ライフサイエンスコーパス: transposon

1 ntially and significantly targeted by the PB transposon.

2 cases, chromosomal sequences adjacent to the transposon.

3 , the long-anticipated TE related to the RAG transposon.

4 nt enhancer trap screening with the PiggyBac transposon.

5 of Drosophila ovaries leads to activation of transposons.

6 t circRNAs can arise from the transcripts of transposons.

7 y restricting the replication of viruses and transposons.

8 may act to antagonize zygotically activated transposons.

9 t it maintains genome integrity by silencing transposons.

10 d in transcriptional repression of genes and transposons.

11 tic elements, including various plasmids and transposons.

12 s did not originate by en bloc exaptation of transposons.

13 ats, as well as silencing of heterochromatic transposons.

14 ally disappeared and H3K27me3 accumulated at transposons.

15 e and the mobilisation of DNA by conjugative transposons.

16 and breaks, or the expression of MIRAGE1 DNA transposons.

17 wiL2, a protein involved in the silencing of transposons.

18 ed nucleosomes, and the presence of Stowaway transposons.

19 mary piRNA transcripts overlapping antisense transposons.

20 ity by silencing repetitive DNA elements and transposons.

21 ed some associations between DMRs, genes and transposons.

22 to enable transposition of the large-size PB transposon (17 kb) encoding the full-length DYS and gree

23 cluded that, frequent gene loss or gain, new transposon acquisition and sequence divergence are host

24 immediate response to demethylation-induced transposon activation, while the deposition of repressiv

25 h Piwi-associated RNA-mediated repression of transposon activities.

26 additional molecular mechanisms that inhibit transposon activity and altogether illustrate the parado

27 cits an endosiRNA response to restrain acute transposon activity during epigenetic reprogramming in t

28 ddition, we found that the FKBP-DD regulates transposon activity in a reversible and dose-dependent m

29 Thus, these findings suggest that DNA transposon activity is a major evolutionary force in gra

30 SAturated Transposon Analysis in Yeast (SATAY) allows one-step map

31 Here, we report the use of the PiggyBac transposon and a Tet-On 3G drug-inducible gene expressio

32 n information revealed most putative de novo transposon and exon insertions likely result from unavoi

33 epair and genome stability, and silencing of transposon and gene expression.

34 NA-directed DNA methylation for silencing of transposons and a subset of genes.

35 eases in the expression of a wide variety of transposons and also altered expression of some protein-

36 often derived from retrotransposons than DNA transposons and as retrotransposon copy number in both r

37 l roles in germline development by silencing transposons and other targets.

38 dy DNA methylation, euchromatic silencing of transposons and repeats, as well as silencing of heteroc

39 he substantial alteration of 5hmC on several transposons and repetitive elements led to their differe

40 DNA transposons and retroviruses are versatile tools in func

41 eracting RNA (piRNA) pathway, which silences transposons and shows pervasive adaptive evolution, and

42 piggyBac (PB), Tol2 and Sleeping Beauty (SB) transposons and the murine leukemia virus (MLV) in mouse

43 .e. growth rate) analysis available for most transposons and Tn-Seq associated approaches (e.g. TraDi

44 ion of repetitive DNA, new lineages of retro-transposons, and gene architecture patterns resembling a

45 t siRNAs fell into several classes including transposon- and repeat-derived siRNAs as in higher plant

46 Strikingly, young X. tropicalis DNA transposons are derepressed and recruit p300 in hybrid e

47 quences, and the most abundant cut-and-paste transposons are from the hAT superfamily.

48 Transposons are highly abundant in eukaryotic genomes, b

49 Transposable elements, also known as transposons, are now recognized not only as parasitic DN

50 nt element from the bat genome, and use this transposon as an experimental tool to unravel the mechan

51 rate piRNAs in their capacity to target both transposons, as well as protein-coding genes.

