3
Herndl, G.J.4
-
4
-
-
0141843698
-
Microbial extracellular enzymes and their role in dissolved organic matter cycling
-
Findlay, S., and Sinsabaugh, R.L. (eds). San Diego, CA, USA: Academic Press -
-
Arnosti, C. (2002) Microbial extracellular enzymes and their role in dissolved organic matter cycling. In Aquatic Ecosystems: Interactivity of Dissolved Organic Matter. Findlay, S., and Sinsabaugh, R.L. (eds). San Diego, CA, USA: Academic Press, pp. 316-342.
-
(2002)
Aquatic Ecosystems: Interactivity of Dissolved Organic Matter
, pp. 316-342
-
-
Arnosti, C.1
-
5
-
-
25144475996
-
Review Marine microorganisms and global nutrient cycles
-
Arrigo, K.R. (2005) Review Marine microorganisms and global nutrient cycles. Nature 437: 349-355.
-
(2005)
Nature
, vol.437
, pp. 349-355
-
-
Arrigo, K.R.1
-
6
-
-
0035969535
-
Sea snow microcosms
-
Azam, F., and Long, R.A. (2001) Sea snow microcosms. Nature 414: 497-498.
-
(2001)
Nature
, vol.414
, pp. 497-498
-
-
Azam, F.1
Long, R.A.2
-
7
-
-
79954748699
-
Phylogenetic ecology of widespread uncultured clades of the Kingdom Euryarchaeota
-
Barberán, A., Fernández-Guerra, A., Auguet, J.C., Galand, P.E., and Casamayor, E.O. (2011) Phylogenetic ecology of widespread uncultured clades of the Kingdom Euryarchaeota. Mol Ecol 20: 1988-1996.
-
(2011)
Mol Ecol
, vol.20
, pp. 1988-1996
-
-
Barberán, A.1
Fernández-Guerra, A.2
Auguet, J.C.3
Galand, P.E.4
Casamayor, E.O.5
-
8
-
-
34047118522
-
CRISPR provides acquired resistance against viruses in prokaryotes
-
Barrangou, R., Fremaux, C., Deveau, H., Richards, M., Boyaval, P., Moineau, S., etal. (2007) CRISPR provides acquired resistance against viruses in prokaryotes. Science 315: 1709-1712.
-
(2007)
Science
, vol.315
, pp. 1709-1712
-
-
Barrangou, R.1
Fremaux, C.2
Deveau, H.3
Richards, M.4
Boyaval, P.5
Moineau, S.6
-
9
-
-
33846796262
-
Mesoscale iron enrichment experiments 1993-2005: synthesis and future directions
-
Boyd, P.W., Jickells, T., Law, C.S., Blain, S., Boyle, E.A., Buesseler, K.O., etal. (2007) Mesoscale iron enrichment experiments 1993-2005: synthesis and future directions. Science 315: 612-617.
-
(2007)
Science
, vol.315
, pp. 612-617
-
-
Boyd, P.W.1
Jickells, T.2
Law, C.S.3
Blain, S.4
Boyle, E.A.5
Buesseler, K.O.6
-
10
-
-
72649092768
-
Microbial community structure in the North Pacific ocean
-
Brown, M.V., Philip, G.K., Bunge, J.A., Smith, M.C., Bissett, A., Lauro, F.M., etal. (2009) Microbial community structure in the North Pacific ocean. ISME J 3: 1374-1386.
-
(2009)
ISME J
, vol.3
, pp. 1374-1386
-
-
Brown, M.V.1
Philip, G.K.2
Bunge, J.A.3
Smith, M.C.4
Bissett, A.5
Lauro, F.M.6
-
11
-
-
58149200948
-
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
-
Cole, J.R., Wang, Q., Cardenas, E., Fish, J., Chai, B., Farris, R.J., etal. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37 (Suppl. 1): D141-D145.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.1 SUPPL
-
-
Cole, J.R.1
Wang, Q.2
Cardenas, E.3
Fish, J.4
Chai, B.5
Farris, R.J.6
-
12
-
-
0004198803
-
Distribution, sources and sinks of iron in seawater
-
Turner, D., and Hunter, K. (eds). IUPAC Series on Analytical and Physical Chemistry of Environmental Systems, Vol. Chichester, UK: John Wiley & Sons -
-
De Baar, H.J.W., and de Jong, J.T.M. (2001) Distribution, sources and sinks of iron in seawater. In The Biogeochemistry of Iron in Seawater. Turner, D., and Hunter, K. (eds). IUPAC Series on Analytical and Physical Chemistry of Environmental Systems, Vol. 7. Chichester, UK: John Wiley & Sons, pp. 123-253.
