ライフサイエンスコーパス: transposase

1 ical and have different affinities for their transposase.

2 (tnsABCDE) including an atypical heteromeric transposase.

3 e construct flanked by binding sites for the transposase.

4 lex Virus thymidine kinase (HSV-tk) with the transposase.

5 mpetent/integration defective (Exc(+)Int(-)) transposase.

6 rate mutants using the Himar1 transposon and transposase.

7 only the luciferase transposon and piggyBac transposase.

8 domains, they do not specify a fully active transposase.

9 gene is related to the Drosophila P-element transposase.

10 ure containing higher-order multimers of the transposase.

11 ss the Etv6-RUNX1 fusion and Sleeping Beauty transposase.

12 n sequence similarity of the element-encoded transposase.

13 two identical transposon ends and a dimer of transposase.

14 ect marker for the robust expression of SB10 transposase.

15 representing another approach to manipulate transposases.

16 those generated by retroviral integrases and transposases.

17 luding domesticated MULE and IS1595-like DDE transposases.

18 lation of ABC transport systems and putative transposases.

19 icted proteins homologous to RCR prokaryotic transposases.

20 chanism similar to retroviral integrases and transposases.

21 uyveromyces lactis hobo/Activator/Tam3 (hAT) transposase 1 (Kat1), operating at the fossil imprints o

22 oprecipitation, DNase I hypersensitivity and transposase-accessibility assays combined with high-thro

23 Using the assay of transposase accessible chromatin (ATAC-seq), we observe

24 ychiatric disorders we applied the Assay for Transposase Accessible Chromatin followed by sequencing

25 Assay for Transposase Accessible Chromatin sequencing (ATAC-seq) i

26 DNaseI sequencing (DNase-seq) and Assay for Transposase Accessible Chromatin sequencing (ATAC-seq) p

27 re, the framework for applying the Assay for Transposase Accessible Sequencing (ATAC-seq) to biobanke

28 We employed the assay for transposase-accessible chromatin (ATAC-seq) in four plan

29 er assays (MPRAs) coupled with the assay for transposase-accessible chromatin (ATAC-Seq).

30 se (MNase) digestion and ATAC-seq (assay for transposase-accessible chromatin [ATAC] using sequencing

31 bility, as determined by ATAC-seq (assay for transposase-accessible chromatin [ATAC] with high-throug

32 equencing (ChIP-seq) combined with assay for transposase-accessible chromatin coupled to high-through

33 ble chromatin regions by using the Assay for Transposase-Accessible Chromatin from purified mouse car

34 atin accessibility profiling using assay for transposase-accessible chromatin sequencing (ATAC-seq) i

35 Transposase-accessible chromatin sequencing (ATAC-seq) w

36 Assay for transposase-accessible chromatin sequencing (ATAC-seq),

37 In this study, the assay for transposase-accessible chromatin sequencing was employed

38 knockdown approaches, CRISPR-Cas9, assay for transposase-accessible chromatin sequencing, and chromat

39 ible genome of individual cells by assay for transposase-accessible chromatin using sequencing (ATAC-

40 We describe an assay for transposase-accessible chromatin using sequencing (ATAC-

41 onous neuronal activation using an assay for transposase-accessible chromatin using sequencing (ATAC-

42 n of the chromatin landscape (as assessed by transposase-accessible chromatin using sequencing (ATAC-

43 In recent years, the assay for transposase-accessible chromatin using sequencing (ATAC-

44 -seq) profiling combined with bulk assay for transposase-accessible chromatin with high-throughput se

45 ibitory cortical neurons using the Assay for Transposase-Accessible Chromatin with high-throughput se

46 Using an assay for transposase-accessible chromatin with high-throughput se

47 We developed an allele-specific assay for transposase-accessible chromatin with high-throughput se

48 We used Assay for Transposase-Accessible Chromatin with high-throughput se

49 Using the assay for transposase-accessible chromatin with high-throughput se

50 Here we report assay of transposase-accessible chromatin with visualization (ATA

51 molecular basis of strand discrimination and transposase action.

52 he route of an intact DNA strand through the transposase active site before second strand cleavage.

