-
1
-
-
84876492379
-
Microbial individuality in the natural environment
-
Ackermann M, (2013) Microbial individuality in the natural environment. The ISME Journal, 7, 465-467.
-
(2013)
The ISME Journal
, vol.7
, pp. 465-467
-
-
Ackermann, M.1
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schäffer AA, et al,. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, 25, 3389-3402.
-
(1997)
Nucleic Acids Research
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
-
3
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M, Ball CA, Blake JA, et al,. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nature Genetics, 25, 25-29.
-
(2000)
Nature Genetics
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
-
4
-
-
80054744476
-
Metabolic diversity among main microorganisms inside an arsenic-rich ecosystem revealed by meta- and proteo-genomics
-
Bertin PN, Heinrich-Salmeron A, Pelletier E, et al,. (2011) Metabolic diversity among main microorganisms inside an arsenic-rich ecosystem revealed by meta- and proteo-genomics. The ISME Journal, 5, 1735-1747.
-
(2011)
The ISME Journal
, vol.5
, pp. 1735-1747
-
-
Bertin, P.N.1
Heinrich-Salmeron, A.2
Pelletier, E.3
-
5
-
-
77954834592
-
Average genome size: A potential source of bias in comparative metagenomics
-
Beszteri B, Temperton B, Frickenhaus S, Giovannoni SJ, (2010) Average genome size: a potential source of bias in comparative metagenomics. The ISME Journal, 4, 1075-1077.
-
(2010)
The ISME Journal
, vol.4
, pp. 1075-1077
-
-
Beszteri, B.1
Temperton, B.2
Frickenhaus, S.3
Giovannoni, S.J.4
-
6
-
-
48749117805
-
Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment
-
Biddle JF, Fitz-Gibbon S, Schuster SC, Brenchley JE, House CH, (2008) Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment. Proceedings of the National Academy of Sciences of the United States of America, 105, 10583-10588.
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, pp. 10583-10588
-
-
Biddle, J.F.1
Fitz-Gibbon, S.2
Schuster, S.C.3
Brenchley, J.E.4
House, C.H.5
-
7
-
-
79956277593
-
Metagenomics of the subsurface Brazos-Trinity Basin (IODP site 1320): Comparison with other sediment and pyrosequenced metagenomes
-
Biddle JF, White JR, Teske AP, House CH, (2011) Metagenomics of the subsurface Brazos-Trinity Basin (IODP site 1320): comparison with other sediment and pyrosequenced metagenomes. The ISME Journal, 5, 1038-1047.
-
(2011)
The ISME Journal
, vol.5
, pp. 1038-1047
-
-
Biddle, J.F.1
White, J.R.2
Teske, A.P.3
House, C.H.4
-
8
-
-
0034387298
-
Estimating the number of shared species in two communities
-
Chao A, Hwang W-H, Chen Y-C, Kuo C-Y, (2000) Estimating the number of shared species in two communities. Statistica Sinica, 10, 227-246.
-
(2000)
Statistica Sinica
, vol.10
, pp. 227-246
-
-
Chao, A.1
Hwang, W.-H.2
Chen, Y.-C.3
Kuo, C.-Y.4
-
9
-
-
3843098248
-
Arsenic crisis in Bangladesh
-
Chowdhury AMR, (2004) Arsenic crisis in Bangladesh. Scientific American, 291, 86-91.
-
(2004)
Scientific American
, vol.291
, pp. 86-91
-
-
Chowdhury, A.M.R.1
-
10
-
-
78650154727
-
Temporal transcriptomic response during arsenic stress in Herminiimonas arsenicoxydans
-
Cleiss-Arnold J, Koechler S, Proux C, et al,. (2010) Temporal transcriptomic response during arsenic stress in Herminiimonas arsenicoxydans. BMC Genomics, 11, 709.
-
(2010)
BMC Genomics
, vol.11
, pp. 709
-
-
Cleiss-Arnold, J.1
Koechler, S.2
Proux, C.3
-
11
-
-
84860833500
-
Reorganizing the protein space at the Universal Protein Resource (UniProt)
-
Consortium TU, (2011) Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Research, 40, D71-D75.