-
(2001)
The Biogeochemistry of Iron in Seawater
, vol.7
, pp. 123-253
-
-
De Baar, H.J.W.1
de Jong, J.T.M.2
-
13
-
-
0026755238
-
Archaea in coastal marine environments
-
DeLong, E.F. (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
-
14
-
-
77951701764
-
The light-driven proton pump proteorhodopsin enhances bacterial survival during tough times
-
DeLong, E.F., and Béjà, O. (2010) The light-driven proton pump proteorhodopsin enhances bacterial survival during tough times. PLoS Biol 8: e1000359.
-
(2010)
PLoS Biol
, vol.8
-
-
DeLong, E.F.1
Béjà, O.2
-
15
-
-
31544483932
-
Community genomics among stratified microbial assemblages in the ocean's interior
-
DeLong, E.F., Preston, C.M., Mincer, T., Rich, V., Hallam, S.J., Frigaard, N.U., etal. (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
-
16
-
-
77957935381
-
CRISPR/Cas system and its role in phage-bacteria interactions
-
Deveau, H., Garneau, J.E., and Moineau, S. (2010) CRISPR/Cas system and its role in phage-bacteria interactions. Annu Rev Microbiol 64: 475-493.
-
(2010)
Annu Rev Microbiol
, vol.64
, pp. 475-493
-
-
Deveau, H.1
Garneau, J.E.2
Moineau, S.3
-
17
-
-
84871929212
-
-
Geneious v4.7. Biomatters, Auckland.
-
Drummond, A., Ashton, B., Cheung, M., Heled, J., Kearse, M., Moir, R., etal. (2009) Geneious v4.7. Biomatters, Auckland.
-
(2009)
-
-
Drummond, A.1
Ashton, B.2
Cheung, M.3
Heled, J.4
Kearse, M.5
Moir, R.6
-
18
-
-
33846975418
-
PILER-CR: fast and accurate identification of CRISPR repeats
-
Edgar, R.C. (2007) PILER-CR: fast and accurate identification of CRISPR repeats. BMC Bioinformatics 8: 18.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 18
-
-
Edgar, R.C.1
-
19
-
-
79956353002
-
Going deeper: metagenome of a hadopelagic microbial community
-
Eloe, E.A., Fadrosh, D.W., Novotny, M., Zeigler Allen, L., Kim, M., Lombardo, M.J., etal. (2011a) Going deeper: metagenome of a hadopelagic microbial community. PLoS ONE 6: e20388.
-
(2011)
PLoS ONE
, vol.6
-
-
Eloe, E.A.1
Fadrosh, D.W.2
Novotny, M.3
Zeigler Allen, L.4
Kim, M.5
Lombardo, M.J.6
-
20
-
-
80051921096
-
Compositional differences in particle-associated and free-living microbial assemblages from an extreme deep-ocean environment
-
Eloe, E.A., Shulse, C.N., Fadrosh, D.W., Williamson, S.J., Allen, E.E., and Bartlett, D.H. (2011b) Compositional differences in particle-associated and free-living microbial assemblages from an extreme deep-ocean environment. Environ Microbiol Rep 3: 449-458.
-
(2011)
Environ Microbiol Rep
, vol.3
, pp. 449-458
-
-
Eloe, E.A.1
Shulse, C.N.2
Fadrosh, D.W.3
Williamson, S.J.4
Allen, E.E.5
Bartlett, D.H.6
-
21
-
-
77949513645
-
SeqTrim: a high-throughput pipeline for pre-processing any type of sequence read
-
Falgueras, J., Lara, A.J., Fernandez-Pozo, N., Canton, F.R., Perez-Trabado, G., and Claros, M.G. (2010) SeqTrim: a high-throughput pipeline for pre-processing any type of sequence read. BMC Bioinformatics 11: 38.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 38
-
-
Falgueras, J.1
Lara, A.J.2
Fernandez-Pozo, N.3
Canton, F.R.4
Perez-Trabado, G.5
Claros, M.G.6
-
22
-
-
73449148325
-
Microbial community genomics in eastern Mediterranean Sea surface waters
-
Feingersch, R., Suzuki, M.T., Shmoish, M., Sharon, I., Sabehi, G., Partensky, F., etal. (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
-
23
-
-
41649114407
-
Microbial community gene expression in ocean surface waters
-
Frias-Lopez, J., Shi, Y., Tyson, G.W., Coleman, M.L., Schuster, S.C., Chisholm, S.W., etal. (2008) Microbial community gene expression in ocean surface waters. Proc Natl Acad Sci USA 105: 3805-3810.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 3805-3810
-
-
Frias-Lopez, J.1
Shi, Y.2
Tyson, G.W.3
Coleman, M.L.4
Schuster, S.C.5
Chisholm, S.W.6
-
24
-
-
23944523895
-
A census of membrane-bound and intracellular signal transduction proteins in bacteria: bacterial IQ, extroverts and introverts
-
Galperin, M.Y. (2005) A census of membrane-bound and intracellular signal transduction proteins in bacteria: bacterial IQ, extroverts and introverts. BMC Microbiol 5: 35.
