-
1
-
-
79955572619
-
Diversity of uncultivated Archaea: Perspectives from microbial ecology and metagenomics
-
In Garrett, R.A. and Klenk, H.-P. (eds) Blackwell Publishing, Oxford
-
Schleper, C. (2007) Diversity of uncultivated Archaea: perspectives from microbial ecology and metagenomics. In Garrett, R.A. and Klenk, H.-P. (eds), Archaea; Evolution, Physiology, and Molecular Biology. Blackwell Publishing, Oxford, pp. 39-50.
-
(2007)
Archaea; Evolution, Physiology, and Molecular Biology.
, pp. 39-50
-
-
Schleper, C.1
-
2
-
-
33845286513
-
Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum
-
DOI 10.1073/pnas.0608549103
-
Hallam, S.J., Konstantinidis, K.T., Putnam, N., Schleper, C., Watanabe, Y., Sugahara, J., Preston, C., de la Torre, J., Richardson, P.M. and DeLong, E.F. (2006) Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum. Proc. Natl Acad. Sci. USA, 103, 18296-18301. (Pubitemid 44871652)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.48
, pp. 18296-18301
-
-
Hallam, S.J.1
Konstantinidis, K.T.2
Putnam, N.3
Schleper, C.4
Watanabe, Y.-I.5
Sugahara, J.6
Preston, C.7
De La Torre, J.8
Richardson, P.M.9
DeLong, E.F.10
-
3
-
-
33646260901
-
Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota
-
Hallam, S.J., Mincer, T.J., Schleper, C., Preston, C.M., Roberts, K., Richardson, P.M. and DeLong, E.F. (2006) Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota. PLoS Biol., 4, e95.
-
(2006)
PLoS Biol.
, vol.4
-
-
Hallam, S.J.1
Mincer, T.J.2
Schleper, C.3
Preston, C.M.4
Roberts, K.5
Richardson, P.M.6
Delong, E.F.7
-
4
-
-
39149118031
-
Mesophilic crenarchaeota: Proposal for a third archaeal phylum, the Thaumarchaeota
-
DOI 10.1038/nrmicro1852, PII NRMICRO1852
-
Brochier-Armanet, C., Boussau, B., Gribaldo, S. and Forterre, P. (2008) Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota. Nat. Rev. Microbiol., 6, 245-252. (Pubitemid 351256319)
-
(2008)
Nature Reviews Microbiology
, vol.6
, Issue.3
, pp. 245-252
-
-
Brochier-Armanet, C.1
Boussau, B.2
Gribaldo, S.3
Forterre, P.4
-
5
-
-
45849112155
-
A korarchaeal genome reveals insights into the evolution of the Archaea
-
DOI 10.1073/pnas.0801980105
-
Elkins, J.G., Podar, M., Graham, D.E., Makarova, K.S., Wolf, Y., Randau, L., Hedlund, B.P., Brochier-Armanet, C., Kunin, V., Anderson, I. et al. (2008) A korarchaeal genome reveals insights into the evolution of the Archaea. Proc Natl Acad. Sci. USA, 105, 8102-8107. (Pubitemid 351904715)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.23
, pp. 8102-8107
-
-
Elkins, J.G.1
Podar, M.2
Graham, D.E.3
Makarova, K.S.4
Wolf, Y.5
Randau, L.6
Hedlund, B.P.7
Brochier-Armanet, C.8
Kunin, V.9
Anderson, I.10
Lapidus, A.11
Goltsman, E.12
Barry, K.13
Koonin, E.V.14
Hugenholtz, P.15
Kyrpides, N.16
Wanner, G.17
Richardson, P.18
Keller, M.19
Stetter, K.O.20
more..
-
6
-
-
25644435673
-
Isolation of an autotrophic ammonia-oxidizing marine archaeon
-
DOI 10.1038/nature03911, PII N03911
-
Konneke, M., Bernhard, A.E., de la Torre, J.R., Walker, C.B., Waterbury, J.B. and Stahl, DA. (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 Torre, J.R.3
Walker, C.B.4
Waterbury, J.B.5
Stahl, D.A.6
-
7
-
-
38549131184
-
Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol
-
DOI 10.1111/j.1462-2920.2007.01506.x
-
de la Torre, J.R., Walker, C.B., Ingalls, A.E., Konneke, M. and Stahl, DA. (2008) Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environ. Microbiol., 10, 810-818. (Pubitemid 351160920)
-
(2008)
Environmental Microbiology
, vol.10
, Issue.3
, pp. 810-818
-
-
De La Torre, J.R.1
Walker, C.B.2
Ingalls, A.E.3
Konneke, M.4
Stahl, D.A.5
-
8
-
-
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., Spieck, E., Streit, W., Stahl, DA., Wagner, M. and Schleper, C. (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
Spieck, E.6
Streit, W.7
Stahl, D.A.8
Wagner, M.9
Schleper, C.10
-
9
-
-
77952739182
-
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
-
Walker, C.B., de la Torre, J.R., Klotz, M.G, Urakawa, H., Pinel, N., Arp, D.J., Brochier-Armanet, C., Chain, P.S., Chan, P.P., Gollabgir A. et al. (2010) Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea. Proc Natl Acad. Sci. USA, 107, 8818-8823.
-
(2010)
Proc Natl Acad. Sci. USA
, 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
Arp, D.J.6
Brochier-Armanet, C.7
Chain, P.S.8
Chan, P.P.9
Gollabgir, A.10
-
10
-
-
0037007636
-
A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont
-
DOI 10.1038/417063a
-
Huber, H., Hohn, M.J., Rachel, R., Fuchs, T., Wimmer, V.C. and Stetter, K.O. (2002) A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont. Nature, 417, 63-67. (Pubitemid 34498815)
-
(2002)
Nature
, vol.417
, Issue.6884
, pp. 63-67
-
-
Huber, H.1
Hohn, M.J.2
Rachel, R.3
Fuchs, T.4
Wimmer, V.C.5
Stetter, K.O.6
-
11
-
-
25144485401
-
Nanoarchaea: Representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales?
-
Brochier, C., Gribaldo, S., Zivanovic, Y., Confalonieri, F. and Forterre, P. (2005) Nanoarchaea: representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales? Genome Biol., 6, R42.
-
(2005)
Genome Biol.
, vol.6
-
-
Brochier, C.1
Gribaldo, S.2
Zivanovic, Y.3
Confalonieri, F.4
Forterre, P.5
-
12
-
-
63649113699
-
Origin and function of ubiquitin-like proteins
-
Hochstrasser, M. (2009) Origin and function of ubiquitin-like proteins. Nature, 458, 422-429.
