-
1
-
-
33646260901
-
Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota
-
Hallam SJ, Mincer TJ, Schleper C, Preston CM, Roberts K, et al. (2006) Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota. PLOS Biol 4: 0520-0536.
-
(2006)
PLOS Biol
, vol.4
, pp. 0520-0536
-
-
Hallam, S.J.1
Mincer, T.J.2
Schleper, C.3
Preston, C.M.4
Roberts, K.5
-
2
-
-
77952739182
-
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
-
Walker CB, de la Torre JR, Klotz MG, Urakawa H, Pinel N, et al. (2010) Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea. Proc Natl Acad Sci U S A 107: 8818-8823.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 8818-8823
-
-
Walker, C.B.1
De La Torre, J.R.2
Klotz, M.G.3
Urakawa, H.4
Pinel, N.5
-
3
-
-
83155173396
-
Enrichment and characterization of an autotrophic ammonia-oxidizing archaeon of mesophilic crenarchaeal group I.1a from an agricultural soil
-
Jung MY, Park SJ, Min D, Kim JS, Rijpstra WI, et al. (2011) Enrichment and characterization of an autotrophic ammonia-oxidizing archaeon of mesophilic crenarchaeal group I.1a from an agricultural soil. Appl Environ Microbiol 77: 8635-8647.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 8635-8647
-
-
Jung, M.Y.1
Park, S.J.2
Min, D.3
Kim, J.S.4
Rijpstra, W.I.5
-
4
-
-
84861212981
-
Genome sequence of "Candidatus Nitrosoarchaeum limnia" BG20, a low-salinity ammonia-oxidizing archaeon from the San Francisco Bay estuary
-
Mosier AC, Allen EE, Kim M, Ferriera S, Francis CA (2012) Genome sequence of "Candidatus Nitrosoarchaeum limnia" BG20, a low-salinity ammonia-oxidizing archaeon from the San Francisco Bay estuary. J Bacteriol 194, 2119-2120.
-
(2012)
J Bacteriol
, vol.194
, pp. 2119-2120
-
-
Mosier, A.C.1
Allen, E.E.2
Kim, M.3
Ferriera, S.4
Francis, C.A.5
-
5
-
-
84870692770
-
Draft genome sequence of an ammonia-oxidizing archaeon, "Candidatus Nitrosopumilus sediminis" AR2, from Svalbard in the Arctic Circle
-
Park SJ, Kim JG, Jung MY, Kim SJ, Cha IT, et al. (2012a) Draft genome sequence of an ammonia-oxidizing archaeon, "Candidatus Nitrosopumilus sediminis" AR2, from Svalbard in the Arctic Circle. J Bacteriol 194: 6948-699.
-
(2012)
J Bacteriol
, vol.194
, pp. 6948-7699
-
-
Park, S.J.1
Kim, J.G.2
Jung, M.Y.3
Kim, S.J.4
Cha, I.T.5
-
6
-
-
84870702066
-
Draft genome sequence of an ammonia-oxidizing archaeon, "Candidatus Nitrosopumilus koreensis" AR1, from marine sediment
-
Park SJ, Kim JG, Jung MY, Kim SJ, Cha IT, et al. (2012b) Draft genome sequence of an ammonia-oxidizing archaeon, "Candidatus Nitrosopumilus koreensis" AR1, from marine sediment. J Bacteriol 194: 6940-96941.
-
(2012)
J Bacteriol
, vol.194
, pp. 6940-96941
-
-
Park, S.J.1
Kim, J.G.2
Jung, M.Y.3
Kim, S.J.4
Cha, I.T.5
-
7
-
-
84856577796
-
amoA-based consensus phylogeny of ammonia-oxidizing archaea and deep sequencing of amoA genes from soils of four different geographic regions
-
Pester M, Rattei T, Fletchl S, Gröngröft A, Richter A, et al. (2012) amoA-based consensus phylogeny of ammonia-oxidizing archaea and deep sequencing of amoA genes from soils of four different geographic regions. Environ Microbiol 14: 525-539.
-
(2012)
Environ Microbiol
, vol.14
, pp. 525-539
-
-
Pester, M.1
Rattei, T.2
Fletchl, S.3
Gröngröft, A.4
Richter, A.5
-
8
-
-
84859423097
-
Ammonia-oxidizing archaea as main drivers of nitrification in cold-water sponges
-
Radax R, Hoffmann F, Rapp H, Leininger S, Schleper C (2012) Ammonia-oxidizing archaea as main drivers of nitrification in cold-water sponges. Envirom Microbiol 14: 909-23.
-
(2012)
Envirom Microbiol
, vol.14
, pp. 909-923
-
-
Radax, R.1
Hoffmann, F.2
Rapp, H.3
Leininger, S.4
Schleper, C.5
-
9
-
-
70350052417
-
Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria
-
Martens-Habbena W, Berube PM, Urakawa H, Torre JR, Stahl DA (2009) Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria. Nature 461: 976-979.
-
(2009)
Nature
, vol.461
, pp. 976-979
-
-
Martens-Habbena, W.1
Berube, P.M.2
Urakawa, H.3
Torre, J.R.4
Stahl, D.A.5
-
10
-
-
84872250001
-
Physiology and diversity of ammonia-oxidizing archaea
-
Stahl DA, de la Torre JR (2012) Physiology and diversity of ammonia-oxidizing archaea. Annu Rev Microbiol 66: 83-101.
-
(2012)
Annu Rev Microbiol
, vol.66
, pp. 83-101
-
-
Stahl, D.A.1
De La Torre, J.R.2
-
11
-
-
0032804175
-
Improving nitrogen use efficiency for cereal production
-
Raun WR, Johnson GV (1999) Improving nitrogen use efficiency for cereal production Agron J 91: 357-363. (Pubitemid 29402893)
-
(1999)
Agronomy Journal
, vol.91
, Issue.3
, pp. 357-363
-
-
Raun, W.R.1
Johnson, G.V.2
-
12
-
-
0034775280
-
Ammonia-oxidizing bacteria: A model for molecular microbial ecology
-
DOI 10.1146/annurev.micro.55.1.485
-
Kowalchuk GA, Stephen JA (2001) Ammonia-Oxidizing Bacteria: A Model for Molecular Microbial Ecology. Annu Rev Microbiol 55: 485-529. (Pubitemid 32978114)
-
(2001)
Annual Review of Microbiology
, vol.55
, pp. 485-529
-
-
Kowalchuk, G.A.1
Stephen, J.R.2
-
15
-
-
84899491578
-
Aerobic nitrous oxide production through N-nitrosating hybrid formation in ammonia-oxidizing archaea
-
doi:10.1038/ismej.2013.220
-
Stieglmeier M, Mooshammer M, Kitzler B, Wanek W, Zechmeister-Boltenstern S, et al. (2014) Aerobic nitrous oxide production through N-nitrosating hybrid formation in ammonia-oxidizing archaea. ISME J doi:10.1038/ismej.2013.220
-
(2014)
ISME J
-
-
Stieglmeier, M.1
Mooshammer, M.2
Kitzler, B.3
Wanek, W.4
Zechmeister-Boltenstern, S.5
-
16
-
-
84861939476
-
Cultivation of a highly enriched ammonia-oxidizing archaeon of thaumarchaeotal group I.1b from an agricultural soil
-
Kim JG, Jung MY, Park SJ, Rijpstra WIC, Damsté JS, et al. (2012) Cultivation of a highly enriched ammonia-oxidizing archaeon of thaumarchaeotal group I.1b from an agricultural soil. Environ Microbiol 14: 1528-1543.
