-
2
-
-
0025189769
-
A model for RNA editing in kinetoplastids mitochondria: "Guide RNA molecules transcribed from maxicircle DNA provide the edited information
-
Blum B, Bakalara N, Simpson L (1990) A model for RNA editing in kinetoplastids mitochondria: "Guide RNA molecules transcribed from maxicircle DNA provide the edited information. Cell 60: 189-198.
-
(1990)
Cell
, vol.60
, pp. 189-198
-
-
Blum, B.1
Bakalara, N.2
Simpson, L.3
-
3
-
-
33750517762
-
Alternative editing of cytochrome oxidase III mRNA in trypanosome mitochondria generates protein diversity
-
Ochsenreiter T, Hajduk S (2006) Alternative editing of cytochrome oxidase III mRNA in trypanosome mitochondria generates protein diversity. EMBO Reports 7: 1128-1133.
-
(2006)
EMBO Reports
, vol.7
, pp. 1128-1133
-
-
Ochsenreiter, T.1
Hajduk, S.2
-
4
-
-
45349088635
-
Alternative mRNA editing in trypanosomes is extensive and may contribute to mitochondrial protein diversity
-
Ochsenreiter T, Cipriano M, Hajduk S (2008) Alternative mRNA editing in trypanosomes is extensive and may contribute to mitochondrial protein diversity. PLoS ONE 3: e1566.
-
(2008)
PLoS ONE
, vol.3
-
-
Ochsenreiter, T.1
Cipriano, M.2
Hajduk, S.3
-
5
-
-
0023647931
-
Developmentally regulated addition of nucleotides within apocytochrome b transcripts in Trypanosoma brucei
-
Feagin JE, Jasmer DP, Stuart K (1987) Developmentally regulated addition of nucleotides within apocytochrome b transcripts in Trypanosoma brucei. Cell 49: 337-345.
-
(1987)
Cell
, vol.49
, pp. 337-345
-
-
Feagin, J.E.1
Jasmer, D.P.2
Stuart, K.3
-
6
-
-
0023968427
-
Developmental aspects of uridine addition within mitochondrial transcripts of Trypanosoma brucei
-
Feagin JE, Stuart K (1988) Developmental aspects of uridine addition within mitochondrial transcripts of Trypanosoma brucei. Mol Cell Biol 8: 1259-1265.
-
(1988)
Mol Cell Biol
, vol.8
, pp. 1259-1265
-
-
Feagin, J.E.1
Stuart, K.2
-
7
-
-
0034791244
-
Unique aspects of mitochondrial biogenesis in trypanosomatids
-
Schneider A (2001) Unique aspects of mitochondrial biogenesis in trypanosomatids. Internatl J Parasitol 31: 1403-1415.
-
(2001)
Internatl J Parasitol
, vol.31
, pp. 1403-1415
-
-
Schneider, A.1
-
8
-
-
0026764513
-
Guide RNAs for transcripts with developmentally regulated RNA editing are present in both life cycle stages of Trypanosoma brucei
-
Koslowsky D, Riley GR, Feagin JE, Stuart K (1992) Guide RNAs for transcripts with developmentally regulated RNA editing are present in both life cycle stages of Trypanosoma brucei. Mol Cell Biol 12: 2043-2049.
-
(1992)
Mol Cell Biol
, vol.12
, pp. 2043-2049
-
-
Koslowsky, D.1
Riley, G.R.2
Feagin, J.E.3
Stuart, K.4
-
9
-
-
37549054714
-
RNA editing in Trypanosoma brucei requires three different editosomes
-
Carnes J, Trotter JR, Peltan A, Fleck M, Stuart K (2008) RNA editing in Trypanosoma brucei requires three different editosomes. Mol Cell Biol 28: 122-130.
-
(2008)
Mol Cell Biol
, vol.28
, pp. 122-130
-
-
Carnes, J.1
Trotter, J.R.2
Peltan, A.3
Fleck, M.4
Stuart, K.5
-
10
-
-
0033081421
-
Mapping contacts between gRNA and mRNA in trypanosome RNA editing
-
Leung SS, Koslowsky D (1999) Mapping contacts between gRNA and mRNA in trypanosome RNA editing. Nucleic Acids Res 27: 778-787.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 778-787
-
-
Leung, S.S.1
Koslowsky, D.2
-
11
-
-
0028000994
-
Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding
-
Walter AE, Turner DH, Kim J, Lyttle MH, Muller P, et al. (1994) Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc Natl Acad Sci USA 91: 9218-9222.
