-
1
-
-
0037005991
-
Introns in protein-coding genes in Archaea
-
DOI 10.1016/S0014-5793(01)03219-7, PII S0014579301032197
-
Introns in protein-coding genes in Archaea. Y Watanabe S Yokobori T Inaba A Yamagishi T Oshima Y Kawarabayasi H Kikuchi K Kita, FEBS Lett 2002 510 27 30 10.1016/S0014-5793(01)03219-7 11755525 (Pubitemid 34084878)
-
(2002)
FEBS Letters
, vol.510
, Issue.1-2
, pp. 27-30
-
-
Watanabe, Y.-I.1
Yokobori, S.-I.2
Inaba, T.3
Yamagishi, A.4
Oshima, T.5
Kawarabayasi, Y.6
Kikuchi, H.7
Kita, K.8
-
2
-
-
33745206275
-
Archaeal pre-mRNA splicing: A connection to hetero-oligomeric splicing endonuclease
-
DOI 10.1016/j.bbrc.2006.06.011, PII S0006291X06013003
-
Archaeal pre-mRNA splicing: a connection to hetero-oligomeric splicing endonuclease. S Yoshinari T Itoh SJ Hallam EF DeLong S Yokobori A Yamagishi T Oshima K Kita Y Watanabe, Biochem Biophys Res Commun 2006 346 1024 1032 10.1016/j.bbrc.2006.06.011 16781672 (Pubitemid 43913710)
-
(2006)
Biochemical and Biophysical Research Communications
, vol.346
, Issue.3
, pp. 1024-1032
-
-
Yoshinari, S.1
Itoh, T.2
Hallam, S.J.3
DeLong, E.F.4
Yokobori, S.-i.5
Yamagishi, A.6
Oshima, T.7
Kita, K.8
Watanabe, Y.-i.9
-
3
-
-
23044503353
-
Functional reconstitution of a crenarchaeal splicing endonuclease in vitro
-
DOI 10.1016/j.bbrc.2005.07.023, PII S0006291X05014877
-
Functional reconstitution of a crenarchaeal splicing endonuclease in vitro. S Yoshinari S Fujita R Masui S Kuramitsu S Yokobori K Kita Y Watanabe, Biochem Biophys Res Commun 2005 334 1254 1259 10.1016/j.bbrc.2005.07.023 16039609 (Pubitemid 41074709)
-
(2005)
Biochemical and Biophysical Research Communications
, vol.334
, Issue.4
, pp. 1254-1259
-
-
Yoshinari, S.1
Fujita, S.2
Masui, R.3
Kuramitsu, S.4
Yokobori, S.-I.5
Kita, K.6
Watanabe, Y.-I.7
-
4
-
-
0021910176
-
Trpgene of an archaebacterium, Halobacterium volcanii
-
3844407
-
Trpgene of an archaebacterium, Halobacterium volcanii. CJ Daniels R Gupta WF Doolittle, J Biol Chem 1985 260 3132 3134 3844407
-
(1985)
J Biol Chem
, vol.260
, pp. 3132-3134
-
-
Daniels, C.J.1
Gupta, R.2
Doolittle, W.F.3
-
5
-
-
0022407822
-
An intron in the 23S ribosomal RNA gene of the archaebacterium Desulfurococcus mobilis
-
DOI 10.1038/318675a0
-
An intron in the 23S ribosomal RNA gene of the archaebacterium Desulfurococcus mobilis. J Kjems RA Garrett, Nature 1985 318 675 677 10.1038/318675a0 (Pubitemid 16172420)
-
(1985)
Nature
, vol.318
, Issue.6047
, pp. 675-677
-
-
Kjems, J.1
Garrett, R.A.2
-
6
-
-
0037167172
-
Heterogeneous yet similar introns reside in identical positions of the rRNA genes in natural isolates of the archaeon Aeropyrum pernix
-