-
(2012)
Environ Microbiol
, vol.14
, pp. 1528-1543
-
-
Kim, J.G.1
Jung, M.Y.2
Park, S.J.3
Rijpstra, W.I.C.4
Damsté, J.S.5
-
17
-
-
84863691368
-
Production of oceanic nitrous oxide by ammonia-oxidizing archaea
-
Loscher CR, Kock A, Konneke M, LaRoche J, Bange HW, et al. (2012) Production of oceanic nitrous oxide by ammonia-oxidizing archaea Biogeosciences 9: 2419-2429.
-
(2012)
Biogeosciences
, vol.9
, pp. 2419-2429
-
-
Loscher, C.R.1
Kock, A.2
Konneke, M.3
LaRoche, J.4
Bange, H.W.5
-
19
-
-
84894268023
-
Enrichment and genome sequence of the group I.1a ammonia-oxidizing Archaeon "Ca. Nitrosotenuis uzonensis" representing a clade globally distributed in thermal habitats
-
Lebedeva E, Hatzenpichler R, Pelletier E, Schuster N, Hauzmayer S, et al. (2012) Enrichment and genome sequence of the group I.1a ammonia-oxidizing Archaeon "Ca. Nitrosotenuis uzonensis" representing a clade globally distributed in thermal habitats. PLOS ONE 8: e80835.
-
(2012)
PLOS ONE
, vol.8
-
-
Lebedeva, E.1
Hatzenpichler, R.2
Pelletier, E.3
Schuster, N.4
Hauzmayer, S.5
-
20
-
-
84870486180
-
The genome of the ammonia-oxidizing Candidatus Nitrososphaera gargensis: Insights into metabolic versatility and environmental adaptations
-
Spang A, Phoehlein A, Offre P, Zumbragel S, Haider S, et al. (2012) The genome of the ammonia-oxidizing Candidatus Nitrososphaera gargensis: insights into metabolic versatility and environmental adaptations. Environ Microbiol 14: 3122-3145.
-
(2012)
Environ Microbiol
, vol.14
, pp. 3122-3145
-
-
Spang, A.1
Phoehlein, A.2
Offre, P.3
Zumbragel, S.4
Haider, S.5
-
21
-
-
79957684288
-
Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil
-
Tourna M, Stieglmeierera M, Spang A, Könneke M, Schintlmeister A, et al. (2011) Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil. Proc Natl Acad Sci U S A 108: 8420-8425.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 8420-8425
-
-
Tourna, M.1
Stieglmeierera, M.2
Spang, A.3
Könneke, M.4
Schintlmeister, A.5
-
22
-
-
0042853314
-
Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR
-
DOI 10.1046/j.1462-2920.2003.00476.x
-
Ochsenreiter T, Selezi D, Quaiser A, Bonch-Osmolovskaya L, Schleper C (2003) Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR. Environ Microbiol 5: 787-97. (Pubitemid 37056863)
-
(2003)
Environmental Microbiology
, vol.5
, Issue.9
, pp. 787-797
-
-
Ochsenreiter, T.1
Selezi, D.2
Quaiser, A.3
Bonch-Osmolovskaya, L.4
Schleper, C.5
-
23
-
-
76349125984
-
Global ecological patterns in uncultured Archaea
-
Auguet J-C, Barberan A, Casamayor E (2010) Global ecological patterns in uncultured Archaea. ISME J 4: 182-90.
-
(2010)
ISME J
, vol.4
, pp. 182-190
-
-
Auguet, J.-C.1
Barberan, A.2
Casamayor, E.3
-
24
-
-
84861220096
-
Genome sequence of "Candidatus Nitrosopumilus salaria" BD31, an ammonia-oxidizing archaeon from the San Francisco Bay estuary
-
Mosier A, Allen E, Kim M, Ferriera S, Francis C (2012) Genome sequence of "Candidatus Nitrosopumilus salaria" BD31, an ammonia-oxidizing archaeon from the San Francisco Bay estuary. J Bacteriol 194: 2121-2.
-
(2012)
J Bacteriol
, vol.194
, pp. 2121-2122
-
-
Mosier, A.1
Allen, E.2
Kim, M.3
Ferriera, S.4
Francis, C.5
-
25
-
-
84868333620
-
Intact polar and core glycerol dibiphytanyl glycerol tetrather lipids of Group I.1a and I.1b Thaumarchaeota in soil
-
Damsté JS, Rijpstra WIC, Hopmans EC, Jung MY, Kim JG, et al. (2012) Intact polar and core glycerol dibiphytanyl glycerol tetrather lipids of Group I.1a and I.1b Thaumarchaeota in soil. Appl Environ Microbiol 78: 6866-6874.
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 6866-6874
-
-
Damsté, J.S.1
Rijpstra, W.I.C.2
Hopmans, E.C.3
Jung, M.Y.4
Kim, J.G.5
-
26
-
-
84884242904
-
Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments
-
Zhalnina K, de Quadros PD, Gano KA, Davis-Richardson A, Fagen JR, et al. (2013) Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments. Front Microbiol 4: 104.
-
(2013)
Front Microbiol
, vol.4
, pp. 104
-
-
Zhalnina, K.1
De Quadros, P.D.2
Gano, K.A.3
Davis-Richardson, A.4
Fagen, J.R.5
-
27
-
-
58149200948
-
The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis
-
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: D141-5.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Cole, J.R.1
Wang, Q.2
Cardenas, E.3
Fish, J.4
Chai, B.5
-
28
-
-
79952050667
-
Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis
-
Blainey PC, Mosier AC, Potanina A, Francis CA, Quake SR (2011) Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. PLOS ONE 6: 1-12.
