-
1
-
-
33845796004
-
Natural expansion of the genetic code
-
Ambrogelly, A., Palioura, S. and Söll, D. (2007) Natural expansion of the genetic code. Nat. Chem. Biol., 3, 29-35.
-
(2007)
Nat. Chem. Biol
, vol.3
, pp. 29-35
-
-
Ambrogelly, A.1
Palioura, S.2
Söll, D.3
-
2
-
-
1642513699
-
Driving change: The evolution of alternative genetic codes
-
Santos, M.A., Moura, G., Massey, S.E. and Tuite, M.F. (2004) Driving change: The evolution of alternative genetic codes. Trends Genet, 20, 95-102.
-
(2004)
Trends Genet
, vol.20
, pp. 95-102
-
-
Santos, M.A.1
Moura, G.2
Massey, S.E.3
Tuite, M.F.4
-
3
-
-
71549136142
-
Development of the genetic code: Insights from a fungal codon reassignment
-
Moura, G.R., Paredes, J.A. and Santos, M.A. (2010) Development of the genetic code: Insights from a fungal codon reassignment. FEBS Lett., 584, 334-341.
-
(2010)
FEBS Lett
, vol.584
, pp. 334-341
-
-
Moura, G.R.1
Paredes, J.A.2
Santos, M.A.3
-
4
-
-
84867587188
-
TRNA modification and genetic code variations in animal mitochondria
-
Watanabe, K. and Yokobori, S. (2011) tRNA modification and genetic code variations in animal mitochondria. J. Nucleic Acids, 2011, 623095.
-
(2011)
J. Nucleic Acids
, vol.2011
, pp. 623095
-
-
Watanabe, K.1
Yokobori, S.2
-
5
-
-
84875828875
-
UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota
-
Campbell, J.H., O'Donoghue, P., Campbell, A.G., Schwientek, P., Sczyrba, A., Woyke, T., Söll, D. and Podar, M. (2013) UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota. Proc. Natl Acad. Sci. USA, 110, 5540-5545.
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 5540-5545
-
-
Campbell, J.H.1
O'Donoghue, P.2
Campbell, A.G.3
Schwientek, P.4
Sczyrba, A.5
Woyke, T.6
Söll, D.7
Podar, M.8
-
6
-
-
68949161807
-
Programming cells by multiplex genome engineering and accelerated evolution
-
Wang, H.H., Isaacs, F.J., Carr, P.A., Sun, Z.Z., Xu, G., Forest, C.R. and Church, G.M. (2009) Programming cells by multiplex genome engineering and accelerated evolution. Nature, 460, 894-898.
-
(2009)
Nature
, vol.460
, pp. 894-898
-
-
Wang, H.H.1
Isaacs, F.J.2
Carr, P.A.3
Sun, Z.Z.4
Xu, G.5
Forest, C.R.6
Church, G.M.7
-
7
-
-
79960502359
-
Precise manipulation of chromosomes in vivo enables genome-wide codon replacement
-
Isaacs, F.J., Carr, P.A., Wang, H.H., Lajoie, M.J., Sterling, B., Kraal, L., Tolonen, A.C., Gianoulis, T.A., Goodman, D.B., Reppas, N.B. et al. (2011) Precise manipulation of chromosomes in vivo enables genome-wide codon replacement. Science, 333, 348-353.
-
(2011)
Science
, vol.333
, pp. 348-353
-
-
Isaacs, F.J.1
Carr, P.A.2
Wang, H.H.3
Lajoie, M.J.4
Sterling, B.5
Kraal, L.6
Tolonen, A.C.7
Gianoulis, T.A.8
Goodman, D.B.9
Reppas, N.B.10
-
8
-
-
77953584054
-
Creation of a bacterial cell controlled by a chemically synthesized genome
-
Gibson, D.G., Glass, J.I., Lartigue, C., Noskov, V.N., Chuang, R.Y., Algire, M.A., Benders, G.A., Montague, M.G., Ma, L., Moodie, M.M. et al. (2010) Creation of a bacterial cell controlled by a chemically synthesized genome. Science, 329, 52-56.