DOI 10.1016/S0378-1119(02)00802-8, PII S0378111902008028
-
Heterogeneous yet similar introns reside in identical positions of the rRNA genes in natural isolates of the archaeon Aeropyrum pernix. N Nomura Y Morinaga T Kogishi EJ Kim Y Sako A Uchida, Gene 2002 295 43 50 10.1016/S0378-1119(02)00802-8 12242010 (Pubitemid 35283815)
-
(2002)
Gene
, vol.295
, Issue.1
, pp. 43-50
-
-
Nomura, N.1
Morinaga, Y.2
Kogishi, T.3
Kim, E.-J.4
Sako, Y.5
Uchida, A.6
-
7
-
-
65549129274
-
The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota
-
10.1186/1471-2164-10-145 19341479
-
The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota. IJ Anderson L Dharmarajan J Rodriguez S Hooper I Porat LE Ulrich JG Elkins K Mavromatis H Sun M Land A Lapidus S Lucas K Barry H Huber IB Zhulin WB Whitman B Mukhopadhyay C Woese J Bristow N Kyrpides, BMC Genomics 2009 10 145 10.1186/1471-2164-10-145 19341479
-
(2009)
BMC Genomics
, vol.10
, pp. 145
-
-
Anderson, I.J.1
Dharmarajan, L.2
Rodriguez, J.3
Hooper, S.4
Porat, I.5
Ulrich, L.E.6
Elkins, J.G.7
Mavromatis, K.8
Sun, H.9
Land, M.10
Lapidus, A.11
Lucas, S.12
Barry, K.13
Huber, H.14
Zhulin, I.B.15
Whitman, W.B.16
Mukhopadhyay, B.17
Woese, C.18
Bristow, J.19
Kyrpides, N.20
more..
-
8
-
-
33947100861
-
The genome of Hyperthermus butylicus: A sulfur-reducing, peptide fermenting, neutrophilic Crenarchaeote growing up to 108 degrees C
-
10.1155/2007/745987 17350933
-
The genome of Hyperthermus butylicus: a sulfur-reducing, peptide fermenting, neutrophilic Crenarchaeote growing up to 108 degrees C. K Brügger L Chen M Stark A Zibat P Redder A Ruepp M Awayez Q She RA Garrett HP Klenk, Archaea 2007 2 127 135 10.1155/2007/745987 17350933
-
(2007)
Archaea
, vol.2
, pp. 127-135
-
-
Brügger, K.1
Chen, L.2
Stark, M.3
Zibat, A.4
Redder, P.5
Ruepp, A.6
Awayez, M.7
She, Q.8
Garrett, R.A.9
Klenk, H.P.10
-
9
-
-
41949089913
-
Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction
-
10.1128/JB.01949-07 18263724
-
Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction. I Anderson J Rodriguez D Susanti I Porat C Reich LE Ulrich JG Elkins K Mavromatis A Lykidis E Kim LS Thompson M Nolan M Land A Copeland A Lapidus S Lucas C Detter IB Zhulin GJ Olsen W Whitman B Mukhopadhyay J Bristow N Kyrpides, J Bacteriol 2008 190 2957 2965 10.1128/JB.01949-07 18263724
-
(2008)
J Bacteriol
, vol.190
, pp. 2957-2965
-
-
Anderson, I.1
Rodriguez, J.2
Susanti, D.3
Porat, I.4
Reich, C.5
Ulrich, L.E.6
Elkins, J.G.7
Mavromatis, K.8
Lykidis, A.9
Kim, E.10
Thompson, L.S.11
Nolan, M.12
Land, M.13
Copeland, A.14
Lapidus, A.15
Lucas, S.16
Detter, C.17
Zhulin, I.B.18
Olsen, G.J.19
Whitman, W.20
Mukhopadhyay, B.21
Bristow, J.22
Kyrpides, N.23
more..