-
(2011)
Nucleic Acids Research
, vol.40
-
-
Consortium, T.U.1
-
12
-
-
84859847158
-
Thioarsenate transformation by filamentous microbial mats thriving in an alkaline, sulfidic hot spring
-
Cornelia H, Britta P-F, (2012) Thioarsenate transformation by filamentous microbial mats thriving in an alkaline, sulfidic hot spring. Environmental Science & Technology, 46, 4348-4356.
-
(2012)
Environmental Science & Technology
, vol.46
, pp. 4348-4356
-
-
Cornelia, H.1
Britta, P.-F.2
-
13
-
-
79956048186
-
Reassessing the role of sulfur geochemistry on arsenic speciation in reducing environments
-
Couture R-M, Van Cappellen P, (2011) Reassessing the role of sulfur geochemistry on arsenic speciation in reducing environments. Journal of Hazardous Materials, 189, 647-652.
-
(2011)
Journal of Hazardous Materials
, vol.189
, pp. 647-652
-
-
Couture, R.-M.1
Van Cappellen, P.2
-
14
-
-
79959435716
-
Assembly of bacterial inner membrane proteins
-
Dalbey RE, Wang P, Kuhn A, (2011) Assembly of bacterial inner membrane proteins. Annual Review of Biochemistry, 80, 161-187.
-
(2011)
Annual Review of Biochemistry
, vol.80
, pp. 161-187
-
-
Dalbey, R.E.1
Wang, P.2
Kuhn, A.3
-
15
-
-
40149098974
-
Microbial ecology of four coral atolls in the Northern Line Islands
-
Dinsdale EA, Pantos O, Smriga S, et al,. (2008) Microbial ecology of four coral atolls in the Northern Line Islands. PLoS ONE, 3, e1584.
-
(2008)
PLoS ONE
, vol.3
-
-
Dinsdale, E.A.1
Pantos, O.2
Smriga, S.3
-
16
-
-
0042691310
-
Comparison of Arsenic(V) and Arsenic(III) Sorption onto iron oxide minerals: Implications for arsenic mobility
-
Dixit S, Hering JG, (2003) Comparison of Arsenic(V) and Arsenic(III) Sorption onto iron oxide minerals: implications for arsenic mobility. Environmental Science & Technology, 37, 4182-4189.
-
(2003)
Environmental Science & Technology
, vol.37
, pp. 4182-4189
-
-
Dixit, S.1
Hering, J.G.2
-
17
-
-
80055082271
-
Accelerated profile HMM searches
-
Eddy SR, (2011) Accelerated profile HMM searches. PLoS Computational Biology, 7, e1002195.
-
(2011)
PLoS Computational Biology
, vol.7
-
-
Eddy, S.R.1
-
18
-
-
0000786905
-
A new test for 2 × 2 tables
-
Fisher RA, (1970) A new test for 2 × 2 tables. Nature, 156, 388.
-
(1970)
Nature
, vol.156
, pp. 388
-
-
Fisher, R.A.1
-
19
-
-
37549055824
-
A new role for sulfur in arsenic cycling
-
Fisher JC, Wallschläger D, Planer-Friedrich B, Hollibaugh JT, (2008) A new role for sulfur in arsenic cycling. Environmental Science & Technology, 42, 81-85.
-
(2008)
Environmental Science & Technology
, vol.42
, pp. 81-85
-
-
Fisher, J.C.1
Wallschläger, D.2
Planer-Friedrich, B.3
Hollibaugh, J.T.4
-
20
-
-
52449114817
-
Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities
-
Gilbert JA, Field D, Huang Y, et al,. (2008) Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities. PLoS ONE, 3, e3042.
-
(2008)
PLoS ONE
, vol.3
-
-
Gilbert, J.A.1
Field, D.2
Huang, Y.3
-
21
-
-
0000803388
-
The population frequencies of species and the estimation of population parameters
-
Good IJ, (1953) The population frequencies of species and the estimation of population parameters. Biometrika, 40, 237-264.
-
(1953)
Biometrika
, vol.40
, pp. 237-264
-
-
Good, I.J.1
-
22
-
-
77951499585
-
Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community
-
Hemme CL, Deng Y, Gentry TJ, et al,. (2010) Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community. The ISME Journal, 4, 660-672.