53 Metnase retains many of the transposase activities including terminal inverted repea

54 A new study shows that aberrant DNA transposase activity promotes structural alterations tha

55 ts into its targeting and regulation of IstA transposase activity.

56 mice carrying the T2/Onc transposon and SB11 transposase alleles to allow transposon-mediated inserti

57 Expression of the transposase alone revealed no mobilization of endogenous

58 ted early during the interaction between the transposase and a potential target site, which may be ho

59 sposon-associated region encoding a putative transposase and associated factor.

60 otein that regulates the activity of the MuA transposase and captures target DNA for transposition.

61 Tn5 transposase and DNase I sequencing-based methods prefer

62 irectly at different ratios of transposon to transposase and found to be approximately comparable whi

63 study, we present a method that combines Tn5 transposase and molecular identifiers for the highly acc

64 lem by transposition immunity, involving MuA-transposase and MuB ATP-dependent DNA-binding protein.

65 ating type switching requires a domesticated transposase and occurs through a mechanism distinct from

66 ow that two ancestral RAG1 proteins, Transib transposase and purple sea urchin RAG1-like, have a late

67 a single plasmid construct that combines the transposase and the transpositioning transgene element t

68 ansposition, interacting with both the TnsAB transposase and TnsD-attTn7.

69 to decrease post-transposition expression of transposase and to eliminate the cells that have residua

70 The use of PB in a plasmid containing both transposase and transposon greatly increased the probabi

71 ontal gene transfer between bacteria such as transposases and integrases) syntenic with ARGs were rar

72 rves as a model system for understanding DDE transposases and integrases.

73 0/IS605 family encode the smallest known DNA transposases and mobilize through single-stranded DNA tr

74 c of the DNA binding domain (DBD) of Mutator transposases and of several transcription factors.

75 nt in most LTRs and require the DNA-binding, transposase, and dimerization domains of Abp1 to maintai

76 A and TnsB together form the heteromeric Tn7 transposase, and TnsD is a target-selecting protein that

77 e mobile DNAs, imprecision of integrases and transposases, and differential activity among identical

78 gone numerous rearrangements, contained many transposases, and might be less constrained by purifying

79 were capable of detecting 82% of the ISs and transposases annotated in GenBank with 80% sequence iden

80 d SPIN(ON) shows that no proteins other than transposase are essential for recombination, a property

81 stems, no helper plasmids are required since transposases are not expressed inside the host cells, th

82 Many of the Phantom transposases are predicted to harbor a FLYWCH domain in

83 ur analysis demonstrates that genes encoding transposases are the most prevalent genes in nature.

84 Using the Hermes transposase as a guide, we constructed a 36-kDa "mini" R

85 DNase I and Tn5 transposase assays require thousands to millions of fres

86 To evaluate this, we used a novel transposase-based approach to create libraries of vector

87 We have adapted transposase-based in vitro shotgun library construction

88 PiggyBac or Sleeping Beauty transposase bigenic rats bred with wild-type albino rats

89 s ordered assembly process shepherds primary transposase binding to the inner 12DRs (where cleavage d

90 observed active site rearrangements when the transposase binds a metal ion in which it is inactive pr

91 Here we show that purified transposase binds specifically to the Muta1 ends and cat

92 In vivo integrations by purified transposase can be achieved by electroporation, chemical

93 Others have shown that piggyBac transposase can be active when fused to a heterologous D

94 However, prolonged expression of transposase can become a potential source of genotoxic e

95 However, we show that Ac transposase can negatively regulate Ps1 transcript accum

96 the in vitro activities of the putative Cas1 transposase ('casposase') from Aciduliprofundum boonei.

97 re, we present two crystal structures of the transposase catalytic domain of Metnase revealing a dime

98 n-based systems that integrate transgenes by transposase-catalyzed "cut-and-paste" mechanism have eme

99 peats (TIRs) contain sequences essential for transposase cleavage and have been implicated in DNA rep

100 critical for repair of DNA breaks following transposase cleavage in vivo.

101 In contrast, cut-and-paste transposases cleave two DNA strands of opposite polarity

102 We identified 81 transposase-coding sequences, three of which are part of

103 netic framework for all future cut-and-paste transposase comparisons.