-
10
-
-
0033591465
-
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
-
DOI 10.1006/jmbi.1999.2700
-
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. DH Mathews J Sabina M Zuker DH Turner, J Mol Biol 1999 288 911 940 10.1006/jmbi.1999.2700 10329189 (Pubitemid 29248642)
-
(1999)
Journal of Molecular Biology
, vol.288
, Issue.5
, pp. 911-940
-
-
Mathews, D.H.1
Sabina, J.2
Zuker, M.3
Turner, D.H.4
-
11
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
DOI 10.1093/nar/gkg595
-
Mfold web server for nucleic acid folding and hybridization prediction. M Zuker, Nucleic Acids Res 2003 31 3406 3415 10.1093/nar/gkg595 12824337 (Pubitemid 37442169)
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.13
, pp. 3406-3415
-
-
Zuker, M.1
-
12
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
10.1093/nar/22.22.4673 7984417
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. JD Thompson DG Higgins TJ Gibson, Nucleic Acids Res 1994 22 4673 4680 10.1093/nar/22.22.4673 7984417
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
13
-
-
0034043778
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
-
10742046
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. J Castresana, Mol Biol Evol 2000 17 540 552 10742046
-
(2000)
Mol Biol Evol
, vol.17
, pp. 540-552
-
-
Castresana, J.1
-
14
-
-
13444259388
-
TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics
-
DOI 10.1186/1471-2148-4-18
-
TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. G Jobb A von Haeseler K Strimmer, BMC Evol Biol 2004 4 18 10.1186/1471-2148-4-18 15222900 (Pubitemid 40205271)
-
(2004)
BMC Evolutionary Biology
, vol.4
, pp. 18
-
-
Jobb, G.1
Von Haeseler, A.2
Strimmer, K.3
-
15
-
-
0035031966
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
-
11319253
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. S Whelan N Goldman, Mol Biol Evol 2001 18 691 699 11319253
-
(2001)
Mol Biol Evol
, vol.18
, pp. 691-699
-
-
Whelan, S.1
Goldman, N.2
-
16
-
-
0028064845
-
Maximum-likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
-
10.1007/BF00160154 7932792
-
Maximum-likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods. Z Yang, J Mol Evol 1994 39 306 314 10.1007/BF00160154 7932792
-
(1994)
J Mol Evol
, vol.39
, pp. 306-314
-
-
Yang, Z.1
-
17
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
DOI 10.1093/bioinformatics/btg180
-
MrBayes 3: Bayesian phylogenetic inference under mixed models. F Ronquist JP Huelsenbeck, Bioinformatics 2003 19 1572 1574 10.1093/bioinformatics/btg180 12912839 (Pubitemid 37038874)
-
(2003)
Bioinformatics
, vol.19
, Issue.12
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
18
-
-
0036623258
-
An approximately unbiased test of phylogenetic tree selection
-
DOI 10.1080/10635150290069913
-
An approximately unbiased test of phylogenetic tree selection. H Shimodaira, Syst Biol 2002 51 492 508 10.1080/10635150290069913 12079646 (Pubitemid 35180700)
-
(2002)
Systematic Biology
, vol.51
, Issue.3
, pp. 492-508
-
-
Shimodaira, H.1
-
19
-
-
0000461280
-
Confidence limits on phylogenies: An approach using the bootstrap
-
10.2307/2408678
-
Confidence limits on phylogenies: An approach using the bootstrap. J Felsenstein, Evolution 1985 39 783 791 10.2307/2408678
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
20
-
-
0024307824
-
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea
-
10.1007/BF02100115 2509717
-
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. H Kishino M Hasegawa, J Mol Evol 1989 29 170 179 10.1007/BF02100115 2509717
-
(1989)
J Mol Evol
, vol.29
, pp. 170-179
-
-
Kishino, H.1
Hasegawa, M.2
-
21
-
-
0036139287
-
CONSEL: For assessing the confidence of phylogenetic tree selection
-
10.1093/bioinformatics/17.12.1246 11751242
-
CONSEL: for assessing the confidence of phylogenetic tree selection. H Shimodaira M Hasegawa, Bioinformatics 2001 17 1246 1247 10.1093/bioinformatics/ 17.12.1246 11751242
-
(2001)
Bioinformatics
, vol.17
, pp. 1246-1247
-
-
Shimodaira, H.1
Hasegawa, M.2
-
22
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
9367129
-
PAML: a program package for phylogenetic analysis by maximum likelihood. Z Yang, Comput Appl Biosci 1997 13 555 556 9367129
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
23
-
-
0036205377
-
TREE-PUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing
-
10.1093/bioinformatics/18.3.502 11934758