52 We show that the transposon-associated CRISPR arrays contain spacers homo

53 This minimal gene complement of the transposon-associated CRISPR-Cas systems implies that th

54 24 results in increased silencing of the DNA transposon AtMu1c, while overexpression of JMJ24 reduces

55 difications have emerged in the past decade, transposon-based applications are highly relevant when i

56 Although several non-transposon-based approaches to site-directed genome modi

57 Transposon-based forward mutagenesis screens have numero

58 We developed methods for transposon-based mutagenesis in S. alvi and, using high-

59 :DNA mixture, in contrast to other published transposon-based protocols which require electroporation

60 oped a novel antiviral strategy by combining transposon-based transgenesis and the clustered regularl

61 A transposon bearing a genetic marker is randomly transpos

62 Most transposons become hypomethylated, raising the question

63 studies, normal human p53 alleles suppressed transposons, but mutant p53 alleles from cancer patients

64 their inherent capacity to insert into DNA, transposons can be developed into powerful tools for chr

65 Indeed, the 3,000 bp flanking the excised transposons can contain over 10 times more mutations tha

66 ne-step mapping of all genetic loci in which transposons can insert without disrupting essential func

67 Helitron transposons capture and mobilize gene fragments in eukar

68 Each transposon carries one splice site.

69 isolate from a colonized patient lacked the transposon carrying rmtF and aac(6')lb genes, resulting

70 laCTX-M-15 gene, but some (n = 5) lacked the transposon carrying this gene, which resulted in suscept

71 nd mir-427/430/302, as well as Harbinger DNA transposons carrying the Myb-like proto-oncogene have ex

72 A new sequencing strategy that recovers transposon: chromosome junction information revealed mos

73 nd archaeal genomes shows that many Tn7-like transposons contain minimal type I-F CRISPR-Cas systems

74 Mboumar-9 transposase is co-transfected with transposon-containing plasmid DNA, it penetrates prokary

75 ly conserved mechanism of small RNA-mediated transposon control.

76 e or plasmid regions corresponding to active transposons, CRISPR loci, ribosomal RNA genes, rolling c

77 , whereas levels of long piRNA precursor and transposons decreased, suggesting that increasing cell d

78 quired for the inheritance of piRNA-mediated transposon defence.

79 Indeed, piggyBac transposon-derived genes are necessary for genome-wide I

80 nces and display the molecular signatures of transposon-derived piRNAs.

81 t CpGs, readily forming epialleles, and (ii) transposon-derived, methylated at all cytosines, which m

82 that was further characterized by means of a Transposon Directed Insertion Sequencing (TraDIS) approa

83 als (colistin, imipenem or ciprofloxacin) by Transposon Directed Insertion-site Sequencing (TraDIS).

84 nome-wide screen for essential genes using a transposon-directed insertional sequencing (TraDIS) appr

85 rated whole-genome collection of single-gene transposon disruption mutants termed Knockout Sudoku.

86 We delayed the availability of the transposon DNA and found that transposition declined aft

87 to reduce transcript levels of the P-element transposon during P-M hybrid dysgenesis, a syndrome that

88 We hypothesize that the transposon-encoded CRISPR-Cas systems generate displacem

89 Several small groups of Tn7-like transposons encompass similarly truncated type I-B CRISP

90 followed by capture of the 12DR of the other transposon end.

91 one transesterification reaction at the same transposon end.

92 nd key aspects of the mechanism by which the transposon ends are cleaved remained unknown.

93 ulatory mechanism to enforce synapsis of the transposon ends before cleavage by the transposase occur

94 from Drosophila mauritiana), in complex with transposon ends covalently joined to target DNA, portray

95 reaks (DSB) and the joining of newly excised transposon ends with target DNA.

96 h one TnpA molecule simultaneously binds two transposon ends.

97 We propose that variable transposon epigenetic silencing underlies the variable m

98 Furthermore, transposon eruptions occurring in the p53(-) germline we

99 The ends of SB transposons excised by a K248A excision(+)/integration(-

100 G1/2-like proteins can mediate TIR-dependent transposon excision, host DNA recombination, transpositi

101 r-like transposable elements, a class of DNA transposons, exist pervasively in both prokaryotic and e

102 Injection of a transposon expressing erythropoietin raised the haematoc

103 eterochromatin protein, designed to suppress transposon expression and recombination.

