-
1
-
-
84883404871
-
Microbial control of the dark end of the biological pump
-
Herndl GJ, Reinthaler T (2013) Microbial control of the dark end of the biological pump. Nat Geosci 6: 718-724.
-
(2013)
Nat Geosci
, vol.6
, pp. 718-724
-
-
Herndl, G.J.1
Reinthaler, T.2
-
3
-
-
0025678006
-
Warming trend in the western Mediterranean deep water
-
Béthoux JP, Gentili B, Raunet J, Tailliez D (1990) Warming trend in the western Mediterranen deep water. Nature 347: 660-662. (Pubitemid 120029000)
-
(1990)
Nature
, vol.347
, Issue.6294
, pp. 660-662
-
-
Bethoux, J.P.1
Gentili, B.2
Raunet, J.3
Tailliez, D.4
-
4
-
-
61649094707
-
Seasonal changes of bacterial and archaeal communities in the dark ocean: Evidence from the Mediterranean Sea
-
Winter C, Kerros M-E, Weinbauer MG (2009) Seasonal changes of bacterial and archaeal communities in the dark ocean: Evidence from the Mediterranean Sea. Limnol Oceanogr 54: 160-170.
-
(2009)
Limnol Oceanogr
, vol.54
, pp. 160-170
-
-
Winter, C.1
Kerros, M.-E.2
Weinbauer, M.G.3
-
5
-
-
71749111285
-
Seasonal and depth-related dynamics of prokaryotes and viruses in surface and deep waters of the northwestern Mediterranean Sea
-
Winter C, Kerros M-E, Weinbauer MG (2009) Seasonal and depth-related dynamics of prokaryotes and viruses in surface and deep waters of the northwestern Mediterranean Sea. Deep-Sea Res I 56: 1972-1982.
-
(2009)
Deep-Sea Res I
, vol.56
, pp. 1972-1982
-
-
Winter, C.1
Kerros, M.-E.2
Weinbauer, M.G.3
-
6
-
-
77958540602
-
Randomly amplified polymorphic DNA reveals tight links between viruses and microbes in the bathypelagic zone of the Northwestern Mediterranean Sea
-
Winter C, Weinbauer MG (2010) Randomly amplified polymorphic DNA reveals tight links between viruses and microbes in the bathypelagic zone of the Northwestern Mediterranean Sea. Appl Environ Microbiol 76: 6724-6732.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 6724-6732
-
-
Winter, C.1
Weinbauer, M.G.2
-
7
-
-
0033542481
-
Marine viruses and their biogeochemical and ecological effects
-
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
-
8
-
-
0032858844
-
Viruses and nutrient cycles in the sea
-
Wilhelm SW, Suttle CA (1999) Viruses and nutrient cycles in the sea. BioScience 49: 781-788. (Pubitemid 29456233)
-
(1999)
BioScience
, vol.49
, Issue.10
, pp. 781-788
-
-
Wilhelm, S.W.1
Suttle, C.A.2
-
9
-
-
34548792911
-
Marine viruses - major players in the global ecosystem
-
Suttle CA (2007) Marine viruses - major players in the global ecosystem. Nature Rev Microbiol 5: 801-812.
-
(2007)
Nature Rev Microbiol
, vol.5
, pp. 801-812
-
-
Suttle, C.A.1
-
10
-
-
41649109613
-
Functional metagenomic profiling of nine biomes
-
DOI 10.1038/nature06810, PII NATURE06810
-
Dinsdale EA, Edwards RA, Hall D, Angly F, Breitbart M, et al. (2008) Functional metagenomic profiling of nine biomes. Nature 452: 629-632. (Pubitemid 351483360)
-
(2008)
Nature
, vol.452
, Issue.7187
, pp. 629-632
-
-
Dinsdale, E.A.1
Edwards, R.A.2
Hall, D.3
Angly, F.4
Breitbart, M.5
Brulc, J.M.6
Furlan, M.7
Desnues, C.8
Haynes, M.9
Li, L.10
McDaniel, L.11
Moran, M.A.12
Nelson, K.E.13
Nilsson, C.14
Olson, R.15
Paul, J.16
Brito, B.R.17
Ruan, Y.18
Swan, B.K.19
Stevens, R.20
Valentine, D.L.21
Thurber, R.V.22
Wegley, L.23
White, B.A.24
Rohwer, F.25
more..