-
(2010)
Science
, vol.329
, pp. 52-56
-
-
Gibson, D.G.1
Glass, J.I.2
Lartigue, C.3
Noskov, V.N.4
Chuang, R.Y.5
Algire, M.A.6
Benders, G.A.7
Montague, M.G.8
Ma, L.9
Moodie, M.M.10
-
9
-
-
0024583607
-
Codon reassignment (codon capture) in evolution
-
Osawa, S. and Jukes, T.H. (1989) Codon reassignment (codon capture) in evolution. J. Mol. Evol., 28, 271-278.
-
(1989)
J. Mol. Evol
, vol.28
, pp. 271-278
-
-
Osawa, S.1
Jukes, T.H.2
-
10
-
-
0028332057
-
Transfer RNA mutation and the malleability of the genetic code
-
Schultz, D.W. and Yarus, M. (1994) Transfer RNA mutation and the malleability of the genetic code. J. Mol. Biol., 235, 1377-1380.
-
(1994)
J. Mol. Biol
, vol.235
, pp. 1377-1380
-
-
Schultz, D.W.1
Yarus, M.2
-
11
-
-
34250704167
-
The mechanisms of codon reassignments in mitochondrial genetic codes
-
Sengupta, S., Yang, X. and Higgs, P.G. (2007) The mechanisms of codon reassignments in mitochondrial genetic codes. J. Mol. Evol., 64, 662-688.
-
(2007)
J. Mol. Evol
, vol.64
, pp. 662-688
-
-
Sengupta, S.1
Yang, X.2
Higgs, P.G.3
-
12
-
-
84930156331
-
-
In: Bullerwell, C.E (ed Springer, Berlin, Heidelberg
-
Lang, B.F., Lavrov, D., Beck, N. and Steinberg, V. (2012) In: Bullerwell, C.E. (ed.), Organelle Genetics. Springer, Berlin, Heidelberg, pp. 431-474.
-
(2012)
Organelle Genetics
, pp. 431-474
-
-
Lang, B.F.1
Lavrov, D.2
Beck, N.3
Steinberg, V.4
-
13
-
-
0342758596
-
DNA sequence analysis of the complete mitochondrial genome of the green alga Scenedesmus obliquus: Evidence for UAG being a leucine and UCA being a non-sense codon
-
Kück, U., Jekosch, K. and Holzamer, P. (2000) DNA sequence analysis of the complete mitochondrial genome of the green alga Scenedesmus obliquus: Evidence for UAG being a leucine and UCA being a non-sense codon. Gene, 253, 13-18.
-
(2000)
Gene
, vol.253
, pp. 13-18
-
-
Kück, U.1
Jekosch, K.2
Holzamer, P.3
-
14
-
-
0033917525
-
The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome
-
Nedelcu, A.M., Lee, R.W., Lemieux, C., Gray, M.W. and Burger, G. (2000) The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome. Genome Res., 10, 819-831.
-
(2000)
Genome Res
, vol.10
, pp. 819-831
-
-
Nedelcu, A.M.1
Lee, R.W.2
Lemieux, C.3
Gray, M.W.4
Burger, G.5
-
15
-
-
77649185561
-
A deviant genetic code in the reduced mitochondrial genome of the picoplanktonic green alga Pycnococcus provasolii
-
Turmel, M., Otis, C. and Lemieux, C. (2010) A deviant genetic code in the reduced mitochondrial genome of the picoplanktonic green alga Pycnococcus provasolii. J. Mol. Evol., 70, 203-214.
-
(2010)
J. Mol. Evol
, vol.70
, pp. 203-214
-
-
Turmel, M.1
Otis, C.2
Lemieux, C.3
-
16
-
-
0031051572
-
The 'polysemous' codon-A codon with multiple amino acid assignment caused by dual specificity of tRNA identity
-
Suzuki, T., Ueda, T. and Watanabe, K. (1997) The 'polysemous' codon-A codon with multiple amino acid assignment caused by dual specificity of tRNA identity. EMBO J., 16, 1122-1134.
-
(1997)
EMBO J.