-
(2005)
BMC Microbiol
, vol.5
, pp. 35
-
-
Galperin, M.Y.1
-
25
-
-
77956095592
-
Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing
-
Ghai, R., Martin-Cuadrado, A.B., Molto, A.G., Heredia, I.G., Cabrera, R., Martin, J., etal. (2010) Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing. ISME J 4: 1154-1166.
-
(2010)
ISME J
, vol.4
, pp. 1154-1166
-
-
Ghai, R.1
Martin-Cuadrado, A.B.2
Molto, A.G.3
Heredia, I.G.4
Cabrera, R.5
Martin, J.6
-
26
-
-
0002051540
-
BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
-
Hall, T.A. (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41: 95-98.
-
(1999)
Nucleic Acids Symp Ser
, vol.41
, pp. 95-98
-
-
Hall, T.A.1
-
27
-
-
77953942855
-
Dissolved organic matter in the ocean: new insights stimulated by a controversy
-
Hansell, D.A., Carlson, C.A., Repeta, D.J., and Schlitzer, R. (2009) Dissolved organic matter in the ocean: new insights stimulated by a controversy. Oceanography 22: 52-61.
-
(2009)
Oceanography
, vol.22
, pp. 52-61
-
-
Hansell, D.A.1
Carlson, C.A.2
Repeta, D.J.3
Schlitzer, R.4
-
28
-
-
18444408108
-
Contribution of Archaea to total prokaryotic production in the deep Atlantic Ocean
-
Herndl, G.J., Reinthaler, T., Teira, E., van Aken, H., Veth, C., Pernthaler, A., etal. (2005) Contribution of Archaea to total prokaryotic production in the deep Atlantic Ocean. Appl Environ Microbiol 71: 2303-2309.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 2303-2309
-
-
Herndl, G.J.1
Reinthaler, T.2
Teira, E.3
van Aken, H.4
Veth, C.5
Pernthaler, A.6
-
29
-
-
5044240973
-
Bellerophon: a program to detect chimeric sequences in multiple sequence alignments
-
Huber, T., Faulkner, G., and Hugenholtz, P. (2004) Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20: 2317-2319.
-
(2004)
Bioinformatics
, vol.20
, pp. 2317-2319
-
-
Huber, T.1
Faulkner, G.2
Hugenholtz, P.3
-
30
-
-
33847702910
-
MEGAN analysis of metagenomic data
-
Huson, D.H., Auch, A.F., Qi, J., and Schuster, S.C. (2007) MEGAN analysis of metagenomic data. Genome Res 17: 377-386.
-
(2007)
Genome Res
, vol.17
, pp. 377-386
-
-
Huson, D.H.1
Auch, A.F.2
Qi, J.3
Schuster, S.C.4
-
31
-
-
57349122987
-
Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter
-
Ivars-Martinez, E., Martin-Cuadrado, A.B., D'Auria, G., Mira, A., Ferriera, S., Johnson, J., etal. (2008) Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter. ISME J 2: 1194-1212.
-
(2008)
ISME J
, vol.2
, pp. 1194-1212
-
-
Ivars-Martinez, E.1
Martin-Cuadrado, A.B.2
D'Auria, G.3
Mira, A.4
Ferriera, S.5
Johnson, J.6
-
32
-
-
0345863935
-
The KEGG resource for deciphering the genome
-
Kanehisa, M., Goto, S., Kawashima, S., Okuno, Y., and Hattori, M. (2004) The KEGG resource for deciphering the genome. Nucleic Acids Res 32: D277-D280.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Kanehisa, M.1
Goto, S.2
Kawashima, S.3
Okuno, Y.4
Hattori, M.5
-
33
-
-
0034830930
-
Marine snow, organic solute plumes, and optimal sensory behaviour of bacteria
-
Kiørboe, T., and Jackson, G.A. (2001) Marine snow, organic solute plumes, and optimal sensory behaviour of bacteria. Linmol Oceanogr 46: 1309-1318.