-
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. HA Schmidt K Strimmer M Vingron A von Haeseler, Bioinformatics 2002 18 502 504 10.1093/bioinformatics/18.3.502 11934758
-
(2002)
Bioinformatics
, vol.18
, pp. 502-504
-
-
Schmidt, H.A.1
Strimmer, K.2
Vingron, M.3
Von Haeseler, A.4
-
24
-
-
0031574072
-
The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
DOI 10.1093/nar/25.24.4876
-
The CLUSTAL-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins, Nucleic Acids Res 1997 25 4876 4882 10.1093/nar/25.24.4876 9396791 (Pubitemid 28022245)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.24
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
25
-
-
0031773680
-
Modeltest: Testing the model of DNA sustitution
-
10.1093/bioinformatics/14.9.817
-
Modeltest: testing the model of DNA sustitution. D Posada KA Crandall, Bioinfomatics 1998 14 817 818 10.1093/bioinformatics/14.9.817
-
(1998)
Bioinfomatics
, vol.14
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
26
-
-
34250848060
-
PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods)
-
Sinauer Associates, Sunderland, Massachusetts
-
PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). DL Swofford, Version 4 Sinauer Associates, Sunderland, Massachusetts 2003
-
(2003)
Version 4
-
-
Swofford, D.L.1
-
27
-
-
48449091838
-
R-Coffee: A web server for accurately aligning noncoding RNA sequences
-
10.1093/nar/gkn278 18483080
-
R-Coffee: a web server for accurately aligning noncoding RNA sequences. S Moretti A Wilm DG Higgins I Xenarios C Notredame, Nucleic Acids Res 2008 36 W10 3 10.1093/nar/gkn278 18483080
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 10-3
-
-
Moretti, S.1
Wilm, A.2
Higgins, D.G.3
Xenarios, I.4
Notredame, C.5
-
28
-
-
0344874260
-
Identification of BHB splicing motifs in intron-containing tRNAs from 18 archaea: Evolutionary implications
-
DOI 10.1261/rna.5132503
-
Identification of BHB splicing motifs in intron-containing tRNAs from 18 archaea: evolutionary implications. C Marck H Grosjean, RNA 2003 9 1516 1531 10.1261/rna.5132503 14624007 (Pubitemid 37463477)
-
(2003)
RNA
, vol.9
, Issue.12
, pp. 1516-1531
-
-
Marck, C.1
Grosjean, H.2
-
29
-
-
69049083528
-
Functional importance of Crenarchaea-specific extra-loop revealed by an X-ray structure of a heterotetrameric crenarchaeal splicing endonuclease
-
10.1093/nar/gkp506 19515941
-
Functional importance of Crenarchaea-specific extra-loop revealed by an X-ray structure of a heterotetrameric crenarchaeal splicing endonuclease. S Yoshinari T Shiba DK Inaoka T Itoh G Kurisu S Harada K Kita Y Watanabe, Nucleic Acids Res 2009 37 4787 4798 10.1093/nar/gkp506 19515941
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 4787-4798
-
-
Yoshinari, S.1
Shiba, T.2
Inaoka, D.K.3
Itoh, T.4
Kurisu, G.5
Harada, S.6
Kita, K.7
Watanabe, Y.8
-
30
-
-
45849112155
-
A korarchaeal genome reveals insights into the evolution of the Archaea
-
DOI 10.1073/pnas.0801980105
-
A korarchaeal genome reveals insights into the evolution of the Archaea. JG Elkins M Podar DE Graham KS Makarova Y Wolf L Randau BP Hedlund C Brochier-Armanet V Kunin I Anderson A Lapidus E Goltsman K Barry EV Koonin P Hugenholtz N Kyrpides G Wanner P Richardson M Keller KO Stetter, Proc Natl Acad Sci USA 2008 105 8102 8107 10.1073/pnas.0801980105 18535141 (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..
-
31
-
-
57049130376
-
A genomic analysis of the archaeal system Ignicoccus hospitalis? Nanoarchaeum equitans
-
10.1186/gb-2008-9-11-r158 19000309
-
A genomic analysis of the archaeal system Ignicoccus hospitalis ? Nanoarchaeum equitans. M Podar I Anderson KS Makarova JG Elkins N Ivanova MA Wall A Lykidis K Mavromatis H Sun ME Hudson W Chen C Deciu D Hutchison JR Eads A Anderson F Fernandes E Szeto A Lapidus NC Kyrpides MH Saier Jr PM Richardson R Rachel H Huber JA Eisen EV Koonin M Keller KO Stetter, Genome Biol 2008 9 R158 10.1186/gb-2008-9-11-r158 19000309
-
(2008)
Genome Biol
, vol.9
, pp. 158
-
-
Podar, M.1
Anderson, I.2
Makarova, K.S.3
Elkins, J.G.4
Ivanova, N.5
Wall, M.A.6
Lykidis, A.7
Mavromatis, K.8
Sun, H.9
Hudson, M.E.10
Chen, W.11
Deciu, C.12
Hutchison, D.13
Eads, J.R.14
Anderson, A.15
Fernandes, F.16
Szeto, E.17
Lapidus, A.18
Kyrpides, N.C.19
Saier Jr., M.H.20
Richardson, P.M.21
Rachel, R.22
Huber, H.23
Eisen, J.A.24
Koonin, E.V.25
Keller, M.26
Stetter, K.O.27
more..