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 9218-9222
-
-
Walter, A.E.1
Turner, D.H.2
Kim, J.3
Lyttle, M.H.4
Muller, P.5
-
12
-
-
23144440350
-
DINAMelt web server for nucleic acid melting prediction
-
Markham NR, Zuker M (2005) DINAMelt web server for nucleic acid melting prediction. Nucleic Acids Res 33: W577-581.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Markham, N.R.1
Zuker, M.2
-
13
-
-
33646869691
-
Evidence for U-tail stabilization of gRNA/mRNA interactions in kinetoplastid RNA editing
-
Koslowsky DJ, Reifur L, Yu LE, Chen W (2004) Evidence for U-tail stabilization of gRNA/mRNA interactions in kinetoplastid RNA editing. RNA Biol 1: 28-34.
-
(2004)
RNA Biol
, vol.1
, pp. 28-34
-
-
Koslowsky, D.J.1
Reifur, L.2
Yu, L.E.3
Chen, W.4
-
15
-
-
0026680843
-
Site-specific modification of pre-mRNA: The 29- hydroxyl groups at the splice sites
-
Moore MJ, Sharp PA (1992) Site-specific modification of pre-mRNA: the 29- hydroxyl groups at the splice sites. Science 256: 992-997.
-
(1992)
Science
, vol.256
, pp. 992-997
-
-
Moore, M.J.1
Sharp, P.A.2
-
16
-
-
0026440995
-
Native mRNA editing complexes from Trypanosoma brucei mitochondria
-
Pollard VW, Harris ME, Hajduk SL (1992) Native mRNA editing complexes from Trypanosoma brucei mitochondria. EMBO J 11: 4429-4438.
-
(1992)
EMBO J
, vol.11
, pp. 4429-4438
-
-
Pollard, V.W.1
Harris, M.E.2
Hajduk, S.L.3
-
17
-
-
0030928201
-
Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria
-
Rusche LN, Cruz-Reyes J, Piller KJ, Sollner-Webb B (1997) Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria. EMBO J 16: 4069-4081.
-
(1997)
EMBO J
, vol.16
, pp. 4069-4081
-
-
Rusche, L.N.1
Cruz-Reyes, J.2
Piller, K.J.3
Sollner-Webb, B.4
-
18
-
-
0036277208
-
Distinct functions of two RNA ligases in active Trypanosoma brucei RNA editing complexes
-
Cruz-Reyes J, Zhelonkina AG, Huang CE, Sollner-Webb B (2002) Distinct functions of two RNA ligases in active Trypanosoma brucei RNA editing complexes. Mol Cell Biol 22: 4652-4660.
-
(2002)
Mol Cell Biol
, vol.22
, pp. 4652-4660
-
-
Cruz-Reyes, J.1
Zhelonkina, A.G.2
Huang, C.E.3
Sollner-Webb, B.4
-
19
-
-
0031993321
-
T. brucei RNA editing: Adenosine nucleotides inversely affect U-deletion and U-insertion reactions at mRNA cleavage
-
Cruz-Reyes J, Rusche LN, Piller KJ, Sollner-Webb B (1998) T. brucei RNA editing: adenosine nucleotides inversely affect U-deletion and U-insertion reactions at mRNA cleavage. Mol Cell 1: 401-409.
-
(1998)
Mol Cell
, vol.1
, pp. 401-409
-
-
Cruz-Reyes, J.1
Rusche, L.N.2
Piller, K.J.3
Sollner-Webb, B.4
-
20
-
-
0025108122
-
The MURF3 gene of T. brucei contains multiple domains of extensive editing and is homologous to a subunit of NADH dehydrogenase
-
Koslowsky DJ, Bhat GJ, Perrollaz AL, Feagin JE, Stuart K (1990) The MURF3 gene of T. brucei contains multiple domains of extensive editing and is homologous to a subunit of NADH dehydrogenase. Cell 62: 901-911.
-
(1990)
Cell
, vol.62
, pp. 901-911
-
-
Koslowsky, D.J.1
Bhat, G.J.2
Perrollaz, A.L.3
Feagin, J.E.4
Stuart, K.5
-
21
-
-
0025946104
-
Cycles of progressive realignment of gRNA with mRNA in RNA editing
-
Koslowsky DJ, Bhat GJ, Read LK, Stuart K (1991) Cycles of progressive realignment of gRNA with mRNA in RNA editing. Cell 67: 537-546.
-
(1991)
Cell
, vol.67
, pp. 537-546
-
-
Koslowsky, D.J.1
Bhat, G.J.2
Read, L.K.3
Stuart, K.4
-
22
-
-
52949083579
-
Trypanosoma brucei ATPase subunit 6 mRNA bound to gA6-14 forms a conserved three-helical structure
-
Reifur L, Koslowsky DJ (2008) Trypanosoma brucei ATPase subunit 6 mRNA bound to gA6-14 forms a conserved three-helical structure. RNA 14: 2195-2211.