-
(2001)
Linmol Oceanogr
, vol.46
, pp. 1309-1318
-
-
Kiørboe, T.1
Jackson, G.A.2
-
34
-
-
0021910579
-
Leucine incorporation and its potential as a measure of protein synthesis by bacteria in natural aquatic systems
-
Kirchman, D., K'nees, E., and Hodson, R. (1985) Leucine incorporation and its potential as a measure of protein synthesis by bacteria in natural aquatic systems. Appl Environ Microbiol 49: 599-607.
-
(1985)
Appl Environ Microbiol
, vol.49
, pp. 599-607
-
-
Kirchman, D.1
K'nees, E.2
Hodson, R.3
-
35
-
-
0001169290
-
Leucine incorporation as a measure of biomass production by heterotrophic bacteria
-
Kemp, P.F., Sherr, B.F., Sherr, E.B., and Cole, J.J. (eds). Boca Raton, FL, USA: Lewis Publishers -
-
Kirchman, D.L. (1993) Leucine incorporation as a measure of biomass production by heterotrophic bacteria. In Handbook of Methods in Aquatic Microbial Ecology. Vol. 58. Kemp, P.F., Sherr, B.F., Sherr, E.B., and Cole, J.J. (eds). Boca Raton, FL, USA: Lewis Publishers, pp. 509-512.
-
(1993)
Handbook of Methods in Aquatic Microbial Ecology
, vol.58
, pp. 509-512
-
-
Kirchman, D.L.1
-
36
-
-
0035173421
-
rrndb: the ribosomal RNA operon copy number database
-
Klappenbach, J.A., Saxman, P.R., Cole, J.R., and Schmidt, T.M. (2001) rrndb: the ribosomal RNA operon copy number database. Nucleic Acids Res 29: 181-184.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 181-184
-
-
Klappenbach, J.A.1
Saxman, P.R.2
Cole, J.R.3
Schmidt, T.M.4
-
37
-
-
68549085316
-
Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyre
-
Konstantinidis, K.T., Braff, J., Karl, D.M., and DeLong, E.F. (2009) Comparative metagenomic analysis of a microbial community residing at a depth of 4, 000 meters at station ALOHA in the North Pacific subtropical gyre. Appl Environ Microbiol 75: 5345-5355.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 5345-5355
-
-
Konstantinidis, K.T.1
Braff, J.2
Karl, D.M.3
DeLong, E.F.4
-
38
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz, S., Phillippy, A., Delcher, A.L., Smoot, M., Shumway, M., Antonescu, C., etal. (2004) Versatile and open software for comparing large genomes. Genome Biol 5: R12.
-
(2004)
Genome Biol
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
-
39
-
-
67349114821
-
Cultivation-independent assessment of the bathypelagic archaeal diversity of Tyrrhenian Sea: comparative study of rDNA and rRNA-derived libraries and influence of sample decompression
-
La Cono, V., Tamburini, C., Genovese, L., La Spada, G., Denaro, R., and Yakimov, M.M. (2009) Cultivation-independent assessment of the bathypelagic archaeal diversity of Tyrrhenian Sea: comparative study of rDNA and rRNA-derived libraries and influence of sample decompression. Deep Sea Res Part II Top Stud Oceanogr 56: 768-773.
-
(2009)
Deep Sea Res Part II Top Stud Oceanogr
, vol.56
, pp. 768-773
-
-
La Cono, V.1
Tamburini, C.2
Genovese, L.3
La Spada, G.4
Denaro, R.5
Yakimov, M.M.6
-
40
-
-
77955902997
-
Genomic signatures of fifth autotrophic carbon assimilation pathway in bathypelagic Crenarchaeota
-
La Cono, V., Smedile, F., Ferrer, M., Golyshin, P.N., Giuliano, L., and Yakimov, M.M. (2010) Genomic signatures of fifth autotrophic carbon assimilation pathway in bathypelagic Crenarchaeota. Microb Biotechnol 3: 595-606.
-
(2010)
Microb Biotechnol
, vol.3
, pp. 595-606
-
-
La Cono, V.1
Smedile, F.2
Ferrer, M.3
Golyshin, P.N.4
Giuliano, L.5
Yakimov, M.M.6
-
41
-
-
0001857117
-
16S/23S rRNA sequencing
-
Stackerbrandt, E., and Goodfellow, M. (eds). New York, NY, USA: Wiley -
-
Lane, D.J. (1991) 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics. Stackerbrandt, E., and Goodfellow, M. (eds). New York, NY, USA: Wiley, pp. 115-175.