-
32
-
-
27144449031
-
Structural characterization of the catalytic subunit of a novel RNA splicing endonuclease
-
DOI 10.1016/j.jmb.2005.09.035, PII S0022283605011010
-
Structural characterization of the catalytic subunit of a novel RNA splicing endonuclease. K Calvin MD Hall F Xu S Xue H Li, J Mol Biol 2005 353 952 960 10.1016/j.jmb.2005.09.035 16219321 (Pubitemid 41503264)
-
(2005)
Journal of Molecular Biology
, vol.353
, Issue.5
, pp. 952-960
-
-
Calvin, K.1
Hall, M.D.2
Xu, F.3
Xue, S.4
Li, H.5
-
34
-
-
29144466626
-
The heteromeric Nanoarchaeum equitans splicing endonuclease cleaves noncanonical bulge-helix-bulge motifs of joined tRNA halves
-
DOI 10.1073/pnas.0509197102
-
The heteromeric Nanoarchaeum equitans splicing endonuclease cleaves noncanonical bulge-helix-bulge motifs of joined tRNA halves. L Randau K Calvin M Hall J Yuan M Podar H Li D Söll, Proc Natl Acad Sci USA 2005 102 17934 17939 10.1073/pnas.0509197102 16330750 (Pubitemid 41798480)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.50
, pp. 17934-17939
-
-
Randau, L.1
Calvin, K.2
Hall, M.3
Yuan, J.4
Podar, M.5
Li, H.6
Soll, D.7
-
35
-
-
21144453167
-
Structure, function, and evolution of the tRNA endonucleases of Archaea: An example of subfunctionalization
-
DOI 10.1073/pnas.0502350102
-
Structure, function, and evolution of the tRNA endonucleases of Archaea: an example of subfunctionalization. GD Tocchini-Valentini P Fruscoloni GP Tocchini-Valentini, Proc Natl Acad Sci USA 2005 102 8933 8938 10.1073/pnas.0502350102 15937113 (Pubitemid 40881056)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.25
, pp. 8933-8938
-
-
Tocchini-Valentini, G.D.1
Fruscoloni, P.2
Tocchini-Valentini, G.P.3
-
36
-
-
56449099760
-
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales
-
10.1093/molbev/msn216 18832079
-
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales. J Sugahara K Kikuta K Fujishima N Yachie M Tomita A Kanai, Mol Biol Evol 2008 25 2709 2716 10.1093/molbev/msn216 18832079
-
(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
-
37
-
-
0026033114
-
Ribosomal RNA introns in archaea and evidence for RNA conformational changes associated with splicing
-
10.1073/pnas.88.2.439 1899138
-
Ribosomal RNA introns in archaea and evidence for RNA conformational changes associated with splicing. J Kjems RA Garrett, Proc Natl Acad Sci USA 1991 88 439 443 10.1073/pnas.88.2.439 1899138
-
(1991)
Proc Natl Acad Sci USA
, vol.88
, pp. 439-443
-
-
Kjems, J.1
Garrett, R.A.2
-
38
-
-
1542754631
-
Distribution of 16S rRNA introns among the family Thermoproteaceae and their evolutionary implications
-
12768454
-
Distribution of 16S rRNA introns among the family Thermoproteaceae and their evolutionary implications. T Itoh N Nomura Y Sako, Extremophiles 2003 7 229 233 12768454
-
(2003)
Extremophiles
, vol.7
, pp. 229-233
-
-
Itoh, T.1
Nomura, N.2
Sako, Y.3
-
39
-
-
6344269355
-
Multiple variants of the archael DNA rudivirus SIRV1 in a single host and a novel mechanism of genomic variation
-
DOI 10.1111/j.1365-2958.2004.04287.x
-