104 of de novo insertions did not correlate with transposon expression or fly age.

105 gulated neuronal genes or downregulated LINE transposon expression.

106 d that H3K9me3 and H3K27me3 occupy different transposon families or different territories within the

107 or siRNAs targeting non-identical members of transposon families.

108 Transposons follow a biphasic dynamics, with bursts of g

109 transposon-host interactions or prepare the transposon for a horizontal transfer.

110 INEs, and endogenous retroviruses as well as transposon fragments.

111 e acquisition by the resistance plasmid of a transposon from a co-residing plasmid encoding a putativ

112 ch that identifies insertion sites from gene-transposon fusions in standard single- and paired-end RN

113 iased with respect to codons, and phasing of transposon-generated introns is similarly biased.

114 For example, the Sleeping Beauty transposon has become highly instrumental to induce tumo

115 The piggyBac (PB) transposon has been used in a number of biological appli

116 a subgroup of the Tc1/mariner superfamily of transposons has been enigmatic.

117 generated by random mutation might stabilize transposon-host interactions or prepare the transposon f

118 for the post-translational control of the PB transposon in four cell lines.

119 as L1), the only currently autonomous mobile transposon in humans, occupies 17% of the genome and gen

120 tion of PIWI proteins to silence deleterious transposons in animal reproductive tissues.

121 Thus, activation of transposons in cells with global DNA hypomethylation mim

122 n driven by transposons, we hypothesize that transposons in maize may be involved in the formation of

123 an secure the control of a large spectrum of transposons in periods of intense DNA methylation change

124 role in protecting the genome from invasive transposons in the germline.

125 Given the prevalence of transposons in the maize genome and dramatic genomic var

126 We show that silencing of transposons in the pericentromeric heterochromatin of Ar

127 that evolution of the CRISPR-Cas-containing transposons included a single, ancestral capture of a ty

128 ns annotated full-length sequences of LINE-1 transposons including putatively active L1s.

129 We believe the FKBP-based PB transposon induction will be useful for transposon-media

130 different RNAi pathways to combat viral and transposon infection: short interfering RNAs (siRNAs) an

131 These transposons insert between pre-existing nucleosomes, so

132 terized an S. aureus strain that contained a transposon inserted in the intergenic space between sufC

133 le-cell WGA method, Linear Amplification via Transposon Insertion (LIANTI), which outperforms existin

134 oughput DNA sequencing, screened genome-wide transposon insertion (Tn-seq) and transcriptome (RNA-seq

135 Thus, transposon insertion and sequence co-option may explain

136 genic region, while FT2c and FT2d obtained a transposon insertion and structural rearrangement, respe

137 Recurrent sites of transposon insertion are commonly identified using ligat

138 Statistical analysis of transposon insertion distribution revealed a set of 453

139 ted expression potentially associated with a transposon insertion in the upstream intergenic region,

140 The FT2c allele carrying a transposon insertion is nearly fixed in soybean landrace

141 genes through construction of complex random transposon insertion libraries and quantification of eac

142 Using a highly saturated transposon insertion library combined with next-generati

143 Phenotypic screening of a GBS transposon insertion library identified a mutation withi

144 ly test this hypothesis, we used a bar-coded transposon insertion library in tandem with cell sorting

145 A high-density transposon insertion library was grown under biofilm-ind

146 tely annotate the extremely large progenitor transposon insertion mutant collections needed to achiev

147 A chlamydial transposon insertion mutant in the Cdu1-encoding gene ex

148 Exposing a saturating transposon insertion mutant library of S Typhimurium to

149 e cytotoxicity and biofilm formation from 93 transposon insertion mutants previously reported with in

150 e show that we can determine the effect of a transposon insertion on its target gene(s) and prioritiz

151 insertions selectively in the human genome, transposon insertion profiling by next-generation sequen

152 Transposon insertion sequencing (Tn-Seq) is a microbial

153 Here, a transposon insertion sequencing technology called INSeq

154 tion sequencing allows affordable ultra-deep transposon insertion site recovery in high-throughput fo

155 also describe a method for semiquantitative transposon insertion site sequencing (QiSeq).