, vol.16
, pp. 1122-1134
-
-
Suzuki, T.1
Ueda, T.2
Watanabe, K.3
-
17
-
-
0242417617
-
Comparative evolutionary genomics unveils the molecular mechanism of reassignment of the CTG codon in Candida spp
-
Massey, S.E., Moura, G., Beltrao, P., Almeida, R., Garey, J.R., Tuite, M.F. and Santos, M.A. (2003) Comparative evolutionary genomics unveils the molecular mechanism of reassignment of the CTG codon in Candida spp. Genome Res., 13, 544-557.
-
(2003)
Genome Res
, vol.13
, pp. 544-557
-
-
Massey, S.E.1
Moura, G.2
Beltrao, P.3
Almeida, R.4
Garey, J.R.5
Tuite, M.F.6
Santos, M.A.7
-
18
-
-
0040456003
-
Novel features in the genetic code and codon reading patterns in Neurospora crassa mitochondria based on sequences of six mitochondrial tRNAs
-
Heckman, J., Sarnoff, J., Alzner-DeWeerd, B., Yin, S. and RajBhandary, U. (1980) Novel features in the genetic code and codon reading patterns in Neurospora crassa mitochondria based on sequences of six mitochondrial tRNAs. Proc. Natl Acad. Sci. USA, 77, 3159-3163.
-
(1980)
Proc. Natl Acad. Sci. USA
, vol.77
, pp. 3159-3163
-
-
Heckman, J.1
Sarnoff, J.2
Alzner-DeWeerd, B.3
Yin, S.4
RajBhandary, U.5
-
19
-
-
38849159102
-
Superwobbling facilitates translation with reduced tRNA sets
-
Rogalski, M., Karcher, D. and Bock, R. (2008) Superwobbling facilitates translation with reduced tRNA sets. Nat. Struct. Mol. Biol., 15, 192-198.
-
(2008)
Nat. Struct. Mol. Biol
, vol.15
, pp. 192-198
-
-
Rogalski, M.1
Karcher, D.2
Bock, R.3
-
20
-
-
0036792830
-
Trnomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domain-specific features
-
Marck, C. and Grosjean, H. (2002) tRNomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domain-specific features. RNA, 8, 1189-1232.
-
(2002)
RNA
, vol.8
, pp. 1189-1232
-
-
Marck, C.1
Grosjean, H.2
-
21
-
-
79959458664
-
An unusual tRNAThr derived from tRNAHis reassigns in yeast mitochondria the CUN codons to threonine
-
Su, D., Lieberman, A., Lang, B.F., Simonovic, M., Söll, D. and Ling, J. (2011) An unusual tRNAThr derived from tRNAHis reassigns in yeast mitochondria the CUN codons to threonine. Nucleic Acids Res., 39, 4866-4874.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 4866-4874
-
-
Su, D.1
Lieberman, A.2
Lang, B.F.3
Simonovic, M.4
Söll, D.5
Ling, J.6
-
22
-
-
0018686283
-
Assembly of the mitochondrial membrane system: Sequences of yeast mitochondrial valine and an unusual threonine tRNA gene
-
Li, M. and Tzagoloff, A. (1979) Assembly of the mitochondrial membrane system: Sequences of yeast mitochondrial valine and an unusual threonine tRNA gene. Cell, 18, 47-53.
-
(1979)
Cell
, vol.18
, pp. 47-53
-
-
Li, M.1
Tzagoloff, A.2
-
23
-
-
0019890297
-
Nucleotide sequence of a yeast mitochondrial threonine-TRNA able to decode the CUN leucine codons
-
Sibler, A.P., Dirheimer, G. and Martin, R.P. (1981) Nucleotide sequence of a yeast mitochondrial threonine-TRNA able to decode the CUN leucine codons. FEBS Lett., 132, 344-348.
-
(1981)
FEBS Lett
, vol.132
, pp. 344-348
-
-
Sibler, A.P.1
Dirheimer, G.2
Martin, R.P.3
-
24
-
-
0023953676
-
Biochemical and physical characterization of an unmodified yeast phenylalanine transfer RNA transcribed in vitro
-
Sampson, J.R. and Uhlenbeck, O.C. (1988) Biochemical and physical characterization of an unmodified yeast phenylalanine transfer RNA transcribed in vitro. Proc. Natl Acad. Sci. USA, 85, 1033-1037.