-
(2011)
PLOS ONE
, vol.6
, pp. 1-12
-
-
Blainey, P.C.1
Mosier, A.C.2
Potanina, A.3
Francis, C.A.4
Quake, S.R.5
-
30
-
-
78049282340
-
Autotrophic ammonia oxidation by soil thaumarchaea
-
Zhang L, Offre PR, He JZ, Verhamme DT, Nicol GW, et al. (2010) Autotrophic ammonia oxidation by soil thaumarchaea. Proc Natl Acad Sci U S A 107: 17240-17245.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 17240-17245
-
-
Zhang, L.1
Offre, P.R.2
He, J.Z.3
Verhamme, D.T.4
Nicol, G.W.5
-
31
-
-
40449104806
-
DNA microarray analysis of central carbohydrate metabolism: Glycolytic/gluconeogenic carbon switch in the hyperthermophilic crenarchaeum Thermoproteus tenax
-
DOI 10.1128/JB.01524-07
-
Zaparty M, Zaigler A, Stamme C, Soppa J, Hensel R, et al. (2008) DNA microarray analysis of central carbohydrate metabolism: glycolytic/gluconeogenic carbon switch in the hyperthermophilic crenarchaeum Thermoproteus tenax. J Bacteriol 190: 2231-8. (Pubitemid 351355346)
-
(2008)
Journal of Bacteriology
, vol.190
, Issue.6
, pp. 2231-2238
-
-
Zaparty, M.1
Zaigler, A.2
Stamme, C.3
Soppa, J.4
Hensel, R.5
Siebers, B.6
-
32
-
-
12144290887
-
Reconstruction of the Central Carbohydrate Metabolism of Thermoproteus tenax by Use of Genomic and Biochemical Data
-
DOI 10.1128/JB.186.7.2179-2194.2004
-
Siebers B, Tjaden B, Michalke K, Dörr C, Ahmed H, et al. (2004) Reconstruction of the central carbohydrate metabolism of Thermoproteus tenax by use of genomic and biochemical data. J Bacteriol 186: 2179-94. (Pubitemid 38381208)
-
(2004)
Journal of Bacteriology
, vol.186
, Issue.7
, pp. 2179-2194
-
-
Siebers, B.1
Tjaden, B.2
Michalke, K.3
Dorr, C.4
Ahmed, H.5
Zaparty, M.6
Gordon, P.7
Sensen, C.W.8
Zibat, A.9
Klenk, H.-P.10
Schuster, S.C.11
Hensel, R.12
-
33
-
-
78049356011
-
Both forward and reverse TCA cycles operate in green sulfur bacteria
-
Tang KH, Blankenship RE (2010) Both forward and reverse TCA cycles operate in green sulfur bacteria. J Biol Chem 285: 35848-35854.
-
(2010)
J Biol Chem
, vol.285
, pp. 35848-35854
-
-
Tang, K.H.1
Blankenship, R.E.2
-
34
-
-
77952888917
-
Autotrophic carbon fixation in archaea
-
Berg I, Kockelkorn D, Ramos-Vera W, Say RF, Zarzycki J, et al. (2010) Autotrophic carbon fixation in archaea. Nat Reviews Microbiol 8: 447-60.
-
(2010)
Nat Reviews Microbiol
, vol.8
, pp. 447-460
-
-
Berg, I.1
Kockelkorn, D.2
Ramos-Vera, W.3
Say, R.F.4
Zarzycki, J.5
-
35
-
-
84904320813
-
Metabolic reprogramming under microaerobic and anaerobic conditions in bacteria
-
Shan Y, Lai Y, Yan A (2012) Metabolic reprogramming under microaerobic and anaerobic conditions in bacteria. Subcell Biochem 64: 159-79.
-
(2012)
Subcell Biochem
, vol.64
, pp. 159-179
-
-
Shan, Y.1
Lai, Y.2
Yan, A.3
-
36
-
-
78649703098
-
Cultivation of autotrophic ammonia-oxidizing archaea from marine sediments in coculture with sulfur-oxidizing bacteria
-
Park BJ, Park SJ, Yoon DN, Schouten S, Sinninghe Damsté JS, et al. (2010) Cultivation of autotrophic ammonia-oxidizing archaea from marine sediments in coculture with sulfur-oxidizing bacteria. Appl Environ Microbiol 76: 7575-87.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 7575-7587
-
-
Park, B.J.1
Park, S.J.2
Yoon, D.N.3
Schouten, S.4
Sinninghe Damsté, J.S.5
-
37
-
-
27844507018
-
Unusual pathways and enzymes of central carbohydrate metabolism in Archaea
-
DOI 10.1016/j.mib.2005.10.014, PII S1369527405001700, Growth Development
-
Siebers B, Schönheit P (2005) Unusual pathways and enzymes of central carbohydrate metabolism in Archaea. Curr Opin Microbiol 8: 695-705. (Pubitemid 41643038)
-
(2005)
Current Opinion in Microbiology
, vol.8
, Issue.6
, pp. 695-705
-
-
Siebers, B.1
Schonheit, P.2
-
38
-
-
0015413829
-
Isolation and properties of a fluorescent compound, factor 420, from Methanobacterium strain MoH
-
Cheeseman P, Toms-Wood A, Wolfe RS (1972) Isolation and properties of a fluorescent compound, factor 420, from Methanobacterium strain MoH. J Bacteriol 112: 527-531.
-
(1972)
J Bacteriol
, vol.112
, pp. 527-531
-
-
Cheeseman, P.1
Toms-Wood, A.2
Wolfe, R.S.3
-
39
-
-
84872783752
-
F420-dependent enzymes - Potential for applications in biotechnology
-
Taylor M, Scott C, Grogan G (2013) F420-dependent enzymes - potential for applications in biotechnology. Trends Biotechnol 31: 63-4.
-
(2013)
Trends Biotechnol
, vol.31
, pp. 63-64
-
-
Taylor, M.1
Scott, C.2
Grogan, G.3
-
40
-
-
84868130695
-
Role for urea in nitrification by polar marine Archaea
-
Alonso-Sáez L, Waller AS, Mende DR, Bakker K, Farnelid H, et al. (2012) Role for urea in nitrification by polar marine Archaea. Proc Natl Acad Sci U S A 109: 17989-17994.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 17989-17994
-
-
Alonso-Sáez, L.1
Waller, A.S.2
Mende, D.R.3
Bakker, K.4
Farnelid, H.5
-
41
-
-
84868092696
-
Marine archaea take a short cut in the nitrogen cycle
-
Kirchman DL (2012) Marine archaea take a short cut in the nitrogen cycle. Proc Natl Acad Sci U S A 109: 17732-17733.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 17732-17733
-
-
Kirchman, D.L.1
-
42
-
-
0036167265
-
Diversity of ammonia monooxygenase operon in autotrophic ammonia-oxidizing bacteria
-
DOI 10.1007/s00203-001-0369-z
-
Norton JM, Alzerreca JJ, Suwa Y, Klotz MG (2002) Diversity of ammonia monooxygenase operon in autotrophic ammonia-oxidizing archaea. Arch Microbiol 177: 139-149. (Pubitemid 34143413)
-
(2002)
Archives of Microbiology
, vol.177
, Issue.2
, pp. 139-149
-
-
Norton, J.M.1
Alzerreca, J.J.2
Suwa, Y.3
Klotz, M.G.4
-
43
-
-
84864020137
-
The divergent AmoC subunit of ammonia monooxygenase functions as part of a stress response system in Nitrosomonas europaea
-
Berube PM, Stahl DA (2012) The divergent AmoC subunit of ammonia monooxygenase functions as part of a stress response system in Nitrosomonas europaea. J Bacteriol 194: 3448-3456.