Multiple variants of the archaeal DNA rudivirus SIRV1 in a single host and a novel mechanism of genomic variation. X Peng A Kessler H Phan RA Garrett D Prangishvili, Mol Microbiol 2004 54 366 375 10.1111/j.1365-2958.2004.04287.x 15469509 (Pubitemid 39388281)
-
(2004)
Molecular Microbiology
, vol.54
, Issue.2
, pp. 366-375
-
-
Peng, X.1
Kessler, A.2
Phan, H.3
Garrett, R.A.4
Prangishvili, D.5
-
40
-
-
20144374350
-
Reconstitution of archaeal H/ACA small ribonucleoprotein complexes active in pseudouridylation
-
DOI 10.1093/nar/gki630
-
Reconstitution of archaeal H/ACA small ribonucleoprotein complexes active in pseudouridylation. B Charpentier S Muller C Branlant, Nucleic Acids Res 2005 33 3133 3144 10.1093/nar/gki630 15933208 (Pubitemid 41194457)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.10
, pp. 3133-3144
-
-
Charpentier, B.1
Muller, S.2
Branlant, C.3
-
41
-
-
33646904207
-
Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans
-
DOI 10.1128/EC.5.5.789-793.2006
-
Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans. JE Stajich FS Dietrich, Eukaryot Cell 2006 5 789 793 10.1128/EC.5.5.789-793.2006 16682456 (Pubitemid 43794478)
-
(2006)
Eukaryotic Cell
, vol.5
, Issue.5
, pp. 789-793
-
-
Stajich, J.E.1
Dietrich, F.S.2
-
42
-
-
34248374277
-
A putative RNA-interference-based immune system in prokaryotes: Computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action
-
DOI 10.1186/1745-6150-1-7
-
A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action. KS Makarova NV Grishin SA Shabalina YI Wolf EV Koonin, Biol Direct 2006 1 7 10.1186/1745-6150-1-7 16545108 (Pubitemid 46730991)
-
(2006)
Biology Direct
, vol.1
, pp. 7
-
-
Makarova, K.S.1
Grishin, N.V.2
Shabalina, S.A.3
Wolf, Y.I.4
Koonin, E.V.5
-
43
-
-
18844397555
-
RNA-guided RNA modification: Functional organization of the archaeal H/ACA RNP
-
DOI 10.1101/gad.1309605
-
RNA-guided RNA modification: functional organization of the archaeal H/ACA RNP. DL Baker OA Youssef MI Chastkofsky DA Dy RM Terns MP Terns, Genes Dev 2005 19 1238 1248 10.1101/gad.1309605 15870259 (Pubitemid 40696189)
-
(2005)
Genes and Development
, vol.19
, Issue.10
, pp. 1238-1248
-
-
Baker, D.L.1
Youssef, O.A.2
Chastkofsky, M.I.R.3
Dy, D.A.4
Terns, R.M.5
Terns, M.P.6
-
44
-
-
33749137520
-
Formation of the conserved pseudouridine at position 55 in archaeal tRNA
-
DOI 10.1093/nar/gkl530
-
Formation of the conserved pseudouridine at position 55 in archaeal tRNA. M Roovers C Hale C Tricot MP Terns RM Terns H Grosjean L Droogmans, Nucleic Acids Res 2006 34 4293 4301 10.1093/nar/gkl530 16920741 (Pubitemid 44542208)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.15
, pp. 4293-4301
-
-
Roovers, M.1
Hale, C.2
Tricot, C.3
Terns, M.P.4
Terns, R.M.5
Grosjean, H.6
Droogmans, L.7
-
46
-
-
0036855267
-
Physiological analysis of the role of truB in Escherichia coli: A role for tRNA modification in extreme temperature resistance
-
12427942
-
Physiological analysis of the role of truB in Escherichia coli: a role for tRNA modification in extreme temperature resistance. SM Kinghorn CP O'Byrne IR Booth I Stansfield, Microbiology 2002 148 3511 3520 12427942