104 Intrabiliary instillation of the transposon-transposase complex was coupled with lobar bile duct lig

105 deciphered several inverted terminal repeat-transposase complexes that are intermediates during tran

106 r element structure, genetic background, and transposase concentration.

107 and found that transposition declined after transposase concentrations became high enough for visibl

108 illuminates a molecular pathway involving a transposase-containing transcription factor that coopera

109 s (Fic; D-alanyl-D-alanine-carboxypeptidase; transposase) dated the divergence event at 300 million y

110 s establish engineered LPs as a new tool for transposase delivery.

111 We conclude that Kat1 is a highly regulated transposase-derived endonuclease vital for sexual differ

112 molog FAR-RED IMPAIRED RESPONSE1 (FAR1), two transposase-derived transcription factors, are key compo

113 However, after the transposase dimer has captured the first transposon end,

114 acid motif, which forms part of the mariner transposase dimer interface.

115 rucially, we find that each active site of a transposase dimer is responsible for two hydrolysis and

116 anscription factor SP1 fused to the piggyBac transposase directs insertion of the piggyBac transposon

117 r basis for the reduced affinity of the Mos1 transposase DNA-binding domain for the left IR as compar

118 h decreased colonies at the highest doses of transposase DNA.

119 The crystal structure of the Hermes transposase-DNA complex reveals that Hermes forms an oct

120 chemical transfection or Lipofection of the transposase:DNA mixture, in contrast to other published

121 in Ac and Ds derivatives, suggesting that Ac transposase does not influence transcript initiation sit

122 Mos1 transposase does not support target commitment, which ha

123 ed the ssDNA-binding activity of the Metnase transposase domain and found that the catalytic domain b

124 red specific catalytic residues in the PGBD5 transposase domain as well as end-joining DNA repair and

125 Although the Metnase transposase domain has been largely conserved, its catal

126 Metnase (also called SETMAR) is a SET and transposase domain protein that promotes both DNA double

127 of Asn-610 with either Asp or Glu within the transposase domain significantly reduces ssDNA binding a

128 uires distinct aspartic acid residues in its transposase domain, and specific DNA sequences containin

129 Although both SET and the transposase domains were necessary for its function in D

130 The 134 proteins contained mariner transposase domains, of which there are none in C. elega

131 ) arose from a chimeric fusion of the Hsmar1 transposase downstream of a protein methylase in anthrop

132 agenic T2Onc2 transposon via expression of a transposase driven by the keratin K5 promoter in a p53(+

133 s appear to have originated from prokaryotic transposases (e.g. TN7 and Mu) and combine a CDC6/ORC1-S

134 Consequently, the separation of the transposase element from the polyA sequence after transp

135 As a group, heteromeric transposase elements utilize diverse target site selecti

136 n vivo, leading to the production of the non-transposase-encoding mature mRNA isoform in Drosophila g

137 anied by alteration of their function from a transposase/endonuclease to a heterochromatin protein, d

138 s described that is called PERMutation Using Transposase Engineering (PERMUTE).

139 arly, fusion of a fluorescent protein to the transposase enhanced the transposition activity, represe

140 Our data indicate that the transposase-enhanced PNI technique additionally requires

141 The transposase-enhanced pronuclear microinjection (PNI) tec

142 9 protein fused to the amino-terminus of the transposase enzyme designed to target the hypoxanthine p

143 Mobilization of DNA transposons by transposase enzymes can cause genomic rearrangements, bu

144 distantly related elements with heteromeric transposases exist with alternate targeting pathways tha

145 ved 5 (PGBD5) gene as encoding an active DNA transposase expressed in the majority of childhood solid

146 he genome size and inversely proportional to transposase expression and its affinity for the transpos

147 Therefore, cells having residual transposase expression can be eliminated by the administ

148 alternative strategies to achieve transient transposase expression, and engineered refinements in th

149 nd to eliminate the cells that have residual transposase expression.

150 uclease domain that shares homology with the Transposase family.

151 e integration; however, using transposon and transposase from separate vectors circumvented this.

152 nclear whether this domain was shared by the transposases from all superfamilies.