-
(1991)
Nucleic Acid Techniques in Bacterial Systematics
, pp. 115-175
-
-
Lane, D.J.1
-
42
-
-
38049006515
-
Prokaryotic lifestyles in deep sea habitats
-
Lauro, F.M., and Bartlett, D.H. (2008) Prokaryotic lifestyles in deep sea habitats. Extremophiles 12: 15-25.
-
(2008)
Extremophiles
, vol.12
, pp. 15-25
-
-
Lauro, F.M.1
Bartlett, D.H.2
-
43
-
-
70349458100
-
The genomic basis of trophic strategy in marine bacteria
-
Lauro, F.M., Mc Dougald, D., Thomas, T., Williams, T.J., Egan, S., Rice, S., etal. (2009) The genomic basis of trophic strategy in marine bacteria. Proc Natl Acad Sci USA 106: 15527-15533.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 15527-15533
-
-
Lauro, F.M.1
Mc Dougald, D.2
Thomas, T.3
Williams, T.J.4
Egan, S.5
Rice, S.6
-
44
-
-
2542523843
-
ARB: a software environment for sequence data
-
Ludwig, W., Strunk, O., Westram, R., Richter, L., Meier, H., Yadhukumar, etal. (2004) ARB: a software environment for sequence data. Nucleic Acids Res 32: 1363-1371.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1363-1371
-
-
Ludwig, W.1
Strunk, O.2
Westram, R.3
Richter, L.4
Meier, H.5
Yadhukumar6
-
45
-
-
79956157571
-
Evolution and classification of the CRISPR-Cas systems
-
Makarova, K.S., Haft, D.H., Barrangou, R., Brouns, S.J., Charpentier, E., Horvath, P., etal. (2011) Evolution and classification of the CRISPR-Cas systems. Nat Rev Microbiol 9: 467-477.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 467-477
-
-
Makarova, K.S.1
Haft, D.H.2
Barrangou, R.3
Brouns, S.J.4
Charpentier, E.5
Horvath, P.6
-
46
-
-
0031408169
-
A synthesis of the Ionian Sea hydrography, circulation and watermass pathways during POEM-Phase I
-
Malanotte-Rizzoli, P., Manca, B.B., Ribera D'Alcalà, M., Theocharis, A., Bergamasco, A., Bregant, D., etal. (1997) A synthesis of the Ionian Sea hydrography, circulation and watermass pathways during POEM-Phase I. Prog Oceanogr 39: 153-204.
-
(1997)
Prog Oceanogr
, vol.39
, pp. 153-204
-
-
Malanotte-Rizzoli, P.1
Manca, B.B.2
Ribera D'Alcalà, M.3
Theocharis, A.4
Bergamasco, A.5
Bregant, D.6
-
47
-
-
39149124249
-
Metagenomics of the deep Mediterranean, a warm bathypelagic habitat
-
Martin-Cuadrado, A.B., López-García, P., Alba, J.C., Moreira, D., Monticelli, L., Strittmatter, A., etal. (2007) Metagenomics of the deep Mediterranean, a warm bathypelagic habitat. PLoS ONE 2: e914.
-
(2007)
PLoS ONE
, vol.2
-
-
Martin-Cuadrado, A.B.1
López-García, P.2
Alba, J.C.3
Moreira, D.4
Monticelli, L.5
Strittmatter, A.6
-
48
-
-
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, A.B., Rodriguez-Valera, F., Moreira, D., Alba, J.C., Ivars-Martínez, E., Henn, M.R., etal. (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 2: 865-886.
-
(2008)
ISME J
, vol.2
, 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
-
49
-
-
72949103084
-
CO dehydrogenase genes found in metagenomic fosmid clones from the deep Mediterranean Sea
-
Martin-Cuadrado, A.B., Ghai, R., Gonzaga, A., and Rodriguez-Valera, F. (2009) CO dehydrogenase genes found in metagenomic fosmid clones from the deep Mediterranean Sea. Appl Environ Microbiol 75: 7436-7444.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 7436-7444
-
-
Martin-Cuadrado, A.B.1
Ghai, R.2
Gonzaga, A.3
Rodriguez-Valera, F.4
-
50
-
-
35348928750
-
Marine amphiphilic siderophores: marinobactin structure, uptake, and microbial partitioning
-
Martinez, J.S., and Butler, A. (2007) Marine amphiphilic siderophores: marinobactin structure, uptake, and microbial partitioning. J Inorg Biochem 101: 1692-1698.