-
(2002)
Microbiology
, vol.148
, pp. 3511-3520
-
-
Kinghorn, S.M.1
O'Byrne, C.P.2
Booth, I.R.3
Stansfield, I.4
-
47
-
-
0034659940
-
Evolutionary appearance of genes encoding proteins associated with box H/ACA snoRNAs: Cbf5p in Euglena gracilis, an early diverging eukaryote, and candidate Gar1p and Nop10p homologs in archaebacteria
-
10.1093/nar/28.12.2342 10871366
-
Evolutionary appearance of genes encoding proteins associated with box H/ACA snoRNAs: cbf5p in Euglena gracilis, an early diverging eukaryote, and candidate Gar1p and Nop10p homologs in archaebacteria. Y Watanabe MW Gray, Nucleic Acids Res 2000 28 2342 2352 10.1093/nar/28.12.2342 10871366
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 2342-2352
-
-
Watanabe, Y.1
Gray, M.W.2
-
48
-
-
21844477811
-
The genome of Sulfolobus acidocaldarius, a model organism of the Crenarchaeota
-
DOI 10.1128/JB.187.14.4992-4999.2005
-
The genome of Sulfolobus acidocaldarius, a model organism of the Crenarchaeota. L Chen K Brügger M Skovgaard P Redder Q She E Torarinsson B Greve M Awayez A Zibat HP Klenk RA Garrett, J Bacteriol 2005 187 4992 4999 10.1128/JB.187.14.4992-4999.2005 15995215 (Pubitemid 40962217)
-
(2005)
Journal of Bacteriology
, vol.187
, Issue.14
, pp. 4992-4999
-
-
Chen, L.1
Brugger, K.2
Skovgaard, M.3
Redder, P.4
She, Q.5
Torarinsson, E.6
Greve, B.7
Awayez, M.8
Zibat, A.9
Klenk, H.-P.10
Garrett, R.A.11
-
49
-
-
34250868314
-
Gene decay in archaea
-
10.1155/2007/165723 17350934
-
Gene decay in archaea. MW van Passel CS Smillie H Ochman, Archaea 2007 2 137 143 10.1155/2007/165723 17350934
-
(2007)
Archaea
, vol.2
, pp. 137-143
-
-
Van Passel, M.W.1
Smillie, C.S.2
Ochman, H.3
-
51
-
-
33845244847
-
SPLITS: A new program for predicting split and intron-containing tRNA genes at the genome level
-
17274770
-
SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level. J Sugahara N Yachie Y Sekine A Soma M Matsui M Tomita A Kanai, In Silico Biol 2006 6 411 418 17274770
-
(2006)
In Silico Biol
, vol.6
, pp. 411-418
-
-
Sugahara, J.1
Yachie, N.2
Sekine, Y.3
Soma, A.4
Matsui, M.5
Tomita, M.6
Kanai, A.7
-
52
-
-
0033616977
-
Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1
-
145-152 10.1093/dnares/6.2.83 10382966
-
Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1. Y Kawarabayasi Y Hino H Horikawa S Yamazaki Y Haikawa K Jin-no M Takahashi M Sekine S Baba A Ankai H Kosugi A Hosoyama S Fukui Y Nagai K Nishijima H Nakazawa M Takamiya S Masuda T Funahashi T Tanaka Y Kudoh J Yamazaki N Kushida A Oguchi K Aoki K Kubota Y Nakamura N Nomura Y Sako H Kikuchi, DNA Res 1999 6 83 101 145-152 10.1093/dnares/6.2.83 10382966
-
(1999)
DNA Res
, vol.6
, pp. 83-101
-
-
Kawarabayasi, Y.1
Hino, Y.2
Horikawa, H.3
Yamazaki, S.4
Haikawa, Y.5
Jin-No, K.6
Takahashi, M.7
Sekine, M.8
Baba, S.9
Ankai, A.10
Kosugi, H.11
Hosoyama, A.12
Fukui, S.13
Nagai, Y.14
Nishijima, K.15
Nakazawa, H.16
Takamiya, M.17
Masuda, S.18
Funahashi, T.19
Tanaka, T.20
Kudoh, Y.21
Yamazaki, J.22
Kushida, N.23
Oguchi, A.24
Aoki, K.25
Kubota, K.26
Nakamura, Y.27
Nomura, N.28
Sako, Y.29
Kikuchi, H.30
more..
