ライフサイエンスコーパス: DNA primer

1 ted with an increased affinity for telomeric DNA primer.

2 cts of mutations in different regions of the DNA primer.

3 recognized as template when annealed with a DNA primer.

4 n telomerase and a substantial region of the DNA primer.

5 t a primer) or by using the 3' OH group of a DNA primer.

6 of two pTNA nucleotides onto the 3'-end of a DNA primer.

7 racts with ribonucleotides of a chimeric RNA-DNA primer.

8 l standard of 7-deaza-2'-deoxyguanosine in a DNA primer.

9 ction together to form a >20 base hybrid RNA-DNA primer.

10 ded DNA requires complete removal of the RNA/DNA primer.

11 with hydrogel beads (HBs) bearing barcoding DNA primers.

12 ate (RNA primers) yet binds to the 3' end of DNA primers.

13 that very small RNAs may be bound similar to DNA primers.

14 eric DNA de novo to completely non-telomeric DNA primers.

15 an add telomeric repeats only onto telomeric DNA primers.

16 te amounts of material by amplification from DNA primers.

17 discriminative against RNA and chimeric RNA-DNA primers.

18 strand, allowing recognition of both RNA and DNA primers.

19 sequences, generating potential plus-strand DNA primers.

20 The DNA primer 3'-end in the doravirine-bound structure is p

21 With a duplex telomeric DNA primer, a single-stranded 3' overhang with a minimum

22 e alpha-primase complex, which makes the RNA-DNA primers accessible to processive DNA pols.

23 template translocates and realigns with the DNA primer after synthesizing each repeat.

24 HIV reverse transcriptase could elongate DNA primers after the removal of chain terminators by th

25 merase mutants were able to extend telomeric DNA primers, albeit with reduced efficiency compared to

26 ary DNA (cDNA) and amplification of specific DNA (primer and probe) targets using polymerase chain re

27 ese cross-links were shown to be between the DNA primer and (i) a protein moiety of approximately 130

28 a synthetic oligonucleotide consisting of a DNA primer and an RNA template.

29 ic Okazaki fragments are initiated by an RNA/DNA primer and extended by DNA polymerase delta (pol del

30 transcriptase (HIV-1 RT) contact the nascent DNA primer and modulate the trajectory of the template r

31 n that L14 has a function beyond binding the DNA primer and preventing dissociation during multiple r

32 Complementarity between the DNA primer and RNA template is not required for the prim

33 thesis by eliminating mismatches between the DNA primer and the 5' region of the telomerase RNA templ

34 Using several different DNA primers and acceptor oligonucleotides, we found that

35 are mixed-type inhibitors of the binding of DNA primers and deoxynucleoside triphosphate (dNTP) to t

36 ion of the processivity with single-stranded DNA primers and double-stranded primers with 3' tails sh

37 is useful for researchers who want to design DNA primers and probes for analyzing highly variable DNA

38 res (RNA, DNA, and LNA templates and RNA and DNA primers) and two types of 5'-activated nucleotides (

39 non-templated addition to a single-stranded DNA primer; and (iii) templated extension of a 5'-tailed

40 s catalyze the 3'-5'-pyrophosphorolysis of a DNA primer annealed to a DNA template in the presence of

41 lease activity of the enzyme is specific for DNA primers annealed to a template strand and requires a

42 Telomeric DNA primers are bound by telomerase both at the active s

43 lementary to the PBS (R18), but not an 18-nt DNA primer, are used.