-
(2009)
Nature
, vol.458
, pp. 422-429
-
-
Hochstrasser, M.1
-
13
-
-
33747219426
-
The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains
-
Iyer, L.M., Burroughs, A.M. and Aravind, L. (2006) The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains. Genome Biol., 7, R60.
-
(2006)
Genome Biol.
, vol.7
-
-
Iyer, L.M.1
Burroughs, A.M.2
Aravind, L.3
-
14
-
-
42649124278
-
Anatomy of the E2 ligase fold: Implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation
-
Burroughs, A.M., Jaffee, M., Iyer, L.M. and Aravind, L. (2008) Anatomy of the E2 ligase fold: implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation. J. Struct. Biol., 162, 205-218.
-
(2008)
J. Struct. Biol.
, vol.162
, pp. 205-218
-
-
Burroughs, A.M.1
Jaffee, M.2
Iyer, L.M.3
Aravind, L.4
-
15
-
-
66149175454
-
Natural history of the E1-like superfamily: Implication for adenylation, sulfur transfer, and ubiquitin conjugation
-
Burroughs, A.M., Iyer, L.M. and Aravind, L. (2009) Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation. Proteins, 75, 895-910.
-
(2009)
Proteins
, vol.75
, pp. 895-910
-
-
Burroughs, A.M.1
Iyer, L.M.2
Aravind, L.3
-
16
-
-
56449118262
-
Ubiquitin-like protein involved in the proteasome pathway of Mycobacterium tuberculosis
-
Pearce, M.J., Mintseris, J., Ferreyra, J., Gygi, S.P. and Darwin, K.H. (2008) Ubiquitin-like protein involved in the proteasome pathway of Mycobacterium tuberculosis. Science, 322, 1104-1107.
-
(2008)
Science
, vol.322
, pp. 1104-1107
-
-
Pearce, M.J.1
Mintseris, J.2
Ferreyra, J.3
Gygi, S.P.4
Darwin, K.H.5
-
18
-
-
73849149089
-
Ubiquitin-like small archaeal modifier proteins (SAMPs) in Haloferax volcanii
-
Humbard, MA., Miranda, H.V., Lim, J.-M., Krause, D.J., Pritz, J.R., Zhou, G, Chen, S., Wells, L. and Maupin-Furlow, JA. (2010) Ubiquitin-like small archaeal modifier proteins (SAMPs) in Haloferax volcanii. Nature, 463, 54-62.
-
(2010)
Nature
, vol.463
, pp. 54-62
-
-
Humbard, M.A.1
Miranda, H.V.2
Lim, J.-M.3
Krause, D.J.4
Pritz, J.R.5
Zhou, G.6
Chen, S.7
Wells, L.8
Maupin-Furlow, J.A.9
-
19
-
-
0029832927
-
Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences
-
DOI 10.1073/pnas.93.17.9188
-
Barns, S.M., Delwiche, C.F., Palmer, J.D. and Pace, N.R. (1996) Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proc Natl Acad. Sci. USA, 93, 9188-9193. (Pubitemid 26282757)
-
(1996)
Proceedings of the National Academy of Sciences of the United States of America
, vol.93
, Issue.17
, pp. 9188-9193
-
-
Barns, S.M.1
Delwiche, C.F.2
Palmer, J.D.3
Pace, N.R.4
-
20
-
-
0035463778
-
Phylogenetic diversity analysis of subterranean hot springs in Iceland
-
DOI 10.1128/AEM.67.9.4242-4248.2001
-
Marteinsson, V.T., Hauksdottir, S., Hobel, C.F.V., Kristmannsdottir, H., Hreggvidsson, GO. and Kristjansson, J.K. (2001) Phylogenetic diversity analysis of subterranean hot springs in Iceland. Appl. Environ. Microbiol., 67, 4242-4248. (Pubitemid 33641722)
-
(2001)
Applied and Environmental Microbiology
, vol.67
, Issue.9
, pp. 4242-4248
-
-
Marteinsson, V.T.1
Hauksdottir, S.2
Hobel, C.F.V.3
Kristmannsdottir, H.4
Hreggvidsson, G.O.5
Kristjansson, J.K.6
-
21
-
-
28644447444
-
Genetic and functional properties of uncultivated thermophilic crenarchaeotes from a subsurface gold mine as revealed by analysis of genome fragments
-
DOI 10.1111/j.1462-2920.2005.00881.x
-
Nunoura, T., Hirayama, H., Takami, H., Oida, H., Nishi, S., Shimamura, S., Suzuki, Y., Inagaki, F., Takai, K. and Nealson, K.H. (2005) Genetic and functional properties of uncultivated thermophilic crenarchaeotes from a subsurface gold mine as revealed by analysis of genome fragments. Environ. Microbiol., 7, 1967-1984. (Pubitemid 41752385)
-
(2005)
Environmental Microbiology
, vol.7
, Issue.12
, pp. 1967-1984
-
-
Nunoura, T.1
Hirayama, H.2
Takami, H.3
Oida, H.4
Nishi, S.5
Shimamura, S.6
Suzuki, Y.7
Inagaki, F.8
Takai, K.9
Nealson, K.H.10
Horikoshi, K.11
-
22
-
-
76649109225
-
Archaeal diversity and distribution along thermal and geochemical gradients in hydrothermal sediments at the Yonaguni Knoll IV hydrothermal field in the Southern Okinawa Trough
-
Nunoura, T., Oida, H., Nakaseama, M., Kosaka, A., Ohkubo, S., Kikuchi, T., Kazama, H., Tanabe, S.H., Nakamura, K., Kinoshita, M. et al. (2010) Archaeal diversity and distribution along thermal and geochemical gradients in hydrothermal sediments at the Yonaguni Knoll IV hydrothermal field in the Southern Okinawa Trough. Appl. Environ. Microbiol., 76, 1198-1211.
-
(2010)
Appl. Environ. Microbiol.
, vol.76
, pp. 1198-1211
-
-
Nunoura, T.1
Oida, H.2
Nakaseama, M.3
Kosaka, A.4
Ohkubo, S.5
Kikuchi, T.6
Kazama, H.7
Tanabe, S.H.8
Nakamura, K.9
Kinoshita, M.10
-
23
-
-
0001857117
-
16S-23S rRNA sequencing
-
In Stackebrandt, E. and Goodfellow M. (eds) John Wiley and Sons, New York
-
Lane, D.J. (1985) 16S-23S rRNA sequencing. In Stackebrandt, E. and Goodfellow, M. (eds), Nucleic Acid Techniques in Bacterial Systematics. John Wiley and Sons, New York, pp. 115-175.