-
(2008)
RNA
, vol.14
, pp. 2195-2211
-
-
Reifur, L.1
Koslowsky, D.J.2
-
23
-
-
0035671634
-
Interactions of mRNAs and gRNAs involved in trypanosome mitochondrial RNA editing: Structure probing of an mRNA bound to its cognate gRNA
-
Leung SS, Koslowsky DJ (2001) Interactions of mRNAs and gRNAs involved in trypanosome mitochondrial RNA editing: structure probing of an mRNA bound to its cognate gRNA. RNA 7: 1803-1816.
-
(2001)
RNA
, vol.7
, pp. 1803-1816
-
-
Leung, S.S.1
Koslowsky, D.J.2
-
24
-
-
0030952735
-
Probing accessible sites for ribozymes on human acetylcholinesterase RNA
-
Birikh KR, Berlin YA, Soreq H, Eckstein F (1997) Probing accessible sites for ribozymes on human acetylcholinesterase RNA. RNA 3: 429-437.
-
(1997)
RNA
, vol.3
, pp. 429-437
-
-
Birikh, K.R.1
Berlin, Y.A.2
Soreq, H.3
Eckstein, F.4
-
25
-
-
0034327531
-
Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes
-
Amarzguioui M, Brede G, Babaie E, Grotli M, Sproat B, Prydz H (2000) Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes. Nucleic Acids Res 28: 4113-4124.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 4113-4124
-
-
Amarzguioui, M.1
Brede, G.2
Babaie, E.3
Grotli, M.4
Sproat, B.5
Prydz, H.6
-
26
-
-
0031963785
-
Theoretical design of antisense RNA structures substantially improves annealing kinetics and efficacy in human cells
-
Patzel V, Sczakiel G (1998) Theoretical design of antisense RNA structures substantially improves annealing kinetics and efficacy in human cells. Nat Biotechnol 16: 64-68.
-
(1998)
Nat Biotechnol
, vol.16
, pp. 64-68
-
-
Patzel, V.1
Sczakiel, G.2
-
27
-
-
0036351172
-
Kinetic studies of RNA-protein interactions using surface plasmon resonance
-
Katsamba PS, Park S, Laird-Offringa IA (2002) Kinetic studies of RNA-protein interactions using surface plasmon resonance. Methods 26: 95-104.
-
(2002)
Methods
, vol.26
, pp. 95-104
-
-
Katsamba, P.S.1
Park, S.2
Laird-Offringa, I.A.3
-
28
-
-
0037328619
-
Studying the assembly of multicomponent protein and ribonucleoprotein complexes using surface plasmon resonance
-
von der Haar T, McCarthy JE (2003) Studying the assembly of multicomponent protein and ribonucleoprotein complexes using surface plasmon resonance. Methods 29: 167-174.
-
(2003)
Methods
, vol.29
, pp. 167-174
-
-
von der Haar, T.1
McCarthy, J.E.2
-
29
-
-
0031014046
-
Kinetic analysis of macromolecular interactions using surface plasmon resonance biosensors
-
Myszka DG (1997) Kinetic analysis of macromolecular interactions using surface plasmon resonance biosensors. Curr Opin Biotechnol 8: 50-57.
-
(1997)
Curr Opin Biotechnol
, vol.8
, pp. 50-57
-
-
Myszka, D.G.1
-
30
-
-
0035958669
-
Real time kinetic studies of the interaction between folded antisense and target RNAs using surface plasmon resonance
-
Nordgren S, Slagter-Jager JG, Wagner GH (2001) Real time kinetic studies of the interaction between folded antisense and target RNAs using surface plasmon resonance. J Mol Biol 310: 1125-1134.
-
(2001)
J Mol Biol
, vol.310
, pp. 1125-1134
-
-
Nordgren, S.1
Slagter-Jager, J.G.2
Wagner, G.H.3
-
31
-
-
85041131924
-
Antisense RNA control in bacteria, phages, and plasmids
-
Wagner EG, Simons RW (1994) Antisense RNA control in bacteria, phages, and plasmids. Annu Rev Microbiol 48: 713-742.
-
(1994)
Annu Rev Microbiol
, vol.48
, pp. 713-742
-
-
Wagner, E.G.1
Simons, R.W.2
-
32
-
-
33748674467
-
Small RNAs in bacterial cell-cell communication
-
Kay E, Reimmann C, Haas D (2006) Small RNAs in bacterial cell-cell communication. Microbe 1: 63-69.