-
(2007)
J Inorg Biochem
, vol.101
, pp. 1692-1698
-
-
Martinez, J.S.1
Butler, A.2
-
51
-
-
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, E.M., Kubal, M., etal. (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
-
52
-
-
25644458211
-
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
-
Overbeek, R., Begley, T., Butler, R.M., Choudhuri, J.V., Chuang, H.Y., Cohoon, M., etal. (2005) The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 33: 5691-5702.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5691-5702
-
-
Overbeek, R.1
Begley, T.2
Butler, R.M.3
Choudhuri, J.V.4
Chuang, H.Y.5
Cohoon, M.6
-
53
-
-
48749116908
-
Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre
-
Pham, V.D., Konstantinidis, K.T., Palden, T., and DeLong, E.F. (2008) Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre. Environ Microbiol 10: 2313-2330.
-
(2008)
Environ Microbiol
, vol.10
, pp. 2313-2330
-
-
Pham, V.D.1
Konstantinidis, K.T.2
Palden, T.3
DeLong, E.F.4
-
54
-
-
0021674570
-
Validity of the tritiated thymidine methods for estimating bacterial growth rates: measurement of isotope dilution during DNA synthesis
-
Pollard, P.C., and Moriarty, D.J.W. (1984) Validity of the tritiated thymidine methods for estimating bacterial growth rates: measurement of isotope dilution during DNA synthesis. Appl Environ Microbiol 48: 1076-1083.
-
(1984)
Appl Environ Microbiol
, vol.48
, pp. 1076-1083
-
-
Pollard, P.C.1
Moriarty, D.J.W.2
-
55
-
-
66649089244
-
Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre
-
Poretsky, R.S., Hewson, I., Sun, S., Allen, A.E., Zehr, J.P., and Moran, M.A. (2009) Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre. Environ Microbiol 11: 1358-1375.
-
(2009)
Environ Microbiol
, vol.11
, pp. 1358-1375
-
-
Poretsky, R.S.1
Hewson, I.2
Sun, S.3
Allen, A.E.4
Zehr, J.P.5
Moran, M.A.6
-
56
-
-
84986870589
-
The use of DAPI for identifying and counting aquatic microflora
-
Porter, K.G., and Feig, Y.S. (1980) The use of DAPI for identifying and counting aquatic microflora. Limnol Oceanogr 25: 943-948.
-
(1980)
Limnol Oceanogr
, vol.25
, pp. 943-948
-
-
Porter, K.G.1
Feig, Y.S.2
-
57
-
-
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, B.M., Ludwig, W., Peplies, J., etal. (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
Quast, C.2
Knittel, K.3
Fuchs, B.M.4
Ludwig, W.5
Peplies, J.6
-
58
-
-
78751579207
-
Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara
-
Quaiser, A., Zivanovic, Y., Moreira, D., and López-García, P. (2011) Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara. ISME J 5: 285-304.
-
(2011)
ISME J
, vol.5
, pp. 285-304
-
-
Quaiser, A.1
Zivanovic, Y.2
Moreira, D.3
López-García, P.4
-
59
-
-
33847280283
-
Prediction of effective genome size in metagenomic samples
-
Raes, J., Korbel, J.O., Lercher, M.J., von Mering, C., and Bork, P. (2007) Prediction of effective genome size in metagenomic samples. Genome Biol 8: R10.
-
(2007)
Genome Biol
, vol.8
-
-
Raes, J.1
Korbel, J.O.2
Lercher, M.J.3
von Mering, C.4
Bork, P.5
-
60
-
-
18444373562
-
Relationship between bacterioplankton richness, respiration, and production in the Southern North Sea
-
Reinthaler, T., Winter, C., and Herndl, G.J. (2005) Relationship between bacterioplankton richness, respiration, and production in the Southern North Sea. Appl Environ Microbiol 71: 2260-2266.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 2260-2266
-
-
Reinthaler, T.1
Winter, C.2
Herndl, G.J.3
-
61
-
-
77954212697
-
Major contribution of autotrophy to microbial carbon cycling in the deep North Atlantic's interior
-
Reinthaler, T., van Aken, H.M., and Herndl, G.J. (2010) Major contribution of autotrophy to microbial carbon cycling in the deep North Atlantic's interior. Deep Sea Res Part II Top Stud Oceanogr 57: 1572-1580.
-
(2010)
Deep Sea Res Part II Top Stud Oceanogr
, vol.57
, pp. 1572-1580
-
-
Reinthaler, T.1
van Aken, H.M.2
Herndl, G.J.3
-
62
-
-
0012642486
-
Heterotrophic assimilation of CO2 by bacterial flora of water
-
Romanenko, V.I. (1964) Heterotrophic assimilation of CO2 by bacterial flora of water. Mikrobiologiya 33: 610-613.