44 hybridized to a surface-immobilized array of DNA primers, are determined by sensing the number of nuc

45 ish medaka, which extends the same telomeric DNA primer as human telomerase, was not activated by hum

46 d substrate, and positions the 3'-end of the DNA primer at the active site of the enzyme, providing e

47 we show that purified hpol eta adds rNTPs to DNA primers at physiological rNTP concentrations and in

48 Degenerate DNA primers based on N-terminal and CNBr cleavage fragme

49 A endonuclease domain mutations do not block DNA primer binding and thus likely inhibit reverse trans

50 ated at the 3'-end, primed as efficiently as DNA primers but would not support exponential amplificat

51 devoid of hpol eta, could not add rNTPs to a DNA primer, but the expression of transfected hpol eta i

52 polymerase greatly preferred to elongate the DNA primer by 650-26,000-fold, thus accounting for the e

53 HIV-1 RT can unblock a chain-terminated DNA primer by phosphorolytic transfer of the terminal re

54 logs from the chain-terminated 3'-end of the DNA primer by the 3'-5'-exonuclease activity of Pol gamm

55 The spontaneous release of the completed RNA-DNA primer by the Pol alpha/primase complex simplifies c

56 ass III enzymes that elongated non-telomeric DNA primers by annealing them at alternative sites on th

57 -mers) procedure is based on the assembly of DNA primers by ligation of three or more hexamers taken

58 ctural requirements for the synthesis of RNA-DNA primers by Polalpha-primase.

59 ow that a looped-out telomeric repeat in the DNA primer can be accommodated and extended by tcTERT bu

60 at a region at the 5'-end is unannealed or a DNA primer can be annealed just adjacent to the 5'-end o

61 duced interaction with the -12 region of the DNA primer can facilitate a step in the catalytic region

62 insic proofreading activity during which the DNA primer chain is transferred between the polymerizati

63 group, nucleophilic attack that extends the DNA primer chain, and elimination of pyrophosphate.

64 nate substitutions through the region of the DNA primer contacted by the RNase H primer grip and into

65 DNA primers containing a single abasic site located six

66 trahymena cis-telomerase RNAs, each having a DNA primer covalently linked to its 3' end.

67 Accordingly, a DNA primer cross-linked throughout the gel matrix is ann

68 Primase-Polymerase that synthesizes RNA and DNA primers de novo and extents from these primers as a

69 nd confers upon it the ability to synthesize DNA primers de novo.

70 ermore, simultaneous optimization of several DNA primer design criteria may improve overall experimen

71 II intron RT in complex with an RNA template-DNA primer duplex and incoming deoxynucleotide triphosph

72 switch directly from synthetic RNA template/DNA primer duplexes having either a blunt end or a 3'-DN

73 elicase implicated in the removal of the RNA-DNA primer during Okazaki fragment processing.

74 DNA produced by Pol1 in each of the many RNA/DNA primers during chromosome replication adds up to ten

75 enzyme is necessary for the synthesis of RNA:DNA primers during DNA replication and, strikingly, we f

76 emoves the inhibitor from the 3' terminus of DNA primers, enabling further primer elongation (excisio

77 uding its ability to recognize and bind to a DNA primer end and load the ring-shaped PCNA onto DNA in

78 RFC binds to a DNA primer end and loads PCNA onto DNA in an ATP-depende

79 DNA primer end recognition and PCNA binding activities,

80 designated a Class I enzyme, only elongated DNA primers ending in telomeric nucleotides.

81 P hydrolysis; (ii) binding preferentially to DNA primer ends; (iii) loading mthPCNA onto singly nicke

82 ing protein; (iii) binding preferentially to DNA primer ends; and (iv) catalytically loading PCNA ont

83 ed CdATP and ara-CTP with high affinity in a DNA primer extending over an oligonucleotide template of

84 In vitro DNA primer extension assays indicated that Cl-F-ara-ATP

85 In vitro DNA primer extension demonstrated that FMdC nucleotides

86 esis that the mechanism involves a switch in DNA primer extension from the cognate template to an alt

87 nds over an RNA primer from Pri1 to Pol1 for DNA primer extension, and how the primer length is defin

88 MP resulted in nearly complete inhibition of DNA primer extension.

89 n competition between siRNA and a homologous DNA primer for annealing to template DNA, avoiding the r

90 minimum of 4 bp between the RNA template and DNA primer for efficient DNA synthesis.

91 or DNA metabolism, providing the de novo RNA-DNA primer for several DNA replication pathways(1-4) suc

92 ed a need to reevaluate coverage of existing DNA primers for denitrification functional genes.