-
(1985)
Nucleic Acid Techniques in Bacterial Systematics
, pp. 115-175
-
-
Lane, D.J.1
-
24
-
-
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
-
25
-
-
0029653518
-
Wholegenome random sequencing and assembly of Haemophilus influenzae Rd
-
Fleischmann, R.D., Adams, M.D., White, O., Clayton, RA., Kirkness, E.F., Kerlavage, A.R., Bult, C.J., Tomb, J.F., Dougherty, BA. and Merrick, J.M. (1995) Wholegenome random sequencing and assembly of Haemophilus influenzae Rd. Science, 269, 496-512.
-
(1995)
Science
, vol.269
, pp. 496-512
-
-
Fleischmann, R.D.1
Adams, M.D.2
White, O.3
Clayton, R.A.4
Kirkness, E.F.5
Kerlavage, A.R.6
Bult, C.J.7
Tomb, J.F.8
Dougherty, B.A.9
Merrick, J.M.10
-
26
-
-
0034327380
-
Complete genome of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilils
-
Takami, H., Nakasone, K., Takaki, Y., Maeno, G, Sasaki, R., Masui, N., Fuji, F., Hirama, C., Nakamura, Y., Ogasawara, N. et al. (2000) Complete genome of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilils. Nucleic Acids Res., 28, 4317-4331.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 4317-4331
-
-
Takami, H.1
Nakasone, K.2
Takaki, Y.3
Maeno, G.4
Sasaki, R.5
Masui, N.6
Fuji, F.7
Hirama, C.8
Nakamura, Y.9
Ogasawara, N.10
-
27
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
DOI 10.1093/nar/25.17.3389
-
Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402. (Pubitemid 27359211)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
28
-
-
0035162592
-
The COG database: New developments in phylogenetic classification of proteins from complete genomes
-
Tatusov, R.L., Natale, DA., Garkavtsev, I.V., Tatusova, TA., Shankavaram, U.T., Rao, B.S., Kiryutin, B., Galperin, MY., Fedorova, N.D. and Koonin, E.V. (2001) The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res., 29, 22-28. (Pubitemid 32054398)
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.1
, pp. 22-28
-
-
Tatusov, R.L.1
Natale, D.A.2
Garkavtsev, I.V.3
Tatusova, T.A.4
Shankavaram, U.T.5
Rao, B.S.6
Kiryutin, B.7
Galperin, M.Y.8
Fedorova, N.D.9
Koonin, E.V.10
-
29
-
-
38949147846
-
Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea
-
Makarova, K.S., Sorokin, A.V., Novichkov, P.S., Wolf, Y.I. and Koonin, E.V. (2007) Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea. Biol. Direct, 2, 33.
-
(2007)
Biol. Direct
, vol.2
, pp. 33
-
-
Makarova, K.S.1
Sorokin, A.V.2
Novichkov, P.S.3
Wolf, Y.I.4
Koonin, E.V.5
-
30
-
-
33644874819
-
From genomics to chemical genomics: New developments in KEGG
-
Kanehisa, M., Goto, S., Hattori, M., Aoki-Kinoshita, K.F., Itoh, M., Kawashima, S., Katayama, T., Araki, M. and Hirakawa, M. (2006) From genomics to chemical genomics: new developments in KEGG Nucleic Acids Res., 34, D354-D357.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Kanehisa, M.1
Goto, S.2
Hattori, M.3
Aoki-Kinoshita, K.F.4
Itoh, M.5
Kawashima, S.6
Katayama, T.7
Araki, M.8
Hirakawa, M.9
-
31
-
-
0030854739
-
tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
-
DOI 10.1093/nar/25.5.955
-
Lowe, T.M. and Eddy, S.R. (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res., 25, 955-964. (Pubitemid 27298263)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.5
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
32
-
-
34247357415
-
In silico screening of archaeal tRNA-encoding genes having multiple introns with bulge-helix-bulge splicing motifs
-
DOI 10.1261/rna.309507
-
Sugahara, J., Yachie, N., Arakawa, K. and Tomita, M. (2007) In silico screening of archaeal tRNA-encoding genes having multiple introns with bulge-helix-bulge splicing motifs. RNA, 13, 671-681. (Pubitemid 46641525)
-
(2007)
RNA
, vol.13
, Issue.5
, pp. 671-681
-
-
Sugahara, J.1
Yachie, N.2
Arakawa, K.3
Tomita, M.4
-
33
-
-
34547579396
-
CRISPRFinder: A web tool to identify clustered regularly interspaced short palindromic repeats
-
Grissa, I., Vergnaud, G and Pourcel, 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
Pourcel, C.3
-
34
-
-
2542523843
-
ARB: A software environment for sequence data
-
DOI 10.1093/nar/gkh293
-
Ludwig, W., Strunk, O., Westram, R., Richter, L., Meier, H., Yadhukumar, H., Buchner, A., Lai, T., Steppi, S., Jobb, G et al. (2004) ARB: a software environment for sequence data. Nucleic Acids Res., 32, 1363-1371. (Pubitemid 38854737)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.4
, pp. 1363-1371
-
-
Ludwig, W.1
Strunk, O.2
Westram, R.3
Richter, L.4
Meier, H.5
Yadhukumar, A.6
Buchner, A.7
Lai, T.8
Steppi, S.9
Jacob, G.10
Forster, W.11
Brettske, I.12
Gerber, S.13
Ginhart, A.W.14
Gross, O.15
Grumann, S.16
Hermann, S.17
Jost, R.18
Konig, A.19
Liss, T.20
Lussbmann, R.21
May, M.22
Nonhoff, B.23
Reichel, B.24
Strehlow, R.25
Stamatakis, A.26
Stuckmann, N.27
Vilbig, A.28
Lenke, M.29
Ludwig, T.30
Bode, A.31
Schleifer, K.-H.32
more..