-
(2010)
The ISME Journal
, vol.4
, pp. 660-672
-
-
Hemme, C.L.1
Deng, Y.2
Gentry, T.J.3
-
23
-
-
2442699369
-
Dissimilatory arsenate reduction with sulfide as electron donor: Experiments with mono lake water and isolation of strain MLMS-1, a chemoautotrophic arsenate respirer
-
Hoeft SE, Kulp TR, Stolz JF, Hollibaugh JT, Oremland RS, (2004) Dissimilatory arsenate reduction with sulfide as electron donor: experiments with mono lake water and isolation of strain MLMS-1, a chemoautotrophic arsenate respirer. Applied and Environmental Microbiology, 70, 2741-2747.
-
(2004)
Applied and Environmental Microbiology
, vol.70
, pp. 2741-2747
-
-
Hoeft, S.E.1
Kulp, T.R.2
Stolz, J.F.3
Hollibaugh, J.T.4
Oremland, R.S.5
-
24
-
-
78149423315
-
Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function
-
Inskeep WP, Rusch DB, Jay ZJ, et al,. (2010) Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function. PLoS ONE, 5, e9773.
-
(2010)
PLoS ONE
, vol.5
-
-
Inskeep, W.P.1
Rusch, D.B.2
Jay, Z.J.3
-
25
-
-
0033153237
-
Dislocation of membrane proteins in FtsH-mediated proteolysis
-
Kihara A, Akiyama Y, Koreaki I, (1999) Dislocation of membrane proteins in FtsH-mediated proteolysis. The EMBO Journal, 18, 2970-2981.
-
(1999)
The EMBO Journal
, vol.18
, pp. 2970-2981
-
-
Kihara, A.1
Akiyama, Y.2
Koreaki, I.3
-
26
-
-
84885904079
-
Bacterial metabolism of environmental arsenic - Mechanisms and biotechnological applications
-
Kruger MC, Bertin PN, Heipieper HJ, Arsène-Ploetze F, (2013) Bacterial metabolism of environmental arsenic-mechanisms and biotechnological applications. Applied Microbiology and Biotechnology, 97, 3827-3841.
-
(2013)
Applied Microbiology and Biotechnology
, vol.97
, pp. 3827-3841
-
-
Kruger, M.C.1
Bertin, P.N.2
Heipieper, H.J.3
Arsène-Ploetze, F.4
-
27
-
-
33750034916
-
Dissimilatory arsenate and sulfate reduction in sediments of two hypersaline, arsenic-rich soda lakes: Mono and Searles Lakes, California
-
Kulp TR, Hoeft SE, Miller LG, et al,. (2006) Dissimilatory arsenate and sulfate reduction in sediments of two hypersaline, arsenic-rich soda lakes: Mono and Searles Lakes, California. Applied and Environmental Microbiology, 72, 6514-6526.
-
(2006)
Applied and Environmental Microbiology
, vol.72
, pp. 6514-6526
-
-
Kulp, T.R.1
Hoeft, S.E.2
Miller, L.G.3
-
28
-
-
71749111168
-
Analysis and comparison of very large metagenomes with fast clustering and functional annotation
-
Li W, (2009) Analysis and comparison of very large metagenomes with fast clustering and functional annotation. BMC Bioinformatics, 10, 359.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 359
-
-
Li, W.1
-
29
-
-
58549102136
-
Reverse dissimilatory sulfite reductase as phylogenetic marker for a subgroup of sulfur-oxidizing prokaryotes
-
Loy A, Duller S, Baranyi C, et al,. (2009) Reverse dissimilatory sulfite reductase as phylogenetic marker for a subgroup of sulfur-oxidizing prokaryotes. Environmental Microbiology, 11, 289-299.
-
(2009)
Environmental Microbiology
, vol.11
, pp. 289-299
-
-
Loy, A.1
Duller, S.2
Baranyi, C.3
-
30
-
-
84873293898
-
Arsenic in marine sediments from French Mediterranean ports: Geochemical partitioning, bioavailability and ecotoxicology
-
Mamindy-Pajany Y, Hurel C, Géret F, et al,. (2013) Arsenic in marine sediments from French Mediterranean ports: geochemical partitioning, bioavailability and ecotoxicology. Chemosphere, 90, 2730-2736.
-
(2013)
Chemosphere
, vol.90
, pp. 2730-2736
-
-
Mamindy-Pajany, Y.1
Hurel, C.2
Géret, F.3
-
31
-
-
79959341239
-
Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool
-
Mariette J, Noirot C, Klopp C, (2011) Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool. BMC Research Notes, 4, 149.