-
(2012)
J Bacteriol
, vol.194
, pp. 3448-3456
-
-
Berube, P.M.1
Stahl, D.A.2
-
44
-
-
0036038187
-
Molecular biology and biochemistry of ammonia oxidation by Nitrosomonas europaea
-
DOI 10.1007/s00203-002-0452-0
-
Arp D, Sayavedra-Soto L, Hommes N. (2002) Molecular biology and biochemistry of ammonia oxidation by Nitrosomonas europaea. Arch Microbiol 178: 250-255. (Pubitemid 35025065)
-
(2002)
Archives of Microbiology
, vol.178
, Issue.4
, pp. 250-255
-
-
Arp, D.J.1
Sayavedra-Soto, L.A.2
Hommes, N.G.3
-
45
-
-
37249025200
-
Nitrifier genomics and evolution of the nitrogen cycle
-
DOI 10.1111/j.1574-6968.2007.00970.x
-
Klotz MG, Stein LY (2008) Nitrifier genomics and evolution of the nitrogen cycle. FEMS Microbiol Lett 278: 146-156. (Pubitemid 350264573)
-
(2008)
FEMS Microbiology Letters
, vol.278
, Issue.2
, pp. 146-156
-
-
Klotz, M.G.1
Stein, L.Y.2
-
46
-
-
78349282589
-
Ammonia-oxidizing archaea-physiology, ecology and evolution
-
Schleper C, Nicol GW (2010) Ammonia-oxidizing archaea-physiology, ecology and evolution. Adv Microb Physiol 57: 1-41.
-
(2010)
Adv Microb Physiol
, vol.57
, pp. 1-41
-
-
Schleper, C.1
Nicol, G.W.2
-
47
-
-
84872560122
-
Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea
-
Vajrala N, Martens-Habbena W, Sayavedra-Soto LA, Schauer A, Bottomley PJ, et al. (2012) Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea. Proc Natl Acad Sci U S A 110: 1006-1011.
-
(2012)
Proc Natl Acad Sci U S A
, vol.110
, pp. 1006-1011
-
-
Vajrala, N.1
Martens-Habbena, W.2
Sayavedra-Soto, L.A.3
Schauer, A.4
Bottomley, P.J.5
-
49
-
-
84862668222
-
The dynamic roles of intracellular lipid droplets: From archaea to mammals
-
Murphy DJ (2012) The dynamic roles of intracellular lipid droplets: from archaea to mammals. Protoplasma 3: 541-585.
-
(2012)
Protoplasma
, vol.3
, pp. 541-585
-
-
Murphy, D.J.1
-
50
-
-
76849099236
-
Synthesis and production of polyhydroxyalkanoates by halophiles: Current potential and future prospects
-
Quillaguaman J, Guzman H, Van-Thuoc D, Hatti-Kaul R (2010) Synthesis and production of polyhydroxyalkanoates by halophiles: current potential and future prospects. Appl Microbiol Biotechnol 85: 1687-1696.
-
(2010)
Appl Microbiol Biotechnol
, vol.85
, pp. 1687-1696
-
-
Quillaguaman, J.1
Guzman, H.2
Van-Thuoc, D.3
Hatti-Kaul, R.4
-
51
-
-
0036795638
-
Crenarchaeol: The characteristic core glycerol dibiphytanyl glycerol tetraether membrane lipid of cosmopolitan pelagic crenarchaeota
-
DOI 10.1194/jlr.M200148-JLR200
-
Damsté JS, Schouten S, Hopmans EC, van Duin AC, Geenevasen JA (2002) Crenarchaeol: the characteristic core glycerol dibiphytanyl glycerol tetraether membrane lipid of cosmopolitan pelagic crenarchaeota. J Lipid Res 43: 1641-1651. (Pubitemid 35168278)
-
(2002)
Journal of Lipid Research
, vol.43
, Issue.10
, pp. 1641-1651
-
-
Sinninghe, D.J.S.1
Schouten, S.2
Hopmans, E.C.3
Van Duin, A.C.T.4
Geenevasen, J.A.J.5
-
52
-
-
77955273494
-
Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota
-
Spang A, Hatzenpichler R, Brochier-Armanet C, Rattei T, Tischler P, et al. (2010) Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota. Trends Microbiol 18: 331-340.
-
(2010)
Trends Microbiol
, vol.18
, pp. 331-340
-
-
Spang, A.1
Hatzenpichler, R.2
Brochier-Armanet, C.3
Rattei, T.4
Tischler, P.5
-
53
-
-
38549131184
-
Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol
-
DOI 10.1111/j.1462-2920.2007.01506.x
-
de la Torre J, Walker C, Ingalls A, Könneke M, Stahl D (2008) Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Envirom Microbiol 10: 810-8. (Pubitemid 351160920)
-
(2008)
Environmental Microbiology
, vol.10
, Issue.3
, pp. 810-818
-
-
De La, T.J.R.1
Walker, C.B.2
Ingalls, A.E.3
Konneke, M.4
Stahl, D.A.5
-
54
-
-
77950043418
-
Crenarchaeol dominates the membrane lipids of Candidatus Nitrososphaera gargensis, a thermophilic group I.1b Archaeon
-
Pitcher A, Rychlik N, Hopmans E, Spieck E, Rijpstra W, et al. (2010) Crenarchaeol dominates the membrane lipids of Candidatus Nitrososphaera gargensis, a thermophilic group I.1b Archaeon. ISME J 4: 542-52.
-
(2010)
ISME J
, vol.4
, pp. 542-552
-
-
Pitcher, A.1
Rychlik, N.2
Hopmans, E.3
Spieck, E.4
Rijpstra, W.5
-
55
-
-
0033793828
-
Biosynthesis of isoprenoids via mevalonate in archaea: The Lost Pathway
-
Smit A, Mushegian A (2000) Biosynthesis of isoprenoids via mevalonate in archaea: The Lost Pathway. Genome Res 10: 1468-1484.