-
35
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
DOI 10.1080/10635150390235520
-
Guindon, S. and Gascuel, O. (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol., 52, 696-704. (Pubitemid 37365050)
-
(2003)
Systematic Biology
, vol.52
, Issue.5
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
36
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson, J.D., Higgins, D.G and Gibson, T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680. (Pubitemid 24354800)
-
(1994)
Nucleic Acids Research
, vol.22
, Issue.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
37
-
-
0034043778
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
-
Castresana, J. (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol. Biol. Evol., 17, 540-552. (Pubitemid 30210700)
-
(2000)
Molecular Biology and Evolution
, vol.17
, Issue.4
, pp. 540-552
-
-
Castresana, J.1
-
38
-
-
34547489084
-
Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
-
DOI 10.1080/10635150701472164, PII 780704285
-
Talavera, G and 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
-
39
-
-
33750403801
-
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
DOI 10.1093/bioinformatics/btl446
-
Stamatakis, A. (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics, 22, 2688-2690. (Pubitemid 44642609)
-
(2006)
Bioinformatics
, vol.22
, Issue.21
, pp. 2688-2690
-
-
Stamatakis, A.1
-
40
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
DOI 10.1093/bioinformatics/btm404
-
Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R. et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics, 23, 2947-2948. (Pubitemid 350162903)
-
(2007)
Bioinformatics
, vol.23
, Issue.21
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
Mcgettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
Thompson, J.D.11
Gibson, T.J.12
Higgins, D.G.13
-
41
-
-
0034253588
-
Evolution and function of ubiquitin-like protein-conjugation systems
-
Hochstrasser, M. (2000) Evolution and function of ubiquitin-like protein-conjugation systems. Nat. Cell Biol., 2, E153-157.
-
(2000)
Nat. Cell Biol.
, vol.2
-
-
Hochstrasser, M.1
-
42
-
-
0035891318
-
Mechanism of ubiquitin activation revealed by the structure of a bacterial MoeB-MoaD complex
-
DOI 10.1038/35104586
-
Lake, M.W., Wuebbens, M.M., Rajagopalan, K.V. and Schindelin, H. (2001) Mechanism of ubiquitin activation revealed by the structure of a bacterial MoeB-MoaD complex. Nature, 414, 325-329. (Pubitemid 33097811)
-
(2001)
Nature
, vol.414
, Issue.6861
, pp. 325-329
-
-
Lake, M.W.1
Wuebbens, M.M.2
Rajagopalan, K.V.3
Schindelin, H.4
-
43
-
-
34447337222
-
The intrinsic affinity between E2 and the Cys domain of E1 in ubiquitin-like modifications
-
DOI 10.1016/j.molcel.2007.05.023, PII S1097276507003243
-
Wang, J., Hu, W., Cai, S., Lee, B., Song, J. and Chen, Y. (2007) The intrinsic affinity between E2 and the Cys domain of E1 in ubiquitin-like modifications. Mol. Cell, 27, 228-237. (Pubitemid 47058297)
-
(2007)
Molecular Cell
, vol.27
, Issue.2
, pp. 228-237
-
-
Wang, J.1
Hu, W.2
Cai, S.3
Lee, B.4
Song, J.5
Chen, Y.6
-
44
-
-
47549111312
-
Structural insights into E1-catalyzed ubiquitin activation and transfer to conjugating enzymes
-
DOI 10.1016/j.cell.2008.05.046, PII S0092867408007095
-
Lee, I. and Schindelin, H. (2008) Structural insights into E1-catalyzed ubiquitin activation and transfer to conjugating enzymes. Cell, 134, 268-278. (Pubitemid 352010331)
-
(2008)
Cell
, vol.134
, Issue.2
, pp. 268-278
-
-
Lee, I.1
Schindelin, H.2
-
45
-
-
33947380527
-
Insertion sequence diversity in Archaea
-
DOI 10.1128/MMBR.00031-06
-
Filee, J., Siguier, P. and Chandler, M. (2007) Insertion sequence diversity in archaea. Microbiol. Mol. Biol. Rev., 71, 121-157. (Pubitemid 46456686)
-
(2007)
Microbiology and Molecular Biology Reviews
, vol.71
, Issue.1
, pp. 121-157
-
-
Filee, J.1
Siguier, P.2
Chandler, M.3
-
46
-
-
39149142575
-
CRISPR - A widespread system that provides acquired resistance against phages in bacteria and archaea
-
DOI 10.1038/nrmicro1793, PII NRMICRO1793
-
Sorek, R., Kunin, V. and Hugenholtz, P. (2008) CRISPR-a widespread system that provides acquired resistance against phages in bacteria and archaea. Nat. Rev. Microbiol., 6, 181-186. (Pubitemid 351256313)
-
(2008)
Nature Reviews Microbiology
, vol.6
, Issue.3
, pp. 181-186
-
-
Sorek, R.1
Kunin, V.2
Hugenholtz, P.3
-
47
-
-
0032814005
-
Archaeal DNA replication: Identifying the pieces to solve a puzzle
-
Cann, I.K. and Ishino, Y. (1999) Archaeal DNA replication: identifying the pieces to solve a puzzle. Genetics, 152, 1249-1267. (Pubitemid 29370309)
-
(1999)
Genetics
, vol.152
, Issue.4
, pp. 1249-1267
-
-
Cann, I.K.O.1
Ishino, Y.2
-
48
-
-
51249094314
-
A highly conserved family of inactivated archaeal B family DNA polymerases
-
Rogozin, I.B., Makarova, K.S., Pavlov, Y.I. and Koonin, E.V. (2008) A highly conserved family of inactivated archaeal B family DNA polymerases. Biol. Direct, 3, 32.
-
(2008)
Biol. Direct
, vol.3
, pp. 32
-
-
Rogozin, I.B.1
Makarova, K.S.2
Pavlov, Y.I.3
Koonin, E.V.4
-
49
-
-
0036698611
-
Novel endonuclease in Archaea cleaving DNA with various branched structure
-
Komori, K., Fujikane, R., Shinagawa, H. and Ishino, Y. (2002) Novel endonuclease in Archaea cleaving DNA with various branched structure. Genes Genet. Syst., 77, 227-241.
-
(2002)
Genes Genet. Syst.
, vol.77
, pp. 227-241
-
-
Komori, K.1
Fujikane, R.2
Shinagawa, H.3
Ishino, Y.4
-
50
-
-
0037772376
-
An archaeal XPF repair endonuclease dependent on a heterotrimeric PCNA
-
DOI 10.1046/j.1365-2958.2003.03444.x
-
Roberts, JA., Bell, S.D. and White, M.F. (2003) An archaeal XPF repair endonuclease dependent on a heterotrimeric PCNA. Mol. Microbiol., 48, 361-371. (Pubitemid 36819074)
-
(2003)
Molecular Microbiology
, vol.48
, Issue.2
, pp. 361-371
-
-
Roberts, J.A.1
Bell, S.D.2
White, M.F.3
-
51
-
-
0036574857
-
A hot story from comparative genomics: Reverse gyrase is the only hyperthermophile-specific protein
-
Forterre, P. (2002) A hot story from comparative genomics: reverse gyrase is the only hyperthermophile-specific protein. Trends Genet., 18, 236-237.