93 hromosome strands by generating chimeric RNA-DNA primers for loading DNA polymerases delta and epsilo

94 y of a telomerase substrate (single-stranded DNA primer) for the enzyme.

95 DNA primers formed by the archaeal complex can be elonga

96 odakaraensis DNA polymerase (Pol) B, whereas DNA primers formed by the p41 catalytic subunit alone we

97 egion, we measured transfer of an elongating DNA primer from a donor DNA to an acceptor DNA.

98 It involves transferring a growing DNA primer from one genomic RNA template in the virus to

99 that the template's 3'-hydroxyl served as a "DNA primer" from which primase elongated to create the o

100 ly to an acceptor RNA and donor RNA template-DNA primer heteroduplex with a 1-nt 3'-DNA overhang.

101 Finally, contact with a DNA primer hybridized to an isogenic RNA or DNA template

102 XP-V cell extracts did not add dNTPs to DNA primers hybridized to RNA, but could when hpol eta w

103 HEK293T cell extracts could add dNTPs to DNA primers hybridized to RNA, but lost this ability if

104 nucleotide addition to a blunt-ended duplex DNA primer; (ii) non-templated addition to a single-stra

105 a dCMP residue from dCTP to the 3' end of a DNA primer in a template-dependent reaction.

106 otides at the 3' end of the AZTMP-terminated DNA primer in complex with AZT-resistant RT, but not wil

107 specific T. vaginalis single-stranded-tailed DNA primers in combination with recombinase polymerase a

108 on-Crick base pairs between RNA template and DNA primer increases from zero to five.

109 ki fragment and displaces the downstream RNA/DNA primer into a flap removed by nuclease cleavage.

110 Each contains an initiator RNA/DNA primer (iRNA/DNA), which is converted into a 5'-flap

111 irections is achieved, however, when a 6-mer DNA primer is annealed to the primase recognition site o

112 RNA pseudoknot region and the 5' end of the DNA primer is approximately 33 A.

113 ing domain of telomerase RNA and a telomeric DNA primer is normally a characteristic of elongation of

114 C complex onto the 3'-end of the nascent RNA-DNA primer is the last step required for the establishme

115 hich adds telomere repeats to a biotinylated DNA primer is the source of telomerase.

116 for addition of a single ribonucleotide to a DNA primer, Klenow fragment does not efficiently synthes

117 revealing how the human primosome counts RNA-DNA primer length and timely terminates DNA elongation.

118 DI mass spectral studies and the efficacy of DNA primers made with the new support in PCR amplificati

119 bled containing enzyme, DNA template (RT20), DNA primer molecule (P12), and the necessary dNTPs (one

120 initial proton abstraction from the terminal DNA primer O3'H group, nucleophilic attack that extends

121 observed with an RNA PPT primer than with a DNA primer of corresponding sequence and with wild-type

122 e alpha (Polalpha), synthesizes chimeric RNA-DNA primers of a limited length for DNA polymerases delt

123 Telomerase reactions performed with telomere DNA primers of varying sequence or using GQ-stabilizing

124 rporates ribonucleotide triphosphates into a DNA primer offers a plausible enzymatic pathway for the

125 investigated the effects of mutations in the DNA primer on overall binding and polymerization by yeas

126 the 5'-end primer contained either a 5'-OH (DNA primer) or a 5'-triphosphate (RNA primer) group.

127 nd drives the extrusion of the 5'-end of the DNA primer out of the enzyme complex.

128 The DNA primer (P8) was then attached to T30, and the second

129 gh further polymerase-dependent extension of DNA primers past 6-MI template bases is significantly in

130 es consisted of a 50 nucleotide template and DNA primers ranging from 23 to 43 nucleotides.

131 The rate constant for DNA primer realignment reveals this step is not rate lim

132 When a DNA primer recessed on an RNA template had a 3' unanneal

133 ions centered around the -12 position of the DNA primer reduced overall binding affinity but dramatic

134 ise, addition of one rNMP to the 3' end of a DNA primer reduces activity 38-fold.