-
11
-
-
77952670727
-
Viral and microbial community dynamics in four aquatic environments
-
Rodriguez-Brito B, Li LL, Wegley L, Furlan M, Angly F, et al. (2010) Viral and microbial community dynamics in four aquatic environments. ISME J 4: 739-751.
-
(2010)
ISME J
, vol.4
, pp. 739-751
-
-
Rodriguez-Brito, B.1
Li, L.L.2
Wegley, L.3
Furlan, M.4
Angly, F.5
-
12
-
-
20344382957
-
Here a virus, there a virus, everywhere the same virus?
-
DOI 10.1016/j.tim.2005.04.003, PII S0966842X05001083
-
Breitbart M, Rohwer F (2005) Here a virus, there a virus, everywhere the same virus? Trends Microbiol 13: 278-284. (Pubitemid 40779816)
-
(2005)
Trends in Microbiology
, vol.13
, Issue.6
, pp. 278-284
-
-
Breitbart, M.1
Rohwer, F.2
-
14
-
-
33748453207
-
On the origin of microbial ORFans: Quantifying the strength of the evidence for viral lateral transfer
-
Yin Y, Fischer D (2006) On the origin of microbial ORFans: quantifying the strength of the evidence for viral lateral transfer. BMC Evol Biol 6: 63.
-
(2006)
BMC Evol Biol
, vol.6
, pp. 63
-
-
Yin, Y.1
Fischer, D.2
-
15
-
-
70350180460
-
Explaining microbial population genomics through phage predation
-
Rodriguez-Valera F, Martin-Cuadrado A-B, Rodriguez-Brito B, Pašić L, Thingstad TF, et al. (2009) Explaining microbial population genomics through phage predation. Nature Rev Microbiol 7: 828-836.
-
(2009)
Nature Rev Microbiol
, vol.7
, pp. 828-836
-
-
Rodriguez-Valera, F.1
Martin-Cuadrado, A.-B.2
Rodriguez-Brito, B.3
Pašić, L.4
Thingstad, T.F.5
-
16
-
-
0033826796
-
Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems
-
Thingstad TF (2000) Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems. Limnol Oceanogr 45: 1320-1328.
-
(2000)
Limnol Oceanogr
, vol.45
, pp. 1320-1328
-
-
Thingstad, T.F.1
-
17
-
-
77749309301
-
Trade-offs between competition and defense specialists among unicellular planktonic organisms: The "killing the winner" hypothesis revisited
-
Winter C, Bouvier T, Weinbauer MG, Thingstad TF (2010) Trade-offs between competition and defense specialists among unicellular planktonic organisms: the "killing the winner" hypothesis revisited. Microb Mol Biol Rev 74: 42-57.
-
(2010)
Microb Mol Biol Rev
, vol.74
, pp. 42-57
-
-
Winter, C.1
Bouvier, T.2
Weinbauer, M.G.3
Thingstad, T.F.4
-
18
-
-
33751059692
-
The marine viromes of four oceanic regions
-
Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, 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
-
19
-
-
78651277082
-
Water mass-specificty of bacterial communities in the North Atlantic revealed by massively parallel sequencing
-
Agogué H, Lamy D, Neal PR, Sogin M, Herndl GJ (2011) Water mass-specificty of bacterial communities in the North Atlantic revealed by massively parallel sequencing. Mol Ecol 20: 258-274.