-
(2011)
BMC Research Notes
, vol.4
, pp. 149
-
-
Mariette, J.1
Noirot, C.2
Klopp, C.3
-
32
-
-
53549118607
-
The metagenomics RAST server - A public resource for the automatic phylogenetic and functional analysis of metagenomes
-
Meyer F, Paarmann D, DSouza 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
Dsouza, M.3
-
33
-
-
35748938228
-
PhylArray: Phylogenetic probe design algorithm for microarray
-
Militon C, Rimour S, Missaoui M, et al,. (2007) PhylArray: phylogenetic probe design algorithm for microarray. Bioinformatics, 23, 2550-2557.
-
(2007)
Bioinformatics
, vol.23
, pp. 2550-2557
-
-
Militon, C.1
Rimour, S.2
Missaoui, M.3
-
34
-
-
43849095105
-
The ecology and biotechnology of sulphate-reducing bacteria
-
Muyzer G, Stams AJM, (2008) The ecology and biotechnology of sulphate-reducing bacteria. Nature Reviews. Microbiology, 6, 441-454.
-
(2008)
Nature Reviews. Microbiology
, vol.6
, pp. 441-454
-
-
Muyzer, G.1
Stams, A.J.M.2
-
35
-
-
51949098757
-
Biosynthesis and functions of mycothiol, the unique protective thiol of Actinobacteria
-
Newton GL, Buchmeier N, Fahey RC, (2008) Biosynthesis and functions of mycothiol, the unique protective thiol of Actinobacteria. Microbiology and Molecular Biology Reviews, 72, 471-494.
-
(2008)
Microbiology and Molecular Biology Reviews
, vol.72
, pp. 471-494
-
-
Newton, G.L.1
Buchmeier, N.2
Fahey, R.C.3
-
36
-
-
33750976398
-
MetaGene: Prokaryotic gene finding from environmental genome shotgun sequences
-
Noguchi H, Park J, Takagi T, (2006) MetaGene: prokaryotic gene finding from environmental genome shotgun sequences. Nucleic Acids Research, 34, 5623-5630.
-
(2006)
Nucleic Acids Research
, vol.34
, pp. 5623-5630
-
-
Noguchi, H.1
Park, J.2
Takagi, T.3
-
37
-
-
12944320850
-
Arsenic, microbes and contaminated aquifers
-
Oremland RS, Stolz JF, (2005) Arsenic, microbes and contaminated aquifers. Trends in Microbiology, 13, 45-49.
-
(2005)
Trends in Microbiology
, vol.13
, pp. 45-49
-
-
Oremland, R.S.1
Stolz, J.F.2
-
38
-
-
19744373169
-
A microbial arsenic cycle in a salt-saturated, extreme environment
-
Oremland RS, Kulp T, Switzer Blum J, et al,. (2005) A microbial arsenic cycle in a salt-saturated, extreme environment. Science, 308, 1305-1308.
-
(2005)
Science
, vol.308
, pp. 1305-1308
-
-
Oremland, R.S.1
Kulp, T.2
Switzer Blum, J.3
-
39
-
-
53949120232
-
Acute toxicity of thioarsenates to Vibrio fischeri
-
Planer-Friedrich B, Franke D, Merkel B, Wallschläger D, (2008) Acute toxicity of thioarsenates to Vibrio fischeri. Environmental Toxicology and Chemistry/SETAC, 27, 2027-2035.
-
(2008)
Environmental Toxicology and Chemistry/SETAC
, vol.27
, pp. 2027-2035
-
-
Planer-Friedrich, B.1
Franke, D.2
Merkel, B.3
Wallschläger, D.4
-
40
-
-
84858077472
-
The Pfam protein families database
-
Punta M, Coggill PC, Eberhardt RY, et al,. (2011) The Pfam protein families database. Nucleic Acids Research, 40, D290-D301.
-
(2011)
Nucleic Acids Research
, vol.40
-
-
Punta, M.1
Coggill, P.C.2
Eberhardt, R.Y.3
-
41
-
-
33144480276
-
Arsenic detoxification and evolution of trimethylarsine gas by a microbial arsenite S-adenosylmethionine methyltransferase
-
Qin J, Rosen BP, Zhang Y, Wang G, Franke S, Rensing C, (2006) Arsenic detoxification and evolution of trimethylarsine gas by a microbial arsenite S-adenosylmethionine methyltransferase. Proceedings of the National Academy of Sciences of the United States of America, 103, 2075-2080.