-
(2006)
Microbe
, vol.1
, pp. 63-69
-
-
Kay, E.1
Reimmann, C.2
Haas, D.3
-
34
-
-
51549106674
-
Small RNA regulators of gene expression
-
Neilson JR, Sharp PA (2008) Small RNA regulators of gene expression. Cell 134: 899-902.
-
(2008)
Cell
, vol.134
, pp. 899-902
-
-
Neilson, J.R.1
Sharp, P.A.2
-
35
-
-
46149106555
-
Small RNAs in viral infection and host defense
-
Mlotshwa S, Pruss GJ, Vance V (2008) Small RNAs in viral infection and host defense. Trends Plant Sci 13: 317-328.
-
(2008)
Trends Plant Sci
, vol.13
, pp. 317-328
-
-
Mlotshwa, S.1
Pruss, G.J.2
Vance, V.3
-
37
-
-
0036173906
-
RNA sequence and base pairing effects on insertion editing in Trypanosoma brucei
-
Igo RP, Jr., Lawson SD, Stuart K (2002) RNA sequence and base pairing effects on insertion editing in Trypanosoma brucei. Mol Cell Biol 22: 1567-1576.
-
(2002)
Mol Cell Biol
, vol.22
, pp. 1567-1576
-
-
Igo Jr., R.P.1
Lawson, S.D.2
Stuart, K.3
-
38
-
-
0037377351
-
Sequence and structural requirements for optimal guide RNA-directed insertional editing within Leishmania tarentolae
-
Pai RD, Oppegard LM, Connell GJ (2003) Sequence and structural requirements for optimal guide RNA-directed insertional editing within Leishmania tarentolae. RNA 9: 469-483.
-
(2003)
RNA
, vol.9
, pp. 469-483
-
-
Pai, R.D.1
Oppegard, L.M.2
Connell, G.J.3
-
39
-
-
33646760670
-
The importance of RNA structure in RNA editing and a potential proofreading mechanism for correct guide RNA:PremRNA binary complex formation
-
Golden DE, Hajduk SL (2006) The importance of RNA structure in RNA editing and a potential proofreading mechanism for correct guide RNA:premRNA binary complex formation. J Mol Biol 359: 585-596.
-
(2006)
J Mol Biol
, vol.359
, pp. 585-596
-
-
Golden, D.E.1
Hajduk, S.L.2
-
40
-
-
0035868965
-
Annealing of RNA editing substrates facilitated by guide RNA-binding protein gBP21
-
Muller UF, Lambert L, Goringer HU (2001) Annealing of RNA editing substrates facilitated by guide RNA-binding protein gBP21. EMBO J 20: 1394-1404.
-
(2001)
EMBO J
, vol.20
, pp. 1394-1404
-
-
Muller, U.F.1
Lambert, L.2
Goringer, H.U.3
-
41
-
-
0037079663
-
Mechanism of the gBP21-mediated RNA/ RNA annealing reaction: Matchmaking and charge reduction
-
Muller UF, Goringer HU (2002) Mechanism of the gBP21-mediated RNA/ RNA annealing reaction: matchmaking and charge reduction. Nucleic Acids Res 30: 447-455.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 447-455
-
-
Muller, U.F.1
Goringer, H.U.2
-
42
-
-
0037276124
-
A 100-kD complex of two RNA-binding proteins from mitochondria of Leishmania tarentolae catalyzes RNA annealing and interacts with several RNA editing components
-
Aphasizhev R, Aphasizheva I, Nelson RE, Simpson L (2003) A 100-kD complex of two RNA-binding proteins from mitochondria of Leishmania tarentolae catalyzes RNA annealing and interacts with several RNA editing components. RNA 9: 62-76.
-
(2003)
RNA
, vol.9
, pp. 62-76
-
-
Aphasizhev, R.1
Aphasizheva, I.2
Nelson, R.E.3
Simpson, L.4
-
43
-
-
33747478692
-
Crystal structures of T. brucei MRP1/MRP2 guide-RNA binding complex reveal RNA matchmaking mechanism
-
Schumacher MA, Karamooz E, Zikova A, Trantirek L, Lukes J (2006) Crystal structures of T. brucei MRP1/MRP2 guide-RNA binding complex reveal RNA matchmaking mechanism. Cell 126: 701-711.
-
(2006)
Cell
, vol.126
, pp. 701-711
-
-
Schumacher, M.A.1
Karamooz, E.2
Zikova, A.3
Trantirek, L.4
Lukes, J.5
-
44
-
-
44149120986
-
gRNA/pre-mRNA annealing and RNA chaperone activities of RBP16
-
Ammerman ML, Fisk JC, Read LK (2009) gRNA/pre-mRNA annealing and RNA chaperone activities of RBP16. RNA 14: 1069-1080.