135 pha/template:primer complexes containing RNA-DNA primers result in higher efficiency of mismatch exte

136 Downstream DNA primers, RNA primers, and small 5'-flaps were effici

137 Ts exhibit a normal dissociation rate from a DNA primer-RNA template while paused during synthesis.

138 DNA primer sets, labeled with two fluorescent dyes to ex

139 pattern generated by telomerase extension of DNA primers shifted in response to changes in dGTP conce

140 Mass spectral analysis of extended DNA primers showed >/=95% incorporation of dCTP > dATP o

141 quantitative polymerase chain reaction using DNA primers specific for the H-2Kb gene, a sequence not

142 rphic DNA (RAPD) analysis, sequence-specific DNA primer (SSDP) analysis, and polymorphic microsatelli

143 ow concentrations of the latter two RTs, the DNA primer stalled when it encountered the 5'-end of the

144 V-1) reverse transcriptase (RT) contacts the DNA primer strand and positions the template strand near

145 dified DNA, provide a homology model for the DNA primer strand in the exonuclease active site, and pr

146 rip domain, which contacts and positions the DNA primer strand near the RNase H active site.

147 ies on the synthesis of a ~30-nucleotide RNA/DNA primer strand through the dual action of the heterot

148 1 strand transfers, including the obligatory DNA primer strand transfers as well as recombinational c

149 incorporates nucleoside triphosphates onto a DNA primer strand, filling DNA gaps in annealed breaks.

150 isting of amino acids that interact with the DNA primer strand, may contribute to RNase H catalysis a

151 NTP) substrates onto the 3' end of a growing DNA primer strand.

152 es to an acceptor molecule positioned on the DNA primer strand.

153 and one catalyzes its condensation with the DNA primer strand.

154 and of identical composition, and it prefers DNA primer strands containing a short 3'-ribonucleotide

155 d in comparing the DNA-TNA primer to the all-DNA primer, suggesting that few primer-enzyme contacts a

156 f 3 mutants and their ability to use an 8 nt DNA primer, suggests that motif 3 facilitates realignmen

157 lication origin and serves as a template for DNA primer synthesis.

158 p58C is a key regulator of all steps of RNA-DNA primer synthesis.

159 at Pif1p inhibits telomerase by dissociating DNA primer-telomerase RNA interactions.

160 s ternary complex with 3'-dideoxy-terminated DNA primer-template and dNTP.

161 of a high fidelity DNA polymerase I bound to DNA primer-template caught in the act of binding a misma

162 poration for all four tNTPs and dNTPs from a DNA primer-template complex and carried out parallel exp

163 cus gorgonarius polymerase in complex with a DNA primer-template containing uracil in the single-stra

164 ially degrades AT-rich compared with GC-rich DNA primer-template in the absence of DNA synthesis.

165 d slower than the values for DNA/RNA and DNA/DNA primer-template substrates, respectively, while the

166 A "minimal" DNA primer-template system, consisting of an 80-mer temp

167 lso have a 3'-phosphatase activity on an all-DNA primer-template that yields a 3'-OH DNA end.

168 main has a 3'-phosphatase activity on an all-DNA primer-template, signifying that the phosphomonoeste

169 Using a minicircle DNA primer-template, the wild-type catalytic subunit of

170 ribonucleotides or deoxyribonucleotides to a DNA primer-template, with rNTPs being the preferred subs

171 polymerase beta (beta pol) complexed with a DNA primer-template.

172 pable of adding up to 4 ribonucleotides to a DNA primer-template.

173 i) templated extension of a 5'-tailed duplex DNA primer-template.

174 rent DNA structures: single-stranded DNA (ss-DNA), primer-template DNA (pt-DNA), and blunt-end double

175 DNA primer/template (p/t) constructs are used as models

176 ts indicate that KF is able to dimerize on a DNA primer/template and that dimerization is favored whe

177 (pol II-) were used as model enzymes with a DNA primer/template complex (12/16-mer) to examine the k

178 olymerase beta (Pol beta), using a synthetic DNA primer/template containing 2-aminopurine (2-AP) at t

179 freading polymerase, the nascent 3' end of a DNA primer/template has two possible fates.