-
(2002)
Trends Genet.
, vol.18
, pp. 236-237
-
-
Forterre, P.1
-
52
-
-
34250896106
-
Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers
-
Brochier-Armanet, C. and Forterre, P. (2007) Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers. Archaea, 2, 83-93. (Pubitemid 46972046)
-
(2007)
Archaea
, vol.2
, Issue.2
, pp. 83-93
-
-
Brochier-Armanet, C.1
Forterre, P.2
-
53
-
-
61449257456
-
Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola
-
Campbell, B.J., Smith, J.L., Hanson, T.E., Klotz, M.G., Stein, LY., Lee, C.K., Wu, D., Robinson, J.M., Khouri, H.M. and Eisen, JA. (2009) Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola. PLoS Genet., 5, e1000362.
-
(2009)
PLoS Genet.
, vol.5
-
-
Campbell, B.J.1
Smith, J.L.2
Hanson, T.E.3
Klotz, M.G.4
Stein, L.Y.5
Lee, C.K.6
Wu, D.7
Robinson, J.M.8
Khouri, H.M.9
Eisen, J.A.10
-
54
-
-
57749087001
-
A unique cell division machinery in the Archaea
-
Lindas, A.C., Karlsson, EA., Lindgren, M.T., Ettema, T.J. and Bernander, R. (2008) A unique cell division machinery in the Archaea. Proc Natl Acad. Sci. USA, 105, 18942-18946.
-
(2008)
Proc Natl Acad. Sci. USA
, vol.105
, pp. 18942-18946
-
-
Lindas, A.C.1
Karlsson, E.A.2
Lindgren, M.T.3
Ettema, T.J.4
Bernander, R.5
-
55
-
-
84890594559
-
DNA repair
-
In Garrett, RA. and Klenk, H.-P. (eds) Blackwell Publishing, Oxford
-
White, M.F. (2006) DNA repair. In Garrett, RA. and Klenk, H.-P. (eds), Archaea; Evolution, Physiology, and Molecular Biology. Blackwell Publishing, Oxford, pp. 171-184.
-
(2006)
Archaea; Evolution, Physiology, and Molecular Biology.
, pp. 171-184
-
-
White, M.F.1
-
56
-
-
79955621395
-
DNA repair and DNA damage tolerance in archaeal bacteria: Extreme environments and genome integrity
-
In Blum, P. (ed.) Academic Press, Norfolk
-
Nohmi, T., Yamada, M. and Gruz, P. (2008) DNA repair and DNA damage tolerance in archaeal bacteria: extreme environments and genome integrity. In Blum, P. (ed.), New models for prokaryotic biology, Casier Academic Press, Norfolk, pp. 147-169.
-
(2008)
New Models for Prokaryotic Biology, Casier
, pp. 147-169
-
-
Nohmi, T.1
Yamada, M.2
Gruz, P.3
-
57
-
-
56449099760
-
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order Thermoproteales
-
Sugahara, J., Kikuta, K., Fujishima, K., Yachie, N., Tomita, M. and Kanai, A. (2008) Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order Thermoproteales. Mol. Biol. Evol., 25, 2709-2716.
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 2709-2716
-
-
Sugahara, J.1
Kikuta, K.2
Fujishima, K.3
Yachie, N.4
Tomita, M.5
Kanai, A.6
-
58
-
-
72449205918
-
Disrupted tRNA gene diversity and possible evolutionary scenarios
-
Sugahara, J., Fujishima, K., Morita, K., Tomita, M. and Kanai, A. (2009) Disrupted tRNA gene diversity and possible evolutionary scenarios. J. Mol. Evol., 69, 497-504.
-
(2009)
J. Mol. Evol.
, vol.69
, pp. 497-504
-
-
Sugahara, J.1
Fujishima, K.2
Morita, K.3
Tomita, M.4
Kanai, A.5
-
59
-
-
72649093146
-
Selenoproteins in Archaea and Gram-positive bacteria
-
Stock, T. and Rother, M. (2009) Selenoproteins in Archaea and Gram-positive bacteria. Biochim. Biophys. Acta, 1790, 1520-1532.
-
(2009)
Biochim. Biophys. Acta
, vol.1790
, pp. 1520-1532
-
-
Stock, T.1
Rother, M.2
-
60
-
-
39049143397
-
Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "korarchaeota"
-
Koonin, E.V., Makarova, K.S. and Elkins, J.G (2007) Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "Korarchaeota". Biol. Direct., 2, 38.
-
(2007)
Biol. Direct.
, vol.2
, pp. 38
-
-
Koonin, E.V.1
Makarova, K.S.2
Elkins, J.G.3
-
61
-
-
70450240802
-
Identification of an ortholog of the eukaryotic RNA polymerase III subunit RPC34 in Crenarchaeota and Thaumarchaeota suggests specialization of RNA polymerases for coding and non-coding RNAs in Archaea
-
Blombach, F., Makarova, K.S., Marrero, J., Siebers, B., Koonin, E.V. and van der Oost, J. (2009) Identification of an ortholog of the eukaryotic RNA polymerase III subunit RPC34 in Crenarchaeota and Thaumarchaeota suggests specialization of RNA polymerases for coding and non-coding RNAs in Archaea. Biol. Direct, 4, 39.