-
(2011)
Mol Ecol
, vol.20
, pp. 258-274
-
-
Agogué, H.1
Lamy, D.2
Neal, P.R.3
Sogin, M.4
Herndl, G.J.5
-
20
-
-
0003244274
-
Enumeration of phytoplankton, bacteria, and viruses in marine samples
-
Robinson JP, Darzynkiewicz Z, Dean PN, Orfao A, Rabinovitch PS, Stewart CC, Tanke HJ, Wheeless LL, editors. New York: John Wiley & Sons
-
Marie D, Partensky F, Vaulot D, Brussaard CPD (1999) Enumeration of phytoplankton, bacteria, and viruses in marine samples. In: Robinson JP, Darzynkiewicz Z, Dean PN, Orfao A, Rabinovitch PS, Stewart CC, Tanke HJ, Wheeless LL, editors. Current protocols in cytometry. New York: John Wiley & Sons. pp. 11.11.1-11.11.15.
-
(1999)
Current Protocols in Cytometry
-
-
Marie, D.1
Partensky, F.2
Vaulot, D.3
Brussaard, C.P.D.4
-
21
-
-
1642386112
-
Optimization of procedures for counting viruses by flow cytometry
-
Brussaard CPD (2004) Optimization of procedures for counting viruses by flow cytometry. Appl Environ Microbiol 70: 1506-1513.
-
(2004)
Appl Environ Microbiol
, vol.70
, pp. 1506-1513
-
-
Brussaard, C.P.D.1
-
22
-
-
79952422304
-
Quality control and preprocessing of metagenomics datasets
-
Schmieder R, Edwards R (2011) Quality control and preprocessing of metagenomics datasets. Bioinformatics 27: 863-864.
-
(2011)
Bioinformatics
, vol.27
, pp. 863-864
-
-
Schmieder, R.1
Edwards, R.2
-
23
-
-
79952390994
-
Fast identification and removal of sequence contamination from genomic and metagenomic datasets
-
Schmieder R, Edwards R (2011) Fast identification and removal of sequence contamination from genomic and metagenomic datasets. PLoS ONE 6: e17288.
-
(2011)
PLoS ONE
, vol.6
-
-
Schmieder, R.1
Edwards, R.2
-
24
-
-
0032964297
-
BLAST 2 SEQUENCES, a new tool for comparing protein and nucleotide sequences
-
DOI 10.1016/S0378-1097(99)00149-4, PII S0378109799001494
-
Tatusova TA, Madden TL (1999) Blast 2 Sequences, a new tool for comparing protein and nucleotide sequences. FEMS Microbiol Lett 174: 247-250. (Pubitemid 29217013)
-
(1999)
FEMS Microbiology Letters
, vol.174
, Issue.2
, pp. 247-250
-
-
Tatusova, T.A.1
Madden, T.L.2
-
25
-
-
74549198200
-
The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes
-
Angly FE, Willner D, Prieto-Davó A, Edwards RA, Schmieder R, et al. (2009) The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. PLoS Comp Biol 5: e1000593.
-
(2009)
PLoS Comp Biol
, vol.5
-
-
Angly, F.E.1
Willner, D.2
Prieto-Davó, A.3
Edwards, R.A.4
Schmieder, R.5
-
26
-
-
80054911634
-
Metavir: A web server dedicated to virome analysis
-
Roux S, Faubladier M, Mahul A, Paulhe N, Bernard A, et al. (2011) Metavir: a web server dedicated to virome analysis. Bioinformatics 27: 3074-3075.
-
(2011)
Bioinformatics
, vol.27
, pp. 3074-3075
-
-
Roux, S.1
Faubladier, M.2
Mahul, A.3
Paulhe, N.4
Bernard, A.5
-
27
-
-
84859436530
-
NCBI reference sequences (RefSeq): Current status, new features and genome annotation policy
-
Pruitt KD, Tatusova T, Brown GR, Maglott DR (2012) NCBI reference sequences (RefSeq): current status, new features and genome annotation policy. Nucl Acid Res 40: D130-D135.