-
(1988)
Proc. Natl Acad. Sci. USA
, vol.85
, pp. 1033-1037
-
-
Sampson, J.R.1
Uhlenbeck, O.C.2
-
25
-
-
10644277147
-
Post-Transfer editing in vitro and in vivo by the beta subunit of phenylalanyl-TRNA synthetase
-
Roy, H., Ling, J., Irnov, M. and Ibba, M. (2004) Post-Transfer editing in vitro and in vivo by the beta subunit of phenylalanyl-TRNA synthetase. EMBO J., 23, 4639-4648.
-
(2004)
EMBO J.
, vol.23
, pp. 4639-4648
-
-
Roy, H.1
Ling, J.2
Irnov, M.3
Ibba, M.4
-
26
-
-
34347263073
-
Purification of mitochondrial and plastid DNA
-
Lang, B.F. and Burger, G. (2007) Purification of mitochondrial and plastid DNA. Nat. Protoc., 2, 652-660.
-
(2007)
Nat. Protoc
, vol.2
, pp. 652-660
-
-
Lang, B.F.1
Burger, G.2
-
27
-
-
84857878816
-
Yeast mitochondrial RNase P, RNase Z and the RNA degradosome are part of a stable supercomplex
-
Daoud, R., Forget, L. and Lang, B.F. (2011) Yeast mitochondrial RNase P, RNase Z and the RNA degradosome are part of a stable supercomplex. Nucleic Acids Res., 40, 1728-1736.
-
(2011)
Nucleic Acids Res
, vol.40
, pp. 1728-1736
-
-
Daoud, R.1
Forget, L.2
Lang, B.F.3
-
28
-
-
69949092911
-
LC-MS/MS as an alternative for SDS-PAGE in blue native analysis of protein complexes
-
Wessels, H.J., Vogel, R.O., van den Heuvel, L., Smeitink, J.A., Rodenburg, R.J., Nijtmans, L.G. and Farhoud, M.H. (2009) LC-MS/MS as an alternative for SDS-PAGE in blue native analysis of protein complexes. Proteomics, 9, 4221-4228.
-
(2009)
Proteomics
, vol.9
, pp. 4221-4228
-
-
Wessels, H.J.1
Vogel, R.O.2
Van Den Heuvel, L.3
Smeitink, J.A.4
Rodenburg, R.J.5
Nijtmans, L.G.6
Farhoud, M.H.7
-
29
-
-
25144494757
-
LC-nanospray-MS/MS analysis of hydrophobic proteins from membrane protein complexes isolated by blue-native electrophoresis
-
Fandino, A.S., Rais, I., Vollmer, M., Elgass, H., Schagger, H. and Karas, M. (2005) LC-nanospray-MS/MS analysis of hydrophobic proteins from membrane protein complexes isolated by blue-native electrophoresis. J. Mass. Spectrom., 40, 1223-1231.
-
(2005)
J. Mass. Spectrom
, vol.40
, pp. 1223-1231
-
-
Fandino, A.S.1
Rais, I.2
Vollmer, M.3
Elgass, H.4
Schagger, H.5
Karas, M.6
-
30
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
Perkins, D.N., Pappin, D.J., Creasy, D.M. and Cottrell, J.S. (1999) Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis, 20, 3551-3567.
-
(1999)
Electrophoresis
, vol.20
, pp. 3551-3567
-
-
Perkins, D.N.1
Pappin, D.J.2
Creasy, D.M.3
Cottrell, J.S.4
-
31
-
-
13244255415
-
MUSCLE: A multiple sequence alignment method with reduced time and space complexity
-
Edgar, R.C. (2004) MUSCLE: A multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics, 5, 113.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 113
-
-
Edgar, R.C.1
-
32
-
-
65549111754
-
Infernal 1.0: Inference of RNA alignments
-
Nawrocki, E.P., Kolbe, D.L. and Eddy, S.R. (2009) Infernal 1.0: Inference of RNA alignments. Bioinformatics, 25, 1335-1337.
-
(2009)
Bioinformatics
, vol.25
, pp. 1335-1337
-
-
Nawrocki, E.P.1
Kolbe, D.L.2
Eddy, S.R.3
-
33
-
-
84891782009
-
-
26 June 2013, date last accessed)
-
Eddy, S. (2013) Infernal website. http://infernal.janelia.org. (26 June 2013, date last accessed).