-
53
-
-
0034945083
-
The complete genome of the crenarchaeon Sulfolobus solfataricus P2
-
DOI 10.1073/pnas.141222098
-
The complete genome of the crenarchaeon Sulfolobus solfataricus P2. Q She RK Singh F Confalonieri Y Zivanovic G Allard MJ Awayez CC Chan-Weiher IG Clausen BA Curtis A De Moors G Erauso C Fletcher PM Gordon I Heikamp-de Jong AC Jeffries CJ Kozera N Medina X Peng HP Thi-Ngoc P Redder ME Schenk C Theriault N Tolstrup RL Charlebois WF Doolittle M Duguet T Gaasterland RA Garrett MA Ragan CW Sensen J Van der Oost, Proc Natl Acad Sci USA 2001 98 7835 7840 10.1073/pnas.141222098 11427726 (Pubitemid 32642647)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.14
, pp. 7835-7840
-
-
She, Q.1
Singh, R.K.2
Confalonieri, F.3
Zivanovic, Y.4
Allard, G.5
Awayez, M.J.6
Chan-Weiher, C.C.-Y.7
Clausen, I.G.8
Curtis, B.A.9
De Moors, A.10
Erauso, G.11
Fletcher, C.12
Gordon, P.M.K.13
Heikamp-de Jong, I.14
Jeffries, A.C.15
Kozera, C.J.16
Medina, N.17
Peng, X.18
Thi-Ngoc, H.P.19
Redder, P.20
Schenk, M.E.21
Theriault, C.22
Tolstrup, N.23
Charlebois, R.L.24
Doolittle, W.F.25
Duguet, M.26
Gaasterland, T.27
Garrett, R.A.28
Ragan, M.A.29
Sensen, C.W.30
Van Der Oostg, J.31
more..
-
54
-
-
0035980098
-
Complete genome sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7
-
10.1093/dnares/8.4.123 11572479
-
Complete genome sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7. Y Kawarabayasi Y Hino H Horikawa K Jin-no M Takahashi M Sekine S Baba A Ankai H Kosugi A Hosoyama S Fukui Y Nagai K Nishijima R Otsuka H Nakazawa M Takamiya Y Kato T Yoshizawa T Tanaka Y Kudoh J Yamazaki N Kushida A Oguchi K Aoki S Masuda M Yanagii M Nishimura A Yamagishi T Oshima H Kikuchi, DNA Res 2001 8 123 140 10.1093/dnares/8.4.123 11572479
-
(2001)
DNA Res
, vol.8
, pp. 123-140
-
-
Kawarabayasi, Y.1
Hino, Y.2
Horikawa, H.3
Jin-No, K.4
Takahashi, M.5
Sekine, M.6
Baba, S.7
Ankai, A.8
Kosugi, H.9
Hosoyama, A.10
Fukui, S.11
Nagai, Y.12
Nishijima, K.13
Otsuka, R.14
Nakazawa, H.15
Takamiya, M.16
Kato, Y.17
Yoshizawa, T.18
Tanaka, T.19
Kudoh, Y.20
Yamazaki, J.21
Kushida, N.22
Oguchi, A.23
Aoki, K.24
Masuda, S.25
Yanagii, M.26
Nishimura, M.27
Yamagishi, A.28
Oshima, T.29
Kikuchi, H.30
more..
-
55
-
-
0037154277
-
Genome sequence of the hyperthermophilic crenarchaeon Pyrobaculum aerophilum
-
DOI 10.1073/pnas.241636498
-
Genome sequence of the hyperthermophilic crenarchaeon Pyrobaculum aerophilum. ST Fitz-Gibbon H Ladner UJ Kim KO Stetter MI Simon JH Miller, Proc Natl Acad Sci USA 2002 99 984 989 10.1073/pnas.241636498 11792869 (Pubitemid 34106622)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.2
, pp. 984-989
-
-
Fitz-Gibbon, S.T.1
Ladner, H.2
Kim, U.-J.3
Stetter, K.O.4
Simon, M.I.5
Miller, J.H.6
-
56
-
-
33845286513
-
Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum
-
DOI 10.1073/pnas.0608549103
-
Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum. SJ Hallam KT Konstantinidis N Putnam C Schleper Y Watanabe J Sugahara C Preston J de la Torre PM Richardson EF DeLong, Proc Natl Acad Sci USA 2006 103 18296 18301 10.1073/pnas.0608549103 17114289 (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
-
57
-
-
84878707528
-
-
Boxshade server. http://www.ch.embnet.org/software/BOX-form.html
-
Boxshade Server
-
-
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