-
(2012)
Nucl Acid Res
, vol.40
-
-
Pruitt, K.D.1
Tatusova, T.2
Brown, G.R.3
Maglott, D.R.4
-
28
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
DOI 10.1093/nar/gkl842
-
Pruitt KD, Tatusova T, Maglott DR (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucl Acid Res 35: D61-D65. (Pubitemid 46056171)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL. 1
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
29
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (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
-
31
-
-
0036273581
-
Full-depth profile (0-2000 m) of bacteria, heterotrophic nanoflagellates and ciliates in the NW Mediterranean Sea: Vertical partitioning of microbial trophic structures
-
DOI 10.1016/S0967-0645(02)00029-2, PII S0967064502000292
-
Tanaka T, Rassoulzadegan F (2002) Full-depth profile (0-2000 m) of bacteria, heterotrophic nanoflagellates and ciliates in the NW Mediterranean Sea: vertical partitioning of microbe trophic structures. Deep-Sea Res II 49: 2093-2107. (Pubitemid 34609047)
-
(2002)
Deep-Sea Research Part II: Topical Studies in Oceanography
, vol.49
, Issue.11
, pp. 2093-2107
-
-
Tanaka, T.1
Rassoulzadegan, F.2
-
32
-
-
33747073504
-
Microbial diversity in the deep sea and the underexplored "rare biosphere"
-
DOI 10.1073/pnas.0605127103
-
Sogin ML, Morrison HG, Huber JA, Welch DM, Huse SM, et al. (2006) Microbial diversity in the deep sea and the unexplored "rare biosphere". Proc Natl Acad Sci USA 103: 12115-12120. (Pubitemid 44215820)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.32
, pp. 12115-12120
-
-
Sogin, M.L.1
Morrison, H.G.2
Huber, J.A.3
Welch, D.M.4
Huse, S.M.5
Neal, P.R.6
Arrieta, J.M.7
Herndl, G.J.8
-
33
-
-
84958101820
-
Ultrafiltration and its application to aquatic colloids
-
Wilkinson KJ, Lead JR, editors. Chichester: John Wiley & Sons
-
Guo L, Santschi PH (2007) Ultrafiltration and its application to aquatic colloids. In: Wilkinson KJ, Lead JR, editors. Environmental colloids and particles: behaviour, separation and characterisation, vol 10. Chichester: John Wiley & Sons. pp. 159-220.
-
(2007)
Environmental Colloids and Particles: Behaviour, Separation and Characterisation
, vol.10
, pp. 159-220
-
-
Guo, L.1
Santschi, P.H.2
-
34
-
-
48249105419
-
Taxonomic distribution of large DNA viruses in the sea
-
Monier A, Claverie J-M, Ogata H (2008) Taxonomic distribution of large DNA viruses in the sea. Genome Biol 9: R106.
-
(2008)
Genome Biol
, vol.9
-
-
Monier, A.1
Claverie, J.-M.2
Ogata, H.3
-
35
-
-
33845613147
-
Phage-Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences
-
DOI 10.1093/nar/gkl732
-
Fouts DE (2006) Phage-Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences. Nucl Acids Res 34: 5839-5851. (Pubitemid 44941163)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.20
, pp. 5839-5851
-
-
Fouts, D.E.1
-
36
-
-
1942521220
-
Genomic organization and molecular analysis of the inducible prophage EJ-1, a mosaic myovirus from an atypical pneumococcus
-
DOI 10.1016/j.virol.2004.01.029, PII S0042682204001199
-
Romero P, López R, García E (2004) Genomic organization and molecular analysis of the inducible prophage EJ-1, a mosaic myovirus from an atypical pneumococcus. Virology 322: 239-252. (Pubitemid 38521139)
-
(2004)
Virology
, vol.322
, Issue.2
, pp. 239-252
-
-
Romero, P.1
Lopez, R.2
Garcia, E.3
|