180 The tC donor was incorporated within a model DNA primer/template in place of a normal base, adjacent

181 h-throughput assays, a double-stranded oligo DNA primer/template was used as a substrate.

182 hilus) DNA polymerase I large fragments with DNA primer templates bound productively at the polymeras

183 aired mutD5 strain to polymerize from M13mp2 DNA primer-templates containing a terminal T(template).C

184 w fragment of DNA polymerase I and synthetic DNA primer-templates containing extrahelical bases at de

185 a coli DNA polymerase I (Klenow fragment) to DNA primer-templates modified with an AAF or AF adduct.

186 Comparing RNA primer-templates and DNA primer-templates of identical sequence showed that h

187 catalyzed elongation of exogenously supplied DNA primer-templates showed that abasic lesions strongly

188 ual amino acid side chains to the binding of DNA primer-templates to the 3'-5' exonuclease site of th

189 ntrinsic proofreading activity interact with DNA primer/templates in two distinct modes, correspondin

190 Gapped DNA primer/templates were extended but not significantly

191 an DNA polymerases, p53 protein, and defined DNA primer/templates, we demonstrated that the wild-type

192 Human DNA polymerase alpha extended DNA primers terminated by CdA monophosphate (CdAMP) at i

193 sted for their ability to unblock and extend DNA primers terminated with AZT and other NRTIs, when co

194 The partitioning of the DNA primer terminus between the polymerase and 3'-5' exo

195 rectly paired ribonucleotide is added to the DNA primer terminus more rapidly than the corresponding

196 lex would promote helix melting ahead of the DNA primer terminus to create a small gap of nondisplace

197 ry cuts, about eight nucleotides in from the DNA primer terminus.

198 method employs Cy5-dATP incorporation into a DNA primer that has been prelabeled with a reference flu

199 Okazaki fragments contain an initiator RNA/DNA primer that must be removed before the fragments are

200 verse transcriptase does not efficiently use DNA primers that are base-paired to internal positions i

201 telomeric 3' termini in vitro using chimeric DNA primers that carried one repeat of a telomeric seque

202 imase and pol alpha synthesize composite RNA-DNA primers that initiate the leading and lagging DNA st

203 bridized to its extruded 5' end and allows a DNA primer to anneal and be extended by the DNA polymera

204 inding of the 3' end of the AZTMP-terminated DNA primer to reverse transcriptase is involved in the m

205 e alpha (Polalpha), synthesizes chimeric RNA-DNA primers to be extended by replicative DNA polymerase

206 endent RNase H2-mediated cleavage of blocked DNA primers to initiate isothermal helicase-dependent am

207 onformational dynamics of the intramolecular DNA primer transfer during the processive replicative ac

208 To make relaxed circular DNA, primer translocation must occur, resulting in the t

209 ted of a 142 nt RNA (donor) to which a 50 nt DNA primer was hybridized.

210 A blunt-ended duplex DNA primer was not utilized by telomerase.

211 inhibits telomerase by sequestration of the DNA primer was tested with a series of DNA-binding mutan

212 say using a heteropolymeric RNA template and DNA primers, we defined enzymatic profiles of recombinan

213 Mixtures of dye-labeled, M13-forward DNA primers were separated by capillary gel electrophore

214 tic Okazaki fragments are initiated by a RNA/DNA primer, which is removed before the fragments are jo

215 After the addition of a dT residue to the DNA primer, which is specified by the 49 rA residue in t

216 Okazaki fragments are initiated by short RNA/DNA primers, which are displaced into flap intermediates

217 genomic RNA template annealed with an 18-mer DNA primer with a sequence complementary to the primer b

218 idue in the template, telomerase extends the DNA primer with three additional nucleotides and then pa

219 omplemented PNA probes at an 18:1 ratio over DNA primers with a mismatch result in suppression of amp

220 usly with an RNA primer are preserved with a DNA primer--with the same set of polymerase residues tra