-
(1964)
Mikrobiologiya
, vol.33
, pp. 610-613
-
-
Romanenko, V.I.1
-
63
-
-
33947238287
-
The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific
-
Rusch, D.B., Halpern, A.L., Sutton, G., Heidelberg, K.B., Williamson, S., Yooseph, S., etal. (2007) The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol 5: e77.
-
(2007)
PLoS Biol
, vol.5
-
-
Rusch, D.B.1
Halpern, A.L.2
Sutton, G.3
Heidelberg, K.B.4
Williamson, S.5
Yooseph, S.6
-
64
-
-
0027387858
-
Trace-metal distributions in seawater and anoxic brines in the eastern Mediterranean Sea
-
Saager, P.M., Schijf, J., and de Baar, H.J.W. (1993) Trace-metal distributions in seawater and anoxic brines in the eastern Mediterranean Sea. Geochim Cosmochim Acta 57: 1419-1432.
-
(1993)
Geochim Cosmochim Acta
, vol.57
, pp. 1419-1432
-
-
Saager, P.M.1
Schijf, J.2
de Baar, H.J.W.3
-
65
-
-
0037311919
-
TM4: a free, open-source system for microarray data management and analysis
-
Saeed, A.I., Sharov, V., White, J., Li, J., Liang, W., Bhagabati, N., etal. (2003) TM4: a free, open-source system for microarray data management and analysis. Biotechniques 34: 374-378.
-
(2003)
Biotechniques
, vol.34
, pp. 374-378
-
-
Saeed, A.I.1
Sharov, V.2
White, J.3
Li, J.4
Liang, W.5
Bhagabati, N.6
-
66
-
-
77954144198
-
DOC dynamics in the meso and bathypelagic layers of the Mediterranean Sea
-
Santinelli, C., Nannicini, L., and Seritti, A. (2010) DOC dynamics in the meso and bathypelagic layers of the Mediterranean Sea. Deep Sea Res Part II Top Stud Oceanogr 57: 1446-1459.
-
(2010)
Deep Sea Res Part II Top Stud Oceanogr
, vol.57
, pp. 1446-1459
-
-
Santinelli, C.1
Nannicini, L.2
Seritti, A.3
-
67
-
-
0347169240
-
Relationships between dissolved organic carbon (DOC) and water mass structure in the Ionian Sea (winter 1999)
-
Seritti, A., Manca, B.B., Santinelli, C., Murru, E., Boldrin, A., and Nannicini, L. (2003) Relationships between dissolved organic carbon (DOC) and water mass structure in the Ionian Sea (winter 1999). J Geophys Res 108: 8112.
-
(2003)
J Geophys Res
, vol.108
, pp. 8112
-
-
Seritti, A.1
Manca, B.B.2
Santinelli, C.3
Murru, E.4
Boldrin, A.5
Nannicini, L.6
-
68
-
-
66149130975
-
Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column
-
Shi, Y., Tyson, G.W., and DeLong, E.F. (2009) Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column. Nature 459: 266-269.
-
(2009)
Nature
, vol.459
, pp. 266-269
-
-
Shi, Y.1
Tyson, G.W.2
DeLong, E.F.3
-
69
-
-
0001123060
-
A simple, economical method for measuring bacterial protein synthesis rates in seawater using 3H-leucine
-
Smith, D.C., and Azam, F. (1992) A simple, economical method for measuring bacterial protein synthesis rates in seawater using 3H-leucine. Mar Microbial Food Webs 6: 107-114.
-
(1992)
Mar Microbial Food Webs
, vol.6
, pp. 107-114
-
-
Smith, D.C.1
Azam, F.2
-
70
-
-
33747073504
-
Microbial diversity in the deep sea and the underexplored 'rare biosphere'
-
Sogin, M.L., Morrison, H.G., Huber, J.A., Mark Welch, D., Huse, S.M., Neal, P.R., etal. (2006) Microbial diversity in the deep sea and the underexplored 'rare biosphere'. Proc Natl Acad Sci USA 103: 12115-12120.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 12115-12120
-
-
Sogin, M.L.1
Morrison, H.G.2
Huber, J.A.3
Mark Welch, D.4
Huse, S.M.5
Neal, P.R.6
-
71
-
-
53249140327
-
Microbiological analysis of the population of extremely haloalkaliphilic sulfur-oxidizing bacteria dominating in lab-scale sulfide-removing bioreactors
-
Sorokin, D.Y., van den Bosch, P.L., Abbas, B., Janssen, A.J., and Muyzer, G. (2008) Microbiological analysis of the population of extremely haloalkaliphilic sulfur-oxidizing bacteria dominating in lab-scale sulfide-removing bioreactors. Appl Microbiol Biotechnol 80: 965-975.