156 quence reads mapped to millions of potential transposon insertion sites and a large portion of insert

157 In the analysis of these screens, transposon insertion sites are typically identified by t

158 Characterization of transposon insertion sites in the SB-induced tumors iden

159 sensitive and robust system for identifying transposon insertion sites.

160 divergence between maize and teosinte, and a transposon insertion that inactivates Bx12 was under str

161 n the first selection are homozygous for the transposon insertion.

162 Here we used piggyBac (PB) transposon insertional mutagenesis to anticipate resista

163 We show that IM-Fusion accurately identifies transposon insertions and their true target genes.

164 Recurrent transposon insertions could be mapped to genes in the JA

165 Genetic screening using random transposon insertions has been a powerful tool for uncov

166 we identified thousands of putative somatic transposon insertions in neurons from individual Drosoph

167 developed mammary tumors, most of which had transposon insertions in one of two RASGAP genes, neurof

168 Mutant strains harbouring transposon insertions in two such genes, toxR (a toxin r

169 Transposon insertions into genes encoding functions nece

170 Transposon insertions typically resulted in altered expr

171 Recurrent and mutually exclusive transposon insertions were identified in Myh9, Ppp1r12a,

172 k1 and pdk2 were inactivated individually by transposon insertions, and both genes were simultaneousl

173 sion loop of the E protein was intolerant of transposon insertions.

174 be utilized to protect a genomic locus from transposon integration, and enrich for Cas9-mutated cell

175 the HPRT locus appeared to be protected from transposon integration.

176 of Cas9-mediated knockout of HPRT, with zero transposon integrations in HPRT by deep sequencing.

177 non that prevents multiple insertions of the transposon into the same genomic region.

178 The insertion of PB transposons into the genome can disrupt genes or regulat

179 A synthetic mariner transposon is generated by flanking a DNA sequence with

180 Insertional mutagenesis using engineered transposons is a potent forward genetic screening techni

181 erpatient diversification at the plasmid and transposon level was observed, significantly impacting t

182 ls with data from both low- and high-density transposon libraries and accommodates complex designs.

183 t for this feature or rely on a high-density transposon library.

184 gories of excision events mediated by either transposon-like features or RNA-directed heterochromatin

185 itive regulatory elements, led to aggressive transposon-like silencing of canola-biased PUFA synthase

186 Repetitive sequences derived from transposons make up a large fraction of eukaryotic genom

187 liferating elements illustrate a general DNA transposon mechanism that can plausibly account for epis

188 Hydrodynamic renal pelvis injection enables transposon mediated-kidney specific gene transfer in adu

189 omosomal rearrangements, deletion/insertion, transposon-mediated dispersion, or possibly by interspec

190 Transposon-mediated forward genetics screening in mice h

191 ated protein 53 (Trp53) in 54% of tumors and transposon-mediated gain-of-function alterations in B-ce

192 ted with temperature were identified using a transposon-mediated genetic screen.

193 d PB transposon induction will be useful for transposon-mediated genome engineering, insertional muta

194 However, transposon-mediated mutagenesis has only been successful

195 Such transposon-mediated post-transcriptional control of miR1

196 c reorganizations, coinciding with bursts of transposon-mediated repeat expansions, were crucial for

197 we implement CRISPR-Cas9 genome editing and transposon-mediated somatic gene transfer to demonstrate

198 position" sequencing on beads (CPTv2-seq) is transposon-mediated transfer of homogenous populations o

199 SSM circumvents the drawbacks of transposon-mediated transgenesis, where random transgene

200 ility by eliminating cells undergoing active transposon mobility or chromosomal uptake of autonomousl

201 iwi pathway in protecting the genome against transposon mobility, and provide a model system for stud

202 tes oncogenic disease in part by restricting transposon mobility.

203 criptional activation and can translate into transposon mobilization in the progeny.

204 piRNA clusters and transposons, resulting in transposon mobilization.