-
(2000)
Genome Res
, vol.10
, pp. 1468-1484
-
-
Smit, A.1
Mushegian, A.2
-
56
-
-
27844510004
-
Stress response by solute accumulation in archaea
-
DOI 10.1016/j.mib.2005.10.011, PII S1369527405001670, Growth Development
-
Muller V, Spanheimer R, Santos H (2005) Stress response by solute accumulation in archaea. Curr Opin Microbiol 8: 729-736. (Pubitemid 41643042)
-
(2005)
Current Opinion in Microbiology
, vol.8
, Issue.6
, pp. 729-736
-
-
Muller, V.1
Spanheimer, R.2
Santos, H.3
-
57
-
-
31944443146
-
Why do microorganisms have aquaporins?
-
DOI 10.1016/j.tim.2005.12.001, PII S0966842X0500332X
-
Tanghe A, Van Dijck P, Thevelein JM (2006) Why do microorganisms have aquaporins? Trends Microbiol 14: 78-85. (Pubitemid 43190737)
-
(2006)
Trends in Microbiology
, vol.14
, Issue.2
, pp. 78-85
-
-
Tanghe, A.1
Van Dijck, P.2
Thevelein, J.M.3
-
58
-
-
0035703118
-
Osmoadaptation in bacteria and archaea: Common principles and differences
-
Roesser M, Müller V (2001) Osmoadaptation in bacteria and archaea: common principles and differences. Envirom Microbiol 3: 743-754.
-
(2001)
Envirom Microbiol
, vol.3
, pp. 743-754
-
-
Roesser, M.1
Müller, V.2
-
59
-
-
84894369857
-
Survival of the fittest: Overcoming oxidative stress at the extremes of acid, heat and metal
-
Maezato Y, Blum P (2012) Survival of the fittest: overcoming oxidative stress at the extremes of acid, heat and metal. Life 2: 229-242.
-
(2012)
Life
, vol.2
, pp. 229-242
-
-
Maezato, Y.1
Blum, P.2
-
60
-
-
34547263402
-
Microbial extremophiles at the limits of life
-
DOI 10.1080/10408410701451948, PII 780669110
-
Pikuta EV, Hoover RB, Tang J (2007) Microbial extremophiles at the limits of life. Crit Rev Microbiol 33: 183-209. (Pubitemid 47134687)
-
(2007)
Critical Reviews in Microbiology
, vol.33
, Issue.3
, pp. 183-209
-
-
Pikuta, E.V.1
Hoover, R.B.2
Tang, J.3
-
61
-
-
70350596382
-
Do ammonia-oxidizing archaea respond to soil Cu contamination similarly asammonia-oxidizing bacteria?
-
Li X, Zhu YG, Cavagnaro TR, Chen M, Sun J, et al. (2009) Do ammonia-oxidizing archaea respond to soil Cu contamination similarly asammonia-oxidizing bacteria? Plant Soil 324: 209-217.
-
(2009)
Plant Soil
, vol.324
, pp. 209-217
-
-
Li, X.1
Zhu, Y.G.2
Cavagnaro, T.R.3
Chen, M.4
Sun, J.5
-
62
-
-
33746048460
-
Molecular characterization of a conserved archaeal copper resistance (cop) gene cluster and its copper-responsive regulator in Sulfolobus solfataricus P2
-
DOI 10.1099/mic.0.28724-0
-
Ettema TJ, Brinkman AB, Lamers PP, Kornet NG, de Vos WM, et al. (2006) Molecular characterization of a conserved resistance (cop) gene cluster and its copper-responsive regulator in Sulfolobus solfataricus P2. Microbiology 152: 1969-1979. (Pubitemid 44070454)
-
(2006)
Microbiology
, vol.152
, Issue.7
, pp. 1969-1979
-
-
Ettema, T.J.G.1
Brinkman, A.B.2
Lamers, P.P.3
Kornet, N.G.4
De Vos, W.M.5
Van Der Oost, J.6
-
63
-
-
84875436722
-
Molecular characterization of copper and cadmium resistance determinants in the biomining thermoacidophilic archaeon Sulfolobus metallicus
-
doi:101155/2013/289236
-
Orell A, Remonsellez F, Arancibia R, Jerez CA (2013) Molecular characterization of copper and cadmium resistance determinants in the biomining thermoacidophilic archaeon Sulfolobus metallicus. Archaea doi:101155/2013/289236
-
(2013)
Archaea
-
-
Orell, A.1
Remonsellez, F.2
Arancibia, R.3
Jerez, C.A.4
-
64
-
-
84881013236
-
A multicopper oxidase is required for copper resistance in Mycobacterium tuberculosis
-
Rowland JL, Niederweis M (2013) A multicopper oxidase is required for copper resistance in Mycobacterium tuberculosis. J Bacteriol 195: 3724-3733.
-
(2013)
J Bacteriol
, vol.195
, pp. 3724-3733
-
-
Rowland, J.L.1
Niederweis, M.2
-
65
-
-
30744445719
-
Copper tolerance of the thermoacidophilic archaeon Sulfolobus metallicus: Possible role of polyphosphate metabolism
-
DOI 10.1099/mic.0.28241-0
-
Remonsellez F, Orell A, Jerez CA (2006) Copper tolerance of the thermoacidophilic archaeon Sulfolobus metallicus: possible role of polyphosphate metabolism. Microbiology 152: 59-66. (Pubitemid 43092393)
-
(2006)
Microbiology
, vol.152
, Issue.1
, pp. 59-66
-
-
Remonsellez, F.1
Orell, A.2
Jerez, C.A.3
-
66
-
-
84869866788
-
Horizontal gene transfer of a chloroplast DnaJ-Fer protein to Thaumarchaeota and the evolutionary history of the DnaK chaperone system in Archaea
-
Petitjean C, Moreira D, López-García P, Brochier-Armanet C (2011) Horizontal gene transfer of a chloroplast DnaJ-Fer protein to Thaumarchaeota and the evolutionary history of the DnaK chaperone system in Archaea. BMC Evol Biol 12: 226.
-
(2011)
BMC Evol Biol
, vol.12
, pp. 226
-
-
Petitjean, C.1
Moreira, D.2
López-García, P.3
Brochier-Armanet, C.4
-
67
-
-
0033554650
-
Measurement of nitrate and ammonium uptake at ambient concentrations in oligotrophic waters of the North-East Atlantic Ocean
-
Rees A, Woodward M, Joint I (1999) Measurement of nitrate and ammonium uptake at ambient concentrations in oligotrophic waters of the North-East Atlantic Ocean. Mar Ecol Prog Ser 187: 295-300.