-
(2008)
Appl Microbiol Biotechnol
, vol.80
, pp. 965-975
-
-
Sorokin, D.Y.1
van den Bosch, P.L.2
Abbas, B.3
Janssen, A.J.4
Muyzer, G.5
-
73
-
-
0037647479
-
Subduction zones
-
Stern, R.J. (2002) Subduction zones. Rev Geophys 40: 1012.
-
(2002)
Rev Geophys
, vol.40
, pp. 1012
-
-
Stern, R.J.1
-
74
-
-
80052479893
-
Potential for chemolithoautotrophy among ubiquitous bacteria lineages in the dark ocean
-
Swan, B.K., Martinez-Garcia, M., Preston, C.M., Sczyrba, A., Woyke, T., Lamy, D., etal. (2011) Potential for chemolithoautotrophy among ubiquitous bacteria lineages in the dark ocean. Science 333: 1296-1300.
-
(2011)
Science
, vol.333
, pp. 1296-1300
-
-
Swan, B.K.1
Martinez-Garcia, M.2
Preston, C.M.3
Sczyrba, A.4
Woyke, T.5
Lamy, D.6
-
75
-
-
0033766069
-
Rapid detection and quantification of members of the archaeal community by quantitative PCR using fluorogenic probes
-
Takai, K., and Horikoshi, K. (2000) Rapid detection and quantification of members of the archaeal community by quantitative PCR using fluorogenic probes. Appl Environ Microbiol 11: 5066-5074.
-
(2000)
Appl Environ Microbiol
, vol.11
, pp. 5066-5074
-
-
Takai, K.1
Horikoshi, K.2
-
76
-
-
79957613599
-
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and 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
-
77
-
-
0042902833
-
The COG database: an updated version includes eukaryotes
-
Tatusov, R.L., Fedorova, N.D., Jackson, J.D., Jacobs, A.R., Kiryutin, B., Koonin, E.V., etal. (2003) The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4: 41.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 41
-
-
Tatusov, R.L.1
Fedorova, N.D.2
Jackson, J.D.3
Jacobs, A.R.4
Kiryutin, B.5
Koonin, E.V.6
-
78
-
-
11144354360
-
Environmental genome shotgun sequencing of the Sargasso Sea
-
Venter, J.C., Remington, K., Heidelberg, J.F., Halpern, A.L., Rusch, D., Eisen, J.A., etal. (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
-
79
-
-
84871939248
-
-
Nanomolar ammonia concentrations in the Western Mediterranean Sea. 5th EROS 2000 Workshop, Hambourg, March 28-30.
-
Woodward, E.M.S. (1994) Nanomolar ammonia concentrations in the Western Mediterranean Sea. 5th EROS 2000 Workshop, Hambourg, March 28-30.
-
(1994)
-
-
Woodward, E.M.S.1
-
80
-
-
34250832787
-
Comparative analysis of predicted gene expression among deep-sea genomes
-
Xu, K., and Ma, B.G. (2007) Comparative analysis of predicted gene expression among deep-sea genomes. Gene 397: 136-142.
-
(2007)
Gene
, vol.397
, pp. 136-142
-
-
Xu, K.1
Ma, B.G.2
-
81
-
-
36849028081
-
Primary producing prokaryotic communities of brine, interface and seawater above the halocline of deep anoxic lake L'Atalante, Eastern Mediterranean Sea
-
Yakimov, M.M., La Cono, V., Denaro, R., D'Auria, G., Decembrini, F., Timmis, K.N., etal. (2007) Primary producing prokaryotic communities of brine, interface and seawater above the halocline of deep anoxic lake L'Atalante, Eastern Mediterranean Sea. ISME J 1: 743-755.
-
(2007)
ISME J
, vol.1
, pp. 743-755
-
-
Yakimov, M.M.1
La Cono, V.2
Denaro, R.3
D'Auria, G.4
Decembrini, F.5
Timmis, K.N.6
-
82
-
-
79956280960
-
Contribution of crenarchaeal autotrophic ammonia oxidizers to the dark primary production in Tyrrhenian deep waters (Central Mediterranean Sea)
-
Yakimov, M.M., La Cono, V., Smedile, F., Deluca, T.H., Juárez, S., Ciordia, S., etal. (2011) Contribution of crenarchaeal autotrophic ammonia oxidizers to the dark primary production in Tyrrhenian deep waters (Central Mediterranean Sea). ISME J 5: 945-961.
-
(2011)
ISME J
, vol.5
, pp. 945-961
-
-
Yakimov, M.M.1
La Cono, V.2
Smedile, F.3
Deluca, T.H.4
Juárez, S.5
Ciordia, S.6
|