-
(2009)
Biol. Direct
, vol.4
, pp. 39
-
-
Blombach, F.1
Makarova, K.S.2
Marrero, J.3
Siebers, B.4
Koonin, E.V.5
Van Der Oost, J.6
-
62
-
-
0037115872
-
Comparative analysis of ribosomal proteins in complete genomes: An example of reductive evolution at the domain scale
-
DOI 10.1093/nar/gkf693
-
Lecompte, O., Ripp, R., Thierry, J.-C., Moras, D. and Poch, O. (2002) Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale. Nucleic Acids Res., 30, 5382-5390. (Pubitemid 36113915)
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.24
, pp. 5382-5390
-
-
Lecompte, O.1
Ripp, R.2
Thierry, J.-C.3
Moras, D.4
Poch, O.5
-
63
-
-
0027166085
-
Two cysteines, two histidines, and one methionine are ligands of a binuclear purple copper center
-
Kelly, M., Lappalainen, P., Talbo, G., Haltia, T., Van der Oost, J. and Saraste, M. (1993) Two cysteines, two histidines, and one methionine are ligands of a binuclear purple copper center. J. Biol. Chem., 268, 16781-16787. (Pubitemid 23229994)
-
(1993)
Journal of Biological Chemistry
, vol.268
, Issue.22
, pp. 16781-16787
-
-
Kelly, M.1
Lappalainen, P.2
Talbo, G.3
Haltia, T.4
Van Der Oost, J.5
Saraste, M.6
-
64
-
-
33846109956
-
2 fixation via the reductive tricarboxylic acid cycle in different lineages within the phylum Aquificae: Evidence for two ways of citrate cleavage
-
DOI 10.1111/j.1462-2920.2006.01118.x
-
2 fixation via the reductive tricarboxylic acid cycle in different lineages within the phylum Aquificae: evidence for two ways of citrate cleavage. Environ. Microbiol., 9, 81-92. (Pubitemid 46059001)
-
(2007)
Environmental Microbiology
, vol.9
, Issue.1
, pp. 81-92
-
-
Hugler, M.1
Huber, H.2
Molyneaux, S.J.3
Vetriani, C.4
Sievert, S.M.5
-
65
-
-
37249052742
-
A 3-hydroxypropionate/4-hydroxybutyrate autotrophic carbon dioxide assimilation pathway in archaea
-
DOI 10.1126/science.1149976
-
Berg, I.A., Kockelkorn, D., Buckel, W. and Fuchs, G (2007) A 3-hydroxypropionate/4-hydroxybutyrate autotrophic carbon dioxide assimilation pathway in Archaea. Science, 318, 1782-1786. (Pubitemid 350274390)
-
(2007)
Science
, vol.318
, Issue.5857
, pp. 1782-1786
-
-
Berg, I.A.1
Kockelkorn, D.2
Buckel, W.3
Fuchs, G.4
-
66
-
-
45549103517
-
A dicarboxylate/4-hydroxybutyrate autotrophic carbon assimilation cycle in the hyperthermophilic Archaeum Ignicoccus hospitalis
-
DOI 10.1073/pnas.0801043105
-
Huber, H., Gallenberger, M., Jahn, U., Eylert, E., Berg, I.A., Kockelkorn, D., Eisenreich, W. and Fuchs, G (2008) A dicarboxylate/4- hydroxybutyrate autotrophic carbon assimilation cycle in the hyperthermophilic archaeum Ignicoccus hospitalis. Proc Natl Acad. Sci. USA, 105, 7851-7856. (Pubitemid 351872727)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.22
, pp. 7851-7856
-
-
Huber, H.1
Gallenberger, M.2
Jahn, U.3
Eylert, E.4
Berg, I.A.5
Kockelkorn, D.6
Eisenreich, W.7
Fuchs, G.8
-
67
-
-
70350459999
-
Malonic semialdehyde reductase, succinic semialdehyde reductase, and succinyl-coenzyme A reductase from Metallosphaera sedula: Enzymes of the autotrophic 3-hydroxypropionate/4-hydroxybutyrate cycle in Sulfolobales
-
Kockelkorn, D. and Fuchs, G (2009) Malonic semialdehyde reductase, succinic semialdehyde reductase, and succinyl-coenzyme A reductase from Metallosphaera sedula: enzymes of the autotrophic 3-hydroxypropionate/4- hydroxybutyrate cycle in Sulfolobales. J. Bacteriol., 191, 6352-6562.
-
(2009)
J. Bacteriol.
, vol.191
, pp. 6352-6562
-
-
Kockelkorn, D.1
Fuchs, G.2
-
68
-
-
67649413349
-
Autotrophic carbon dioxide assimilation in Thermoproteales revisited
-
Ramos-Vera, W.H., Berg, I.A. and Fuchs, G (2009) Autotrophic carbon dioxide assimilation in Thermoproteales revisited. J. Bacteriol., 191, 4286-4297.
-
(2009)
J. Bacteriol.
, vol.191
, pp. 4286-4297
-
-
Ramos-Vera, W.H.1
Berg, I.A.2
Fuchs, G.3
-
69
-
-
67650302869
-
3-hydroxypropionyl-coenzyme A dehydratase and acryloyl-coenzyme A reductase, enzymes of the autotrophic 3-hydroxypropionate/4-hydroxybutyrate cycle in the Sulfolobales
-
Teufel, R., Kung, J.W., Kockelkorn, D., Alber, B.E. and Fuchs, G (2009) 3-hydroxypropionyl-coenzyme A dehydratase and acryloyl-coenzyme A reductase, enzymes of the autotrophic 3-hydroxypropionate/4-hydroxybutyrate cycle in the Sulfolobales. J. Bacteriol., 191, 4572-4581.
-
(2009)