-
(1999)
Mar Ecol Prog Ser
, vol.187
, pp. 295-300
-
-
Rees, A.1
Woodward, M.2
Joint, I.3
-
68
-
-
77950912269
-
Genomic arrangement of bacterial operons is constrained by biological pathways encoded in the genome
-
Yin Y, Zhang H, Olman V, Xu Y (2010) Genomic arrangement of bacterial operons is constrained by biological pathways encoded in the genome Proc Natl Acad Sci USA 107: 6310-5.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 6310-6315
-
-
Yin, Y.1
Zhang, H.2
Olman, V.3
Xu, Y.4
-
69
-
-
0036226260
-
Nitrite reductase of Nitrosomonas europaea is not essential for production of gaseous nitrogen oxides and confers tolerance to nitrite
-
DOI 10.1128/JB.184.9.2557-2560.2002
-
Beaumont HJE, Hommes NG, Sayavedra-Soto LA, Arp DJ, Arciero DM, et al. (2002) Nitrite reductase of Nitrosomonas europaea is not essential for production of gaseous nitrogen oxides and confers tolerance to nitrite. J Bacteriol 184: 2557-2560. (Pubitemid 34311152)
-
(2002)
Journal of Bacteriology
, vol.184
, Issue.9
, pp. 2557-2560
-
-
Beaumont, H.J.E.1
Hommes, N.G.2
Sayavedra-Soto, L.A.3
Arp, D.J.4
Arciero, D.M.5
Hooper, A.B.6
Westerhoff, H.V.7
Van Spanning, R.J.M.8
-
70
-
-
3042513819
-
Nitrosomonas europaea expresses a nitric oxide reductase during nitrification
-
DOI 10.1128/JB.186.13.4417-4421.2004
-
Beaumont HJE, van Schooten B, Lens SI, Westerhoff HV, van Spanning RJ (2004) Nitrosomonas europaea expresses a nitric oxide reductase during nitrification. J Bacteriol 186: 4417-4421. (Pubitemid 38802595)
-
(2004)
Journal of Bacteriology
, vol.186
, Issue.13
, pp. 4417-4421
-
-
Beaumont, H.J.E.1
Van Schooten, B.2
Lens, S.I.3
Westerhoff, H.V.4
Van Spanning, R.J.M.5
-
71
-
-
0034663575
-
Electron transfer during the oxidation of ammonia by the chemolithotrophic bacterium Nitrosomonas europaea
-
DOI 10.1016/S0005-2728(00)00171-7, PII S0005272800001717
-
Whittaker M, Bergmann D, Arciero D, Hooper AB (2000) Electron transfer during the oxidation of ammonia by the chemolithotrophic bacterium Nitrosomonas europaea. Biochim Biophys Acta 1459: 346-355. (Pubitemid 30612407)
-
(2000)
Biochimica et Biophysica Acta - Bioenergetics
, vol.1459
, Issue.2-3
, pp. 346-355
-
-
Whittaker, M.1
Bergmann, D.2
Arciero, D.3
Hooper, A.B.4
-
72
-
-
84870216095
-
The SLC10 carrier family: Transport functions and molecular structure
-
Döring B, Lütteke T, Geyer J, Petzinger E (2012) The SLC10 carrier family: transport functions and molecular structure. Curr Top Membr 70: 105-168.
-
(2012)
Curr Top Membr
, vol.70
, pp. 105-168
-
-
Döring, B.1
Lütteke, T.2
Geyer, J.3
Petzinger, E.4
-
73
-
-
80052071456
-
A plastidial sodium-dependent pyruvate transporter
-
Furumoto T, Yamaguchi T Ohshima-Ichie Y, Nakamura M, Tsuchida-Iwata Y, et al. (2011) A plastidial sodium-dependent pyruvate transporter. Nature 476: 472-475.
-
(2011)
Nature
, vol.476
, pp. 472-475
-
-
Furumoto, T.1
Yamaguchi, T.2
Ohshima-Ichie, Y.3
Nakamura, M.4
Tsuchida-Iwata, Y.5
-
75
-
-
67549091828
-
Phosphate-dependent behavior of the archaeon Halobacterium salinarum Strain R1
-
Wende A, Furtwangler K, Oesterhelt D (2009) Phosphate-dependent behavior of the archaeon Halobacterium salinarum Strain R1. J Bacteriol 191: 3852-3860.
-
(2009)
J Bacteriol
, vol.191
, pp. 3852-3860
-
-
Wende, A.1
Furtwangler, K.2
Oesterhelt, D.3
-
76
-
-
79959326633
-
Characterization of the induction and cellular role of the BaeSR two-component envelope stress response of Escherichia coli
-
Leblanc SKD, Oates CW, Raivio TL (2011) Characterization of the induction and cellular role of the BaeSR two-component envelope stress response of Escherichia coli. J Bacteriol 193: 3367-3375.
-
(2011)
J Bacteriol
, vol.193
, pp. 3367-3375
-
-
Leblanc, S.K.D.1
Oates, C.W.2
Raivio, T.L.3
-
77
-
-
84864675114
-
The CopRS two-component system is responsible for resistance to copper in the cyanobacterium Synechocystis sp. PCC 6803
-
Giner-Lamia J, López-Maury L, Reyes JC, Florencio FJ (2012) The CopRS two-component system is responsible for resistance to copper in the cyanobacterium Synechocystis sp. PCC 6803. Plant Physiol 159: 1806-1818.
-
(2012)
Plant Physiol
, vol.159
, pp. 1806-1818
-
-
Giner-Lamia, J.1
López-Maury, L.2
Reyes, J.C.3
Florencio, F.J.4
-
78
-
-
84873544862
-
Identification of a target gene and activating stimulus for the YpdA/YpdB histidine kinase/response regulator system in Escherichia coli
-
Fried L, Behr S, Jung K (2013) Identification of a target gene and activating stimulus for the YpdA/YpdB histidine kinase/response regulator system in Escherichia coli. J Bacteriol 195: 807-815.
-
(2013)
J Bacteriol
, vol.195
, pp. 807-815
-
-
Fried, L.1
Behr, S.2
Jung, K.3
-
79
-
-
0035152738
-
Specificity and genetic polymorphism of the Bacillus competence quorum-sensing system
-
DOI 10.1128/JB.183.2.451-460.2001
-
Tortosa P, Logsdon L, Kraigher B, Itoh Y, Mandic-Mulec I, et al. (2001) Specificity and genetic polymorphism of the Bacillus competence quorum-sensing system. J Bacteriol 183: 451-460. (Pubitemid 32048102)
-
(2001)
Journal of Bacteriology
, vol.183
, Issue.2
, pp. 451-460
-
-
Tortosa, P.1
Logsdon, L.2
Kraigher, B.3
Itoh, Y.4
Mandic-Mulec, I.5
Dubnau, D.6
-
80
-
-
66249122044
-
Evolution of complex RNA polymerases: The complete archaeal RNA polymerase structure
-
Korkhin Y, Unligil UM, Littlefield O, Nelson PJ, Stuart DI, et al. (2009) Evolution of complex RNA polymerases: the complete archaeal RNA polymerase structure. PLOS Biol 7: 0001-0010.