153 The transposases from several superfamilies possess a protei

154 cies, as well as in humans, but with loss of transposase function (except Schizosaccharomyces japonic

155 The lack of any BvhAT transposase function together with the high degree of de

156 ransposase gene exists within a chimeric SET-transposase fusion protein referred to as Metnase or SET

157 Metnase (SETMAR) is a SET-transposase fusion protein that promotes nonhomologous e

158 escent protein (eGFP) was linked to the SB10 transposase gene as an indirect marker for the robust ex

159 he Hsmar1 transposon, the only intact Hsmar1 transposase gene exists within a chimeric SET-transposas

160 However, safety considerations regarding transposase gene insertions into host genomes have rarel

161 non-autonomous BvhAT derivatives lacking the transposase gene were in silico-detected.

162 s1/2 (Rag1/2) recombinase has evolved from a transposase gene, demonstrating that TEs can be domestic

163 ulfurreducens strain DL-1, is truncated by a transposase gene, preventing flagellar biosynthesis.

164 ons, which are then incorporated in a single transposase gene.

165 ding genes ccrA and ccrB, and the IS256-like transposase gene.

166 y determined both ends of 87 ISs bearing 110 transposase genes in eight IS families and in a cluster

167 Duplications and putative integrase and transposase genes suggest past gene shuffling.

168 PCC 7120, widely studied, has 145 annotated transposase genes that are part of transposable elements

169 An unparalleled abundance of encoded transposases (>650) relative to genome size, together wi

170 ing their own replication and dissemination, transposases guarantee to thrive so long as nucleic acid

171 The Metnase transposase has been remarkably conserved through evolut

172 ilarity between RAG1 and the hairpin-forming transposases Hermes and Tn5 suggests the evolutionary co

173 After electroporation, the transposon/transposase improves the efficiency of integration of pl

174 ferentially targeted by the chimeric Gal4-PB transposase in human cells.

175 The piggyBac (pB) transposase in particular has been shown to be well suit

176 nsus and ancestral sequences for the Galileo transposase in three species of Drosophilids.

177 here the induction of expression of multiple transposases in a Streptococcus mitis biofilm when the p

178 eaction and the mechanism of hAT and Transib transposases including the importance of the conserved W

179 that several point mutations in the mariner transposase increase their activities by disrupting the

180 nsposon greatly increased the probability of transposase integration; however, using transposon and t

181 gs also suggest the position of a target DNA-transposase interaction.

182 ing the transposon and RNA encoding piggyBac transposase into zygotes.

183 a transgene flanked by binding sites for the transposase, into the cytoplasm of porcine zygotes.

184 e construct flanked by binding sites for the transposase, into the pronuclei of fertilized oocytes.

185 Thus, an Exc(+)Int(-) transposase is a potentially useful reagent for genome e

186 Alternatively, the piggyBac transposase is able perform all of the steps required fo

187 The piggyBac (PB) transposase is an efficient gene transfer vector active

188 When purified recombinant Mos1 or Mboumar-9 transposase is co-transfected with transposon-containing

189 nsposition activity induced by the wild-type transposase is low but can be altered by modification of

190 r DNA dilution and compartmentalization, the transposase is removed, resolving the DNA into individua

191 2 and that in vitro transposition by Transib transposase is stimulated by RAG2.

192 ut our knowledge of human genes derived from transposases is limited.

193 ng the largest and most common among all DNA transposases, is the one whose members have been used fo

194 rmined the crystal structures of four ISDra2 transposase/IS end complexes; combined with in vivo acti

195 the structure and further show that the IS21 transposase, IstA, recognizes the IstB*DNA complex and p

196 atures suggest that, relative to IS200/IS605 transposases, it has evolved a different mechanism for t

197 In this study, we uncovered a domesticated transposase, Kluyveromyces lactis hobo/Activator/Tam3 (h

198 eta-catenin using sleeping beauty transposon/transposase leads to hepatocellular carcinoma (HCC) in m

199 rate that CRISPR/Cas9 combined with piggyBac transposase lineage labeling can produce unique models o

200 ore tested it in combination with a piggyBac transposase lineage labeling system to track the develop

201 relationship of its encoded protein to known transposases may have impeded the discovery of this grou

202 and arises from the multimeric state of the transposase, mediated by a competition for binding sites

203 This transposase-mediated approach is also very efficient for

204 se from illegitimate recombination involving transposase-mediated DNA cleavage.