J. Bacteriol.
, vol.191
, pp. 4572-4581
-
-
Teufel, R.1
Kung, J.W.2
Kockelkorn, D.3
Alber, B.E.4
Fuchs, G.5
-
70
-
-
27144478660
-
Ribose-5-phosphate biosynthesis in Methanocaldococcus jannaschii occurs in the absence of a pentose-phosphate pathway
-
DOI 10.1128/JB.187.21.7382-7389.2005
-
Grochowski, L.L., Xu, H. and White, R.H. (2005) Ribose-5-phosphate biosynthesis in Methanocaldococcus jannaschii occurs in the absence of a pentose-phosphate pathway. J. Bacteriol., 187, 7382-7389. (Pubitemid 41507794)
-
(2005)
Journal of Bacteriology
, vol.187
, Issue.21
, pp. 7382-7389
-
-
Grochowski, L.L.1
Xu, H.2
White, R.H.3
-
71
-
-
33745444345
-
The ribulose monophosphate pathway substitutes for the missing pentose phosphate pathway in the archaeon Thermococcus kodakaraensis
-
DOI 10.1128/JB.00492-06
-
Orita, I., Sato, T., Yurimoto, H., Kato, N., Atomi, H., Imanaka, T. and Sakai, Y. (2006) The ribulose monophosphate pathway substitutes for the missing pentose phosphate pathway in the archaeon Thermococcus kodakaraensis. J. Bacteriol., 188, 4698-4704. (Pubitemid 43956068)
-
(2006)
Journal of Bacteriology
, vol.188
, Issue.13
, pp. 4698-4704
-
-
Orita, I.1
Sato, T.2
Yurimoto, H.3
Kato, N.4
Atomi, H.5
Imanaka, T.6
Sakai, Y.7
-
72
-
-
3042565616
-
Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis
-
DOI 10.1128/JB.186.13.4185-4191.2004
-
Rashid, N., Imanaka, H., Fukui, T., Atomi, H. and Imanaka, T. (2004) Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis. J. Bacteriol., 186, 4185-4191. (Pubitemid 38802566)
-
(2004)
Journal of Bacteriology
, vol.186
, Issue.13
, pp. 4185-4191
-
-
Rashid, N.1
Imanaka, H.2
Fukui, T.3
Atomi, H.4
Imanaka, T.5
-
73
-
-
0030986445
-
Ribose biosynthesis and evidence for an alternative first step in the common aromatic amino acid pathway in Methanococcus maripaludis
-
Tumbula, D.L., Teng, Q., Bartlett, M.G and Whitman, W.B. (1997) Ribose biosynthesis and evidence for an alternative first step in the common aromatic amino acid pathway in Methanococcus maripaludis. J. Bacteriol., 179, 6010-6013. (Pubitemid 27419022)
-
(1997)
Journal of Bacteriology
, vol.179
, Issue.19
, pp. 6010-6013
-
-
Tumbula, D.L.1
Teng, Q.2
Bartlett, M.G.3
Whitman, W.B.4
-
74
-
-
2942563977
-
L-aspartate semialdehyde and a 6-deoxy-5-ketohexose 1-phosphate are the precursors to the aromatic amino acids in Methanocaldococcus jannaschii
-
DOI 10.1021/bi0495127
-
White, R.H. (2004) L-Aspartate semialdehyde and a 6-deoxy-5-ketohexose 1-phosphate are the precursors to the aromatic amino acids in Methanocaldococcus jannaschii. Biochemistry, 43, 7618-7627. (Pubitemid 38745778)
-
(2004)
Biochemistry
, vol.43
, Issue.23
, pp. 7618-7627
-
-
White, R.H.1
-
75
-
-
57049092676
-
Extension of the COG and arCOG databases by amino acid and nucleotide sequences
-
Meereis, F. and Kaufmann, M. (2008) Extension of the COG and arCOG databases by amino acid and nucleotide sequences. BMC Bioinformatics, 9, 479.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 479
-
-
Meereis, F.1
Kaufmann, M.2
-
76
-
-
0034266806
-
RING finger proteins: Mediators of ubiquitin ligase activity
-
Joazeiro, CA. and Weissman, A.M. (2000) RING finger proteins: mediators of ubiquitin ligase activity. Cell, 102, 549-552.
-
(2000)
Cell
, vol.102
, pp. 549-552
-
-
Joazeiro, C.A.1
Weissman, A.M.2
-
77
-
-
0037131243
-
Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome
-
DOI 10.1126/science.1075898
-
Verma, R., Aravind, L., Oania, R., McDonald, W.H., Yates III, J.R., Koonin, E.V. and Deshaies, R.J. (2002) Role ofRpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome. Science, 298, 611-615. (Pubitemid 35215317)
-
(2002)
Science
, vol.298
, Issue.5593
, pp. 611-615
-
-
Verma, R.1
Aravind, L.2
Oania, R.3
McDonald, W.H.4
Yates III, J.R.5
Koonin, E.V.6
Deshaies, R.J.7
-
78
-
-
58849093135
-
Molecular mechanisms of proteasome assembly
-
Murata, S., Yashiroda, H. and Tanaka, K. (2009) Molecular mechanisms of proteasome assembly. Nat. Rev. Mol. Cell. Biol., 10, 104-115.
-
(2009)
Nat. Rev. Mol. Cell. Biol.
, vol.10
, pp. 104-115
-
-
Murata, S.1
Yashiroda, H.2
Tanaka, K.3
-
79
-
-
9644268864
-
Mechanism and function of deubiquitinating enzymes
-
DOI 10.1016/j.bbamcr.2004.10.003, PII S0167488904002538, The Ubiquitin-Proteasome System
-
Amerik, AY. and Hochstrasser, M. (2004) Mechanism and function of deubiquitinating enzymes. Biochim. Biophys. Acta, 1695, 189-207. (Pubitemid 39574973)
-
(2004)
Biochimica et Biophysica Acta - Molecular Cell Research
, vol.1695
, Issue.1-3
, pp. 189-207
-
-
Amerik, A.Y.1
Hochstrasser, M.2
-
80
-
-
0037456828
-
Insights into the ubiquitin transfer cascade from the structure of the activating enzyme for NEDD8
-
DOI 10.1038/nature01456
-
Walden, H., Podgorski, M.S. and Schulman, BA. (2003) Insights into the ubiquitin transfer cascade from the structure of the activating enzyme for NEDD8. Nature, 422, 330-334. (Pubitemid 36378362)
-
(2003)
Nature
, vol.422
, Issue.6929
, pp. 330-334
-
-
Walden, H.1
Podgorski, M.S.2
Schulman, B.A.3
-
81
-
-
14844291338
-
Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1
-
DOI 10.1038/sj.emboj.7600552
-
Lois, L.M. and Lima, C.D. (2005) Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1. EMBO J., 24, 439-451. (Pubitemid 40343247)
-
(2005)
EMBO Journal
, vol.24
, Issue.3
, pp. 439-451
-
-
Lois, L.M.1
Lima, C.D.2
-
82
-
-
0037131242
-
Role of predicted metalloprotease motif of Jab1/Csn5 in cleavage of Nedd8 from Cul1
-
DOI 10.1126/science.1075901
-
Cope, G.A., Suh, G.S., Aravind, L., Schwarz, S.E., Zipursky, S.L., Koonin, E.V. and Deshaies, R.J. (2002) Role of predicted metalloprotease motif of Jab1/Csn5 in cleavage of Nedd8 from Cul1. Science, 298, 608-611. (Pubitemid 35215316)
-
(2002)
Science
, vol.298
, Issue.5593
, pp. 608-611
-
-
Cope, G.A.1
Suh, G.S.B.2
Aravind, L.3
Schwarz, S.E.4
Zipursky, S.L.5
Koonin, E.V.6
Deshaies, R.J.7
-
83
-
-
34248350363
-
MPN, a putative catalytic motif found in a subset of MPN domain proteins from eukaryotes and prokaryotes, is critical for Rpn11 function
-
Maytal-Kivity, V., Reis, N., Hofmann, K. and Glickman, M.H. (2002) MPN, a putative catalytic motif found in a subset of MPN domain proteins from eukaryotes and prokaryotes, is critical for Rpn11 function. BMC Biochem., 3, 28-39.