-
(2009)
PLOS Biol
, vol.7
, pp. 0001-0010
-
-
Korkhin, Y.1
Unligil, U.M.2
Littlefield, O.3
Nelson, P.J.4
Stuart, D.I.5
-
81
-
-
59749083724
-
Role of multiprotein bridging factor 1 in archaea: Bridging the domains?
-
de Koning, Blombach F, Wu H, Brouns SJJ, Oost JVD (2009) Role of multiprotein bridging factor 1 in archaea: bridging the domains? Biochem Soc Trans 37: 52-57.
-
(2009)
Biochem Soc Trans
, vol.37
, pp. 52-57
-
-
De Koning1
Blombach, F.2
Wu, H.3
Brouns, S.J.J.4
Oost, J.V.D.5
-
83
-
-
0030296660
-
An archaebacterial homolog of pelota, a meiotic cell division protein in eukaryotes
-
DOI 10.1016/0378-1097(96)00351-5
-
Ragan MA, Logsdon JM, Sensen CW, Charlebois RL, Doolittle WF (1996) An archaebacterial homolog of pelota, a meiotic cell division protein in eukaryotes. FEMS Microbiol Lett 144: 151-155. (Pubitemid 26354320)
-
(1996)
FEMS Microbiology Letters
, vol.144
, Issue.2-3
, pp. 151-155
-
-
Ragan, M.A.1
Logsdon Jr., J.M.2
Sensen, C.W.3
Charlebois, R.L.4
Doolittle, W.F.5
-
84
-
-
78049291491
-
Structural basis for mRNA surveillance by archaeal Pelota and GTP-bound EF1α complex
-
Kobayashi K, Kikuno I, Kuroha K, Saito K, Ito K, et al. (2010) Structural basis for mRNA surveillance by archaeal Pelota and GTP-bound EF1α complex. Proc Natl Acad Sci USA 107: 17575-9.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 17575-17579
-
-
Kobayashi, K.1
Kikuno, I.2
Kuroha, K.3
Saito, K.4
Ito, K.5
-
85
-
-
77957837282
-
Fidelity in archaeal information processing
-
doi:10.1155/2010/960298
-
de Koning B, Blombach F, Brouns SJ, van der Oost J (2009) Fidelity in archaeal information processing. Archaea (Vancouver, BC) 2010: doi:10.1155/2010/960298
-
(2009)
Archaea (Vancouver, BC)
, vol.2010
-
-
De Koning, B.1
Blombach, F.2
Brouns, S.J.3
Van Der Oost, J.4
-
86
-
-
0038202108
-
Archaeal DNA repair: Paradigms and puzzles
-
White MF (2003) Archaeal DNA repair: paradigms and puzzles. Biochem Soc Trans 31: 690-693.
-
(2003)
Biochem Soc Trans
, vol.31
, pp. 690-693
-
-
White, M.F.1
-
87
-
-
78149449833
-
Use of cellular CRISPR (clusters of regularly interspaced short palindromic repeats) spacer-based microarrays for detection of viruses in environmental samples
-
Snyder JC, Bateson MM, Lavin M, Young MJ (2010) Use of cellular CRISPR (clusters of regularly interspaced short palindromic repeats) spacer-based microarrays for detection of viruses in environmental samples. Appl Environ Microbiol 76: 7251-7258.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 7251-7258
-
-
Snyder, J.C.1
Bateson, M.M.2
Lavin, M.3
Young, M.J.4
-
88
-
-
74249095519
-
CRISPR/Cas, the immune system of bacteria and archaea
-
Horvath P, Barrangou R (2010) CRISPR/Cas, the immune system of bacteria and archaea. Science 327: 167-170.
-
(2010)
Science
, vol.327
, pp. 167-170
-
-
Horvath, P.1
Barrangou, R.2
-
89
-
-
77249170201
-
CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea
-
Marraffini L, Sontheimer E (2010) CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea. Nat Rev Genet 11: 181-90.
-
(2010)
Nat Rev Genet
, vol.11
, pp. 181-190
-
-
Marraffini, L.1
Sontheimer, E.2
-
90
-
-
80053158633
-
Cultivation of an obligate acidophilic ammonia oxidizer from a nitrifying acid soil
-
Lehtovirta-Morley L, Stoecker K, Vilcinskas A, Prosser J, Nicol G (2011) Cultivation of an obligate acidophilic ammonia oxidizer from a nitrifying acid soil. Proc Natl Acad Sci USA 108: 15892-7.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 15892-15897
-
-
Lehtovirta-Morley, L.1
Stoecker, K.2
Vilcinskas, A.3
Prosser, J.4
Nicol, G.5
-
91
-
-
25644435673
-
Isolation of an autotrophic ammonia-oxidizing marine archaeon
-
DOI 10.1038/nature03911, PII N03911
-
Könneke M, Bernhard AE, de la Torre JR, Walker CB, Waterbury JB, et al. (2005) Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature 437: 543-546. (Pubitemid 41613550)
-
(2005)
Nature
, vol.437
, Issue.7058
, pp. 543-546
-
-
Konneke, M.1
Bernhard, A.E.2
De La, T.J.R.3
Walker, C.B.4
Waterbury, J.B.5
Stahl, D.A.6
-
93
-
-
41149153310
-
A moderately thermophilic ammonia-oxidizing crenarchaeote from a hot spring
-
DOI 10.1073/pnas.0708857105
-
Hatzenpichler R, Lebedeva EV, Spieck E, Stoecker K, Richter A, et al. (2008) A moderately thermophilic ammonia-oxidizing crenarchaeote from a hot spring. Proc Natl Acad Sci U S A 105: 2134-2139. (Pubitemid 351439477)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.6
, pp. 2134-2139
-
-
Hatzenpichler, R.1
Lebedeva, E.V.2
Spieck, E.3
Stoecker, K.4
Richter, A.5
Daims, H.6
Wagner, M.7
-
94
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso GJ, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, et al. (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7: 335-336.