-
(2009)
RNA
, vol.14
, pp. 1069-1080
-
-
Ammerman, M.L.1
Fisk, J.C.2
Read, L.K.3
-
45
-
-
13244257143
-
RNA interference analyses suggest a transcript-specific regulatory role for mitochondrial RNA-binding proteins MRP1 and MRP2 in RNA editing and other RNA processing in Trypanosoma brucei
-
Vondruskova E, van den Burg J, Zikova A, Ernst NL, Stuart K, et al. (2005) RNA interference analyses suggest a transcript-specific regulatory role for mitochondrial RNA-binding proteins MRP1 and MRP2 in RNA editing and other RNA processing in Trypanosoma brucei. J Biol Chem 280: 2429-2438.
-
(2005)
J Biol Chem
, vol.280
, pp. 2429-2438
-
-
Vondruskova, E.1
van den Burg, J.2
Zikova, A.3
Ernst, N.L.4
Stuart, K.5
-
46
-
-
0037378166
-
RBP16 is a multifunctional gene regulatory protein involved in editing and stabilization of specific mitochondrial mRNAs in Trypanosoma brucei
-
Pelletier M, Read LK (2003) RBP16 is a multifunctional gene regulatory protein involved in editing and stabilization of specific mitochondrial mRNAs in Trypanosoma brucei. RNA 9: 457-468.
-
(2003)
RNA
, vol.9
, pp. 457-468
-
-
Pelletier, M.1
Read, L.K.2
-
47
-
-
0025294781
-
RNA editing involves indiscriminate U changes throughout precisely defined editing domains
-
Decker CJ, Sollner-Webb B (1990) RNA editing involves indiscriminate U changes throughout precisely defined editing domains. Cell 61: 1001-1011.
-
(1990)
Cell
, vol.61
, pp. 1001-1011
-
-
Decker, C.J.1
Sollner-Webb, B.2
-
48
-
-
0029788229
-
RNA editing: A mechanism for gRNA-specified uridylate insertion into precursor mRNA
-
Kable ML, Seiwert SD, Heidmann S, Stuart K (1996) RNA editing: a mechanism for gRNA-specified uridylate insertion into precursor mRNA. Science 273: 1189-1195.
-
(1996)
Science
, vol.273
, pp. 1189-1195
-
-
Kable, M.L.1
Seiwert, S.D.2
Heidmann, S.3
Stuart, K.4
-
49
-
-
0030745397
-
Guide RNA requirement for editing-site-specific endonucleolytic cleavage of preedited mRNA by mitochondrial ribonucleoprotein particles in Trypanosoma brucei
-
Adler BK, Hajduk SL (1997) Guide RNA requirement for editing-site-specific endonucleolytic cleavage of preedited mRNA by mitochondrial ribonucleoprotein particles in Trypanosoma brucei. Mol Cell Biol 17: 5377-5385.
-
(1997)
Mol Cell Biol
, vol.17
, pp. 5377-5385
-
-
Adler, B.K.1
Hajduk, S.L.2
-
50
-
-
33947535213
-
Substrate determinants for RNA editing and editing complex interactions at a site for full-round U insertion
-
Cifuentes-Rojas C, Pavia P, Hernandez A, Osterwisch D, Puerta C, Cruz- Reyes J (2007) Substrate determinants for RNA editing and editing complex interactions at a site for full-round U insertion. J Biol Chem 282: 4265-4276.
-
(2007)
J Biol Chem
, vol.282
, pp. 4265-4276
-
-
Cifuentes-Rojas, C.1
Pavia, P.2
Hernandez, A.3
Osterwisch, D.4
Puerta, C.5
Cruz-Reyes, J.6
-
51
-
-
46649094360
-
Determinants for association and guide RNA-directed endonuclease cleavage by purified RNA editing complexes from Trypanosoma brucei
-
Hernandez A, Panigrahi A, Cifuentes-Rojas C, Sacharidou A, Stuart K, Cruz- Reyes J (2008) Determinants for association and guide RNA-directed endonuclease cleavage by purified RNA editing complexes from Trypanosoma brucei. J Mol Biol 381: 35-48.
-
(2008)
J Mol Biol
, vol.381
, pp. 35-48
-
-
Hernandez, A.1
Panigrahi, A.2
Cifuentes-Rojas, C.3
Sacharidou, A.4
Stuart, K.5
Cruz-Reyes, J.6
|