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, pp. 2075-2080
-
-
Qin, J.1
Rosen, B.P.2
Zhang, Y.3
Wang, G.4
Franke, S.5
Rensing, C.6
-
42
-
-
2942574448
-
Effect of thioarsenite formation on arsenic(III) toxicity
-
Rader KJ, Dombrowski PM, Farley KJ, Mahony JD, Di Toro DM, (2004) Effect of thioarsenite formation on arsenic(III) toxicity. Environmental Toxicology and Chemistry/SETAC, 23, 1649-1654.
-
(2004)
Environmental Toxicology and Chemistry/SETAC
, vol.23
, pp. 1649-1654
-
-
Rader, K.J.1
Dombrowski, P.M.2
Farley, K.J.3
Mahony, J.D.4
Di Toro, D.M.5
-
43
-
-
33847280283
-
Prediction of effective genome size in metagenomic samples
-
Raes J, Korbel JO, Lercher MJ, von Mering C, Bork P, (2007) Prediction of effective genome size in metagenomic samples. Genome Biology, 8, R10.
-
(2007)
Genome Biology
, vol.8
-
-
Raes, J.1
Korbel, J.O.2
Lercher, M.J.3
Von Mering, C.4
Bork, P.5
-
44
-
-
0034201441
-
EMBOSS: The European Molecular Biology Open Software Suite
-
Rice P, Longden I, Bleasby A, (2000) EMBOSS: the European Molecular Biology Open Software Suite. Trends in Genetics, 16, 276-277.
-
(2000)
Trends in Genetics
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
45
-
-
33846113652
-
TIGRFAMs and Genome Properties: Tools for the assignment of molecular function and biological process in prokaryotic genomes
-
Selengut JD, Haft DH, Davidsen T, et al,. (2007) TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes. Nucleic Acids Research, 35, D260-D264.
-
(2007)
Nucleic Acids Research
, vol.35
-
-
Selengut, J.D.1
Haft, D.H.2
Davidsen, T.3
-
47
-
-
23844498104
-
Thioarsenates in sulfidic waters
-
Stauder S, Raue B, Sacher F, (2005) Thioarsenates in sulfidic waters. Environmental Science & Technology, 39, 5933-5939.
-
(2005)
Environmental Science & Technology
, vol.39
, pp. 5933-5939
-
-
Stauder, S.1
Raue, B.2
Sacher, F.3
-
48
-
-
45449097447
-
Fdrtool: A versatile R package for estimating local and tail area-based false discovery rates
-
Strimmer K, (2008) fdrtool: A versatile R package for estimating local and tail area-based false discovery rates. Bioinformatics (Oxford, England), 24, 1461-1462.
-
(2008)
Bioinformatics (Oxford, England)
, vol.24
, pp. 1461-1462
-
-
Strimmer, K.1
-
49
-
-
78651266825
-
Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: The CAMERA resource
-
Sun S, Chen J, Li W, et al,. (2010) Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource. Nucleic Acids Research, 39, D546-D551.
-
(2010)
Nucleic Acids Research
, vol.39
-
-
Sun, S.1
Chen, J.2
Li, W.3
-
50
-
-
20244376755
-
Comparative metagenomics of microbial communities
-
Tringe SG, von Mering C, Kobayashi A, et al,. (2005) Comparative metagenomics of microbial communities. Science, 308, 554-557.
-
(2005)
Science
, vol.308
, pp. 554-557
-
-
Tringe, S.G.1
Von Mering, C.2
Kobayashi, A.3
-
51
-
-
11144354360
-
Environmental genome shotgun sequencing of the Sargasso Sea
-
Venter JC, Remington K, Heidelberg JF, 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
-
52
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang Q, Garrity GM, Tiedje JM, Cole JR, (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied and Environment Microbiology, 73, 5261-5267.
-
(2007)
Applied and Environment Microbiology
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
53
-
-
79955043823
-
Demethylation of methylarsonic acid by a microbial community
-
Yoshinaga M, Cai Y, Rosen BP, (2011) Demethylation of methylarsonic acid by a microbial community. Environmental Microbiology, 13, 1205-1215.
-
(2011)
Environmental Microbiology
, vol.13
, pp. 1205-1215
-
-
Yoshinaga, M.1
Cai, Y.2
Rosen, B.P.3
|