-
(2010)
Nat Methods
, vol.7
, pp. 335-336
-
-
Caporaso, G.J.1
Kuczynski, J.2
Stombaugh, J.3
Bittinger, K.4
Bushman, F.D.5
-
95
-
-
26844541457
-
Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean
-
DOI 10.1073/pnas.0506625102
-
Francis CA, Roberts KJ, Beman JM, Santoro AE, Oakley BB (2005) Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean. Proc Natl Acad Sci U S A 102: 14683-14688. (Pubitemid 41457116)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.41
, pp. 14683-14688
-
-
Francis, C.A.1
Roberts, K.J.2
Beman, J.M.3
Santoro, A.E.4
Oakley, B.B.5
-
96
-
-
0030814870
-
The ammonia monooxygenase structural gene amoa as a functional marker: Molecular fine-scale analysis of natural ammonia-oxidizing populations
-
Rotthauwe JH, Witzel KP, Liesack W (1997) The ammonia monooxygenase structural gene amoA as a functional marker: molecular fine-scale analysis of natural ammonia-oxidizing populations. Appl Environ Microbiol 63: 4704-12. (Pubitemid 27524201)
-
(1997)
Applied and Environmental Microbiology
, vol.63
, Issue.12
, pp. 4704-4712
-
-
Rotthauwe, J.-H.1
Witzel, K.-P.2
Liesack, W.3
-
97
-
-
84861760530
-
IDBA-UD: A de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
-
Peng Y, Leung HC, Yiu S-M, Chin FY (2012) IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics 28: 1420-1428.
-
(2012)
Bioinformatics
, vol.28
, pp. 1420-1428
-
-
Peng, Y.1
Leung, H.C.2
Yiu, S.-M.3
Chin, F.Y.4
-
98
-
-
3042631307
-
Genome sequence assembly using trace signals and additional sequence information
-
Chevreux B, Wetter T, Suhai Sn (1999) Genome sequence assembly using trace signals and additional sequence information. In: German conference on Bioinformatics 45: 56.
-
(1999)
German Conference on Bioinformatics
, vol.45
, pp. 56
-
-
Chevreux, B.1
Wetter, T.2
Suhai, Sn.3
-
99
-
-
3242891068
-
VISTA: Computational tools for comparative genomics
-
DOI 10.1093/nar/gkh458
-
Frazer KA, Pachter L, Poliakov A, Rubin EM, Dubchak I (2004) VISTA: computational tools for comparative genomics. Nucleic Acids Res 32: W273-279. (Pubitemid 38997343)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.WEB SERVER ISS.
-
-
Frazer, K.A.1
Pachter, L.2
Poliakov, A.3
Rubin, E.M.4
Dubchak, I.5
-
100
-
-
3543051830
-
Mauve: Multiple alignment of conserved genomic sequence with rearrangements
-
DOI 10.1101/gr.2289704
-
Darling AC, Mau B, Blattner FR, Perna NT (2004) Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res 14: 1394-1403. (Pubitemid 39029237)
-
(2004)
Genome Research
, vol.14
, Issue.7
, pp. 1394-1403
-
-
Darling, A.C.E.1
Mau, B.2
Blattner, F.R.3
Perna, N.T.4
-
101
-
-
40549120596
-
The RAST Server: Rapid Annotations using Subsystems Technology
-
Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, et al. (2008) The RAST Server: Rapid Annotations using Subsystems Technology. BMC Genomics 9: 75.
-
(2008)
BMC Genomics
, vol.9
, pp. 75
-
-
Aziz, R.K.1
Bartels, D.2
Best, A.A.3
DeJongh, M.4
Disz, T.5
-
102
-
-
69949116874
-
IMG ER: A system for microbial genome annotation expert review and curation
-
Markowitz VM, Mavromatis K, Ivanova NN, Chen I, Chu K, et al. (2009) IMG ER: a system for microbial genome annotation expert review and curation. Bioinformatics 25: 2271-2278.
-
(2009)
Bioinformatics
, vol.25
, pp. 2271-2278
-
-
Markowitz, V.M.1
Mavromatis, K.2
Ivanova, N.N.3
Chen, I.4
Chu, K.5
-
103
-
-
80053651587
-
GenBank
-
Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, et al. (2013) GenBank. Nucleic Acids Res 41(D): 36-42.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.D
, pp. 36-42
-
-
Benson, D.A.1
Cavanaugh, M.2
Clark, K.3
Karsch-Mizrachi, I.4
Lipman, D.J.5
-
104
-
-
84876134492
-
TIGRFAMs and genome properties in 2013
-
Haft DH, Selengut JD, Richter RA, Harkins D, Basu MK, et al. (2013) TIGRFAMs and genome properties in 2013. Nucleic Acids Res 41(D): 387-395.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.D
, pp. 387-395
-
-
Haft, D.H.1
Selengut, J.D.2
Richter, R.A.3
Harkins, D.4
Basu, M.K.5
-
105
-
-
0042902833
-
The COG database: An updated version includes eukaryotes
-
Tatusov RL, Fedorova ND, Jackson JD, Jackobs AR, Kiryutin B, et al. (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
Jackobs, A.R.4
Kiryutin, B.5
-
106
-
-
78651285748
-
CDD: A conserved domain database for the functional annotation of proteins
-
Marchler-Bauer A, Lu S, Anderson JB, Chitsaz F, Deryshire MK, et al. (2011) "CDD: a conserved domain database for the functional annotation of proteins". Nucleic Acids Res 39(D): 225-229.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.D
, pp. 225-229
-
-
Marchler-Bauer, A.1
Lu, S.2
Anderson, J.B.3
Chitsaz, F.4
Deryshire, M.K.5
-
107
-
-
34547579396
-
CRISPRFinder: A web tool to identify clustered regularly interspaced short palindromic repeats
-
Grissa I, Vergnaud G, Poucel C (2007) CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats. Nucleic Acids Res 35: W52-W57.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Grissa, I.1
Vergnaud, G.2
Poucel, C.3
-
108
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
109
-
-
34547489084
-
Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
-
DOI 10.1080/10635150701472164, PII 780704285
-
Talavera G, Castresana J (2007) Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst Biol 56: 564-577. (Pubitemid 47171631)
-
(2007)
Systematic Biology
, vol.56
, Issue.4
, pp. 564-577
-
-
Talavera, G.1
Castresana, J.2
-
110
-
-
80055104018
-
MorePhyML: Improving the phylogenetic tree space exploration with PhyML 3
-
Criscuolo A (2011) MorePhyML: improving the phylogenetic tree space exploration with PhyML 3. Mol Phylogenet Evol 61: 944-948.
-
(2011)
Mol Phylogenet Evol
, vol.61
, pp. 944-948
-
-
Criscuolo, A.1
-
112
-
-
73149098333
-
Shifting the genomic gold standard for the prokaryotic species definition
-
Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 106: 19126-19131.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 19126-19131
-
-
Richter, M.1
Rosselló-Móra, R.2
-
113
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
Edgar RC (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
114
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, et al. (2004) Versatile and open software for comparing large genomes. Genome Biology 5: R12.
-
(2004)
Genome Biology
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
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