205 t the suppression is due to insertion of the transposon MRC1 into the ift46-1 allele, causing the exp

206 charomyces cerevisiae genome using saturated transposon mutagenesis coupled to high-throughput sequen

207 e of molecular biology combined with limited transposon mutagenesis data, failed to produce a viable

208 Improved transposon mutagenesis methods revealed a class of quasi

209 We combined high-coverage transposon mutagenesis of influenza virus with a rapid h

210 genetic forces driving TNBC, we performed a transposon mutagenesis screen in a phosphatase and tensi

211 We used it to perform a Sleeping Beauty transposon mutagenesis screen to identify genes that coo

212 We used a genome-wide transposon mutagenesis screen to identify where mutation

213 We used randomly barcoded transposon mutagenesis sequencing (RB-TnSeq) in Pseudomo

214 In this study, we used a transposon mutagenesis strategy based on a two-step Slee

215 Transposon mutagenesis suggested three possible targets:

216 nvestigate ZIKV genetic flexibility, we used transposon mutagenesis to add 15-nucleotide insertions t

217 We used Sleeping Beauty (SB) transposon mutagenesis to identify events that cooperate

218 sed whole-genome fitness analysis, combining transposon mutagenesis with high-throughput sequencing,

219 Using transposon mutagenesis, a gene, designated hmpF, was ide

220 A second drl2 allele, produced by transposon mutagenesis, interacted synergistically with

221 iniBAC induction in Mycobacterium marinum By transposon mutagenesis, we identified that the operon is

222 We analyzed over 1,100 transposon-mutagenized pools of Ba/F3 cells, an IL3-depe

223 xt comparable method (In-seq) for annotating transposon mutant collections by combinatorial pooling a

224 a high throughput technique for analysis of transposon mutant libraries to determine conditional ess

225 We constructed a high-density transposon mutant library of >430,000 unique Tn5 inserti

226 es in bifidobacteria, we created a large Tn5 transposon mutant library of the commensal Bifidobacteri

227 imental Tn-Seq data from Serratia marcescens transposon mutant library used to identify genes that co

228 An ordered transposon mutant library was screened, and 9 genes invo

229 re identified using a randomly DNA bar-coded transposon mutant library.

230 on of selected gene perturbations using PA14 transposon mutants demonstrates the utility of model-dri

231 insertion counts across datasets to identify transposon mutants that differentially affect bacterial

232 ies of CENPB, related to Tc1/mariner and Tc5 transposons, occur in all Schizosaccharomyces species, a

233 These versions might either still be transposons or function in other poorly understood eukar

234 Since DNA transposons preferably insert near genes, this is correl

235 are a recently discovered group of large DNA transposons present in diverse bacterial and archaeal ge

236 Random genomic integration of SB transposons primarily generated loss-of-function events

237 maintain host organism fitness and allow for transposon propagation.

238 Transposon reactivation is an inherent danger in cells t

239 es a delicate balance of gene expression and transposon repression.

240 dog were transfected with the large-size PB transposon resulting in 50+/-5% GFP-expressing cells aft

241 in and transcription from piRNA clusters and transposons, resulting in transposon mobilization.

242 from infected cells and, through endogenous transposon reverse transcriptases, produce virus-derived

243 rescence-activated cell sorting (FACS)-based transposon screen, we find that deletion of lamA, a gene

244 We demonstrate IM-Fusion on two separate transposon screens of 123 mammary tumors and 20 B-cell a

245 We previously reported a transposon sequencing (Tn-seq) system for performing gen

246 A screen using transposon sequencing (Tn-seq) was performed to search f

247 tion-based method to analyse high-throughput transposon sequencing data to determine the role of infe

248 Here, we used transposon-sequencing (Tn-seq) to assess whether there w

249 ram-positive PBP regulatory factors, we used transposon-sequencing (Tn-Seq)(5) to screen for mutation

250 In a transposon-sequencing screen, we serendipitously discove

251 Although a subset of transposons show immediate resilencing, a large number d

252 regulatory RNAs that play a critical role in transposon silencing and gametogenesis.

253 ssing the intermediate into piRNAs, ensuring transposon silencing and male fertility.

254 le for piRNA biogenesis but is essential for transposon silencing and male fertility.