-
(2013)
Infernal Website
-
-
Eddy, S.1
-
34
-
-
0028598812
-
The genetic data environment an expandable GUI for multiple sequence analysis
-
Smith, S.W., Overbeek, R., Woese, C.R., Gilbert, W. and Gillevet, P.M. (1994) The genetic data environment an expandable GUI for multiple sequence analysis. Comput. Appl. Biosci., 10, 671-675.
-
(1994)
Comput. Appl. Biosci
, vol.10
, pp. 671-675
-
-
Smith, S.W.1
Overbeek, R.2
Woese, C.R.3
Gilbert, W.4
Gillevet, P.M.5
-
35
-
-
2442691520
-
A Bayesian mixture model for across-site heterogeneities in the amino-Acid replacement process
-
Lartillot, N. and Philippe, H. (2004) A Bayesian mixture model for across-site heterogeneities in the amino-Acid replacement process. Mol. Biol. Evol., 21, 1095-1109.
-
(2004)
Mol. Biol. Evol
, vol.21
, pp. 1095-1109
-
-
Lartillot, N.1
Philippe, H.2
-
36
-
-
0030922796
-
The mechanism of U insertion/deletion RNA editing in kinetoplastid mitochondria
-
Alfonzo, J.D., Thiemann, O. and Simpson, L. (1997) The mechanism of U insertion/deletion RNA editing in kinetoplastid mitochondria. Nucleic Acids Res., 25, 3751-3759.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3751-3759
-
-
Alfonzo, J.D.1
Thiemann, O.2
Simpson, L.3
-
37
-
-
84857697493
-
Yeast mitochondrial threonyl-TRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment
-
Ling, J., Peterson, K.M., Simonovic, I., Cho, C., Söll, D. and Simonovic, M. (2012) Yeast mitochondrial threonyl-TRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment. Proc. Natl Acad. Sci. USA, 109, 3281-3286.
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, pp. 3281-3286
-
-
Ling, J.1
Peterson, K.M.2
Simonovic, I.3
Cho, C.4
Söll, D.5
Simonovic, M.6
-
38
-
-
0025850420
-
Specificity for aminoacylation of an RNA helix: An unpaired, exocyclic amino group in the minor groove
-
Musier-Forsyth, K., Usman, N., Scaringe, S., Doudna, J., Green, R. and Schimmel, P. (1991) Specificity for aminoacylation of an RNA helix: An unpaired, exocyclic amino group in the minor groove. Science, 253, 784-786.
-
(1991)
Science
, vol.253
, pp. 784-786
-
-
Musier-Forsyth, K.1
Usman, N.2
Scaringe, S.3
Doudna, J.4
Green, R.5
Schimmel, P.6
-
39
-
-
3643114575
-
Universal rules and idiosyncratic features in tRNA identity
-
Giegé, R., Sissler, M. and Florentz, C. (1998) Universal rules and idiosyncratic features in tRNA identity. Nucleic Acids Res., 26, 5017-5035.
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 5017-5035
-
-
Giegé, R.1
Sissler, M.2
Florentz, C.3
-
41
-
-
33645126396
-
Evolution of the genetic code in yeasts
-
Miranda, I., Silva, R. and Santos, M.A. (2006) Evolution of the genetic code in yeasts. Yeast, 23, 203-213.
-
(2006)
Yeast
, vol.23
, pp. 203-213
-
-
Miranda, I.1
Silva, R.2
Santos, M.A.3
-
42
-
-
0024284965
-
A simple structural feature is a major determinant of the identity of a transfer RNA
-
Hou, Y.M. and Schimmel, P. (1988) A simple structural feature is a major determinant of the identity of a transfer RNA. Nature, 333, 140-145.
-
(1988)
Nature
, vol.333
, pp. 140-145
-
-
Hou, Y.M.1
Schimmel, P.2
-
43
-
-
77949695293
-
Scaffold: A bioinformatic tool for validating MS/MS-based proteomic studies
-
Searle, B.C. (2010) Scaffold: A bioinformatic tool for validating MS/MS-based proteomic studies. Proteomics, 10, 1265-1269.
-
(2010)
Proteomics
, vol.10
, pp. 1265-1269
-
-
Searle, B.C.1
|