205 e chromatin with visualization (ATAC-see), a transposase-mediated imaging technology that employs dir

206 efinements in the safety profile of piggyBac transposase-mediated integration.

207 The transposase-mediated transduction of constitutively acti

208 The transposase mediates excision of the transgene cassette

209 osition in genetically engineered transposon-transposase mice induced cancers whose type (hematopoiet

210 A crystal structure of the mariner transposase Mos1 (derived from Drosophila mauritiana), i

211 mpared the preferences of two active mariner transposases, Mos1 and Mboumar-9, for their imperfect tr

212 The translation of the transposase mRNA is followed by enzyme-mediated excision

213 Upon translation of the transposase mRNA, enzyme-mediated excision of the transg

214 e enhancer DNA segment is the site where the transposase MuA binds and makes bridging interactions wi

215 In PERMUTE, the transposase MuA is used to randomly insert a minitranspo

216 ed for the isolated C-terminal domain of the transposase MuA, which is not observed in the full-lengt

217 rt the structure of the Mu transpososome--Mu transposase (MuA) in complex with bacteriophage DNA ends

218 Finally, we identify transposase mutants that reveal that the conserved WVPHE

219 hyperactive and other interesting classes of transposase mutants.

220 eins formed between the Drosophila P-element transposase N-terminal THAP DNA binding domain and the C

221 erated in different sister chromosomes after transposase nicks DNA near participating IS3 elements.

222 es that might dock in the active site of the transposase nuclease domain of Metnase.

223 te and trithorax (SET) histone methylase and transposase nuclease domain.

224 ee-dimensional structures of transpososomes (transposase-nucleic acid complexes) are available, and w

225 f the transposon ends before cleavage by the transposase occurs.

226 ed sensitive biochemical assays for the TnpA transposase of the Tn3-family transposon Tn4430 and used

227 The TnpA transposase of these elements catalyzes DNA breakage and

228 ether with a suite of proteins that includes transposases, orchestrate a broad cascade of genome rear

229 Ac elements, these results give insight into transposase overproduction inhibition by demonstrating t

230 ne delivery system carries both the piggyBac transposase (pBt) expression cassette as well as the tra

231 ansfer activity dependent on codon-optimized transposase plasmid peaked at 100 ng with decreased colo

232 results were obtained with the domesticated transposase PogZ, another cellular interaction partner o

233 LPs) as carriers of the hyperactive piggyBac transposase protein (hyPBase), we demonstrate rates of D

234 We demonstrate lentiviral co-delivery of the transposase protein and vector RNA carrying the transpos

235 orientation in the genome and the amount of transposase protein in the cell.

236 tion by demonstrating that the appearance of transposase protein structures and the end of active tra

237 genetic material encoding the gene-inserting transposase protein, raising concerns related to persist

238 transposition achieved by direct delivery of transposase protein.

239 d using combinations of both plasmid-DNA and transposase-protein relocalization to the target sequenc

240 Analysis of transposase proteins containing site-directed mutations

241 Recent studies have identified transposase proteins that appear to have been domesticat

242 Although a new clade of putative transposases (RAYTs or TnpA(REP)) is often associated wi

243 Transposase recognises the flipped target adenines via b

244 in a lentivirus backbone containing PiggyBac transposase recognition elements together with fluoresce

245 The transposase-related transcription factor FAR-RED ELONGAT

246 Transposase residues W159, R186, F187 and K190 stabilise

247 ith guide RNA (gRNA), donor DNA and piggyBac transposase resulted in efficient, targeted genome editi

248 However, the 3'-end can be bypassed by the transposase, resulting in transduction of flanking seque

249 oncentrations became high enough for visible transposase rodlets to appear.

250 Excision of the piggyBac using transposase seamlessly reproduced exactly the naturally

251 nding in both the predicted ancestral Hsmar1 transposase sequence as well as in the modern enzyme.