255 are small regulatory RNAs with key roles in transposon silencing and regulation of gametogenesis.

256 n PNLDC1 is a regulator of piRNA biogenesis, transposon silencing and spermatogenesis, protecting the

257 plays critical roles in gene regulation and transposon silencing in Arabidopsis.

258 re transmitted to the germ plasm to initiate transposon silencing in the offspring germ line.

259 Hence, transposon silencing is a major developmental function o

260 equired for piwi-interacting RNA biogenesis, transposon silencing, and spermatogenesis.

261 op has a direct role in piRNA biogenesis and transposon silencing.

262 ion may be a failsafe mechanism to reinforce transposon silencing.

263 ature piRNAs is functionally significant for transposon silencing.

264 onserved function in mobile genetic element (transposons) silencing and maintenance of genome integri

265 lements (LINEs, endogenous retroviruses, DNA transposons, simple repeats, etc.) were significantly in

266 fied as being required for GAS survival in a transposon-site hybridization (TraSH) screen in whole hu

267 application, including also many lncRNAs and transposons specifically induced by stresses.

268 site-directed mutagenesis, and findings from transposon studies and site-directed experiments are pre

269 al pelvis injection, the use of the piggyBac transposon system improved long-term expression.

270 mutagenesis screen using the Sleeping Beauty transposon system in mice with mammary-specific inactiva

271 The piggyBac (PB) transposon system is a highly active non-viral gene deli

272 Our inducible gene expression PiggyBac transposon system should facilitate the study of gene fu

273 nal mutagenesis that are compatible with two transposon systems, PiggyBac and Sleeping Beauty, and gi

274 th mice in which a mutagenic Sleeping Beauty transposon (T2/Onc) was mobilized only in B cells.

275 family is a widespread group of replicative transposons that are notorious for their contribution to

276 In the mariner transposons, the hairpin intermediate is absent and key

277 he tetraodon genome and the dramatic loss of transposons, the length of lncRNA exons remain comparabl

278 form the most comprehensive analysis of TRIM transposons thus far and report that TRIMs are ubiquitou

279 Transposon (Tn) gene-inactivation libraries were generat

280 e porcine gastrointestinal tract utilising a transposon (Tn) mutant library screen.

281 ic basis of A. baumannii serum resistance, a transposon (Tn) sequencing (Tn-seq) approach was used to

282 s for the TnpA transposase of the Tn3-family transposon Tn4430 and used these assays to characterize

283 ducible Cas9 transgene carried on a piggyBac transposon to enable robust and highly efficient Cas9-di

284 f a single-copy inactivating Sleeping Beauty transposon to Pten disruption within the same genome.

285 ops) in the cognate DNA sites, targeting the transposon to these sites and thus facilitating their sp

286 ze circRNAs uncovers a potential new way for transposons to modulate transcriptomic and phenotypic va

287 of fitness effects, from the nearly neutral transposons to prophages, which are actively eliminated

288 tes with epigenetic silencing of such LINE-1 transposons, together with their neighbouring enhancers

289 We show that DNA transposons transfer horizontally more often than retrot

290 nd mutant-beta-catenin using sleeping beauty transposon/transposase leads to hepatocellular carcinoma

291 ally modified using the Sleeping Beauty (SB) transposon/transposase system to express a CD19-specific

292 We also show that Hop GLKD-induced transposon up-regulation is due to inefficient piRNA bio

293 guidance on the use of different engineered transposon variants for constitutive or tissue-specific

294 he latest generation of Sleeping Beauty (SB) transposon vectors fulfills these requirements, and may

295 ttes that can be applied in conjunction with transposon vectors to mutagenize genes, and highlight ve

296 gulation to in vitro evolution yielded an SB transposon version with optimized substrate recognition

297 tumors upon activation of a mutagenic T2Onc2 transposon via expression of a transposase driven by the

298 the respective nuclear systems that regulate transposons via small RNA molecules both for paramutatio

299 ome and dramatic genomic variation driven by transposons, we hypothesize that transposons in maize ma

300 ctly associated with expression of genes and transposons within the context of either specific tissue