-
(2002)
BMC Biochem.
, vol.3
, pp. 28-39
-
-
Maytal-Kivity, V.1
Reis, N.2
Hofmann, K.3
Glickman, M.H.4
-
84
-
-
19344364762
-
JAMM: A metalloprotease-like zinc site in the proteasome and signalosome
-
Ambroggio, X.I., Rees, D.C. and Deshaies, R.J. (2004) JAMM: a metalloprotease-like zinc site in the proteasome and signalosome. PLoS Biol., 2, E2.
-
(2004)
PLoS Biol.
, vol.2
-
-
Ambroggio, X.I.1
Rees, D.C.2
Deshaies, R.J.3
-
85
-
-
0033567272
-
Homing endonucleases: Structure, function and evolution
-
DOI 10.1007/s000180050372
-
Jurica, M.S. and Stoddard, B.L. (1999) Homing endonucleases: structure, function and evolution. Cell. Mol. Life Sci., 55, 1304-1326. (Pubitemid 29410748)
-
(1999)
Cellular and Molecular Life Sciences
, vol.55
, Issue.10
, pp. 1304-1326
-
-
Jurica, M.S.1
Stoddard, B.L.2
-
86
-
-
18644375172
-
Bacterial community shift along a subsurface geothermal water stream in a Japanese gold mine
-
DOI 10.1007/s00792-005-0433-8
-
Hirayama, H., Takai, K., Inagaki, F., Yamato, Y., Suzuki, M., Nealson, K.H. and Horikoshi, K. (2005) Bacterial community shift along a subsurface geothermal water stream in a Japanese gold mine. Extremophiles, 9, 169-184. (Pubitemid 40660357)
-
(2005)
Extremophiles
, vol.9
, Issue.2
, pp. 169-184
-
-
Hirayama, H.1
Takai, K.2
Inagaki, F.3
Yamato, Y.4
Suzuki, M.5
Nealson, K.H.6
Horikoshi, K.7
-
87
-
-
0033768088
-
Towards the ecology of hyperthermophiles: Biotopes, new isolation strategies and novel metabolic properties
-
Huber, R., Huber, H. and Stetter, K.O. (2000) Towards the ecology of hyperthermophiles: biotopes, new isolation strategies and novel metabolic properties. FEMS Microbiol. Rev., 24, 615-623.
-
(2000)
FEMS Microbiol. Rev.
, vol.24
, pp. 615-623
-
-
Huber, R.1
Huber, H.2
Stetter, K.O.3
-
88
-
-
0028343555
-
Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment
-
Barns, S.M., Fundyga, R.E., Jeffries, M.W. and Pace, N.R. (1994) Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. Proc Natl Acad. Sci. USA, 91, 1609-1613. (Pubitemid 24080254)
-
(1994)
Proceedings of the National Academy of Sciences of the United States of America
, vol.91
, Issue.5
, pp. 1609-1613
-
-
Barns, S.M.1
Fundyga, R.E.2
Jeffries, M.W.3
Pace, N.R.4
-
89
-
-
3042814762
-
Reverse gyrase is not a prerequisite for hyperthermophilic life
-
DOI 10.1128/JB.186.14.4829-4833.2004
-
Atomi, H., Matsumi, R. and Imanaka, T. (2004) Reverse gyrase is not a prerequisite for hyperthermophilic life. J. Bacteriol., 186, 4829-4833. (Pubitemid 38891047)
-
(2004)
Journal of Bacteriology
, vol.186
, Issue.14
, pp. 4829-4833
-
-
Atomi, H.1
Matsumi, R.2
Imanaka, T.3
-
90
-
-
0034212268
-
Chromosome replication, nucleoid segregation and cell division in Archaea
-
DOI 10.1016/S0966-842X(00)01760-1, PII S0966842X00017601
-
Bernander, R. (2000) Chromosome replication, nucleoid segregation and cell division in archaea. Trends Microbiol., 8, 278-283. (Pubitemid 30331002)
-
(2000)
Trends in Microbiology
, vol.8
, Issue.6
, pp. 278-283
-
-
Bernander, R.1
-
91
-
-
41149093627
-
Uncultured archaea in deep marine subsurface sediments: Have we caught them all?
-
DOI 10.1038/ismej.2007.90, PII ISMEJ200790
-
Teske A. and Sørensen, K.B. (2008) Uncultured archaea in deep marine subsurface sediments: have we caught them all? ISME J., 2, 3-18. (Pubitemid 351612350)
-
(2008)
ISME Journal
, vol.2
, Issue.1
, pp. 3-18
-
-
Teske, A.1
Sorensen, K.B.2
-
92
-
-
58249106878
-
A DNA topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya
-
Brochier-Armanet, C., Gribaldo, S. and Forterre, P. (2008) A DNA topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya. Biol. Direct., 3, 5.
-
(2008)
Biol. Direct.
, vol.3
, pp. 5
-
-
Brochier-Armanet, C.1
Gribaldo, S.2
Forterre, P.3
-
93
-
-
77957130448
-
Evolution of diverse cell division and vesicle formation systems in Archaea
-
Makarova, K.S., Yutin, N., Bell, S.D. and Koonin, E.V. (2010) Evolution of diverse cell division and vesicle formation systems in Archaea. Nat. Rev. Microbiol., 8, 731-741.
-
(2010)
Nat. Rev. Microbiol.
, vol.8
, pp. 731-741
-
-
Makarova, K.S.1
Yutin, N.2
Bell, S.D.3
Koonin, E.V.4
-
94
-
-
77954362415
-
The complete genome sequence of Haloferax volcanii DS2, a model archaeon
-
Hartman A.L., Norais, C., Badger, J.H., Delmas, S., Haldenby, S., Madupu, R., Robinson, J., Khouri, H., Ren, Q., Lowe, T.M. et al. (2010) The complete genome sequence of Haloferax volcanii DS2, a model archaeon. PLoS One, 5, e9605.
-
(2010)
PLoS One
, vol.5
-
-
Hartman, A.L.1
Norais, C.2
Badger, J.H.3
Delmas, S.4
Haldenby, S.5
Madupu, R.6
Robinson, J.7
Khouri, H.8
Ren, Q.9
Lowe, T.M.10
|