252 ow but can be altered by modification of the transposase sequence, including deletion, fusion, and su

253 functional relationships of hAT and hAT-like transposase sequences extracted from genome databases an

254 Through multiple-alignment of transposase sequences from a diverse collection of previ

255 a method that exploits contiguity preserving transposase sequencing (CPT-seq) to facilitate the scaff

256 Analysis of their transposases shows that they contain a previously unchar

257 One transposase subunit, TnsB, is from the large family of b

258 Communication between transposase subunits also provides a failsafe mechanism

259 ing transcriptional slippage is required for transposase synthesis.

260 ed using the Sleeping Beauty (SB) transposon/transposase system to express a CD19-specific CAR.

261 assette according to the piggyBac transposon/transposase system.

262 g and provides insight into the mechanism of transposase-target DNA interaction.

263 We found that the hAT transposase TcBuster from Tribolium castaneum formed fil

264 e, we describe modified versions of piggyBac transposase that have potentially wide-ranging applicati

265 The transposon Tn7 transposase that recognizes the transposon ends and medi

266 binding sites for TnsB, the component of the transposase that specifically binds the ends and mediate

267 s indicate that human THAP9 is an active DNA transposase that, although "domesticated," still retains

268 An Exc(+)Int(-) transposase, the intrinsic targeting of which is defecti

269 TnsB, is from the large family of bacterial transposases, the second, TnsA, is related to endonuclea

270 n of these duplications is stimulated by IS3 transposase (Tnp) and plasmid transfer functions (TraI).

271 IS605 family, but in contrast to IS200/IS605 transposases, TnpA(REP) is a monomer, is auto-inhibited

272 scribed herein uses the hyperactive piggyBac transposase to insert a large transgene into the mouse g

273 multiple sites of interaction could allow a transposase to locate its transposon ends amidst a sea o

274 ansposon system using the SB100X hyperactive transposase to transduce human cord blood CD34(+) cells

275 ubstrate pair, Escherichia coli ClpX and MuA transposase, to address how these powerful enzymes recog

276 nthetic mRNA encoding the SB100X hyperactive transposase together with plasmid DNA carrying a transge

277 of a plasmid encoding the SB100X hyperactive transposase, together with a second plasmid carrying a t

278 nthetic mRNA encoding the SB100X hyperactive transposase, together with circular plasmid DNA carrying

279 g), green fluorescent protein (GFP), and the transposase (TPase) of maize (Zea mays) Activator major

280 such gene encodes the domesticated piggyBac transposase TPB6, required for heterochromatin-dependent

281 ng single-copy transposons at known loci and transposase transgenes exhibited coat color mosaicism, i

282 ilitated by one or more proteins, called the transposase, typically encoded by the mobile element its

283 xcised by a K248A excision(+)/integration(-) transposase variant are processed by hairpin resolution,

284 ers, fluorescent protein genes, and piggyBac transposase vectors to demonstrate that this can be a re

285 ector in new genomic locations when piggyBac transposase was provided in trans from a second integrat

286 A hyperactive PB (hyPB) transposase was then deployed to enable transposition of

287 The piggyBac transposase was used to insert recombinase target sites

288 ures of wild-type and catalytically inactive transposases, we show that all the catalytic steps of tr

289 y express either piggyBac or Sleeping Beauty transposase were generated by standard zygote injection

290 Chimeric transposases were evaluated for expression, transpositio

291 Some transposases were homologous to those of mat community m

292 over, we identified a critical region in the transposase where the net charge of the amino acids seem

293 (DDN) differs from the DDD motif of related transposases, which may be important for its role as a D

294 lso be a useful intermediate in generating a transposase whose integration activity could be rescued

295 cular group of DNA transposons that encode a transposase with a DD(E/D) catalytic domain that is topo

296 We found that the FKBP-DD confers the PB transposase with a higher transposition activity and bet

297 We investigated fusions of the PB transposase with ERT2 and two degradation domains (FKBP-

298 other Foldback-like elements may provide the transposase with its binding specificity.

299 A hyperstable complex of the tetrameric MuA transposase with recombined DNA must be remodeled to all

300 vide a template for re-designing mariner/Tc1 transposases with modified target specificities.

301 The conserved mariner transposase WVPHEL and YSPDL motifs position the strand