ライフサイエンスコーパス: transposon

1 nes), H3K27 (silent genes), and H3K9 (silent transposons).

2 s of why and how this strategy would benefit transposons.

3 RNA-dependent integration of the respective transposons.

4 tor complex to aid in genome defense against transposons.

5 ents (MGEs), including viruses, plasmids and transposons.

6 s that govern the molecular domestication of transposons.

7 osition of repressive histone marks at these transposons.

8 ude significant innovations with a number of transposons.

9 o regulate the expression of CG/CHG-depleted transposons.

10 plants regulates the expression of genes and transposons.

11 spermatogenesis, but not oogenesis, activate transposons.

12 sposase genes of the Bot1 (Brassica oleracea transposon 1) CACTA transposable elements in Brassica ol

13 A-guided transposition by bacterial Tn7-like transposons(6,7).

14 Domestication of a transposon (a DNA sequence that can change its position

15 The asymmetric distribution of transposons across the two homoeologous subgenomes prove

16 c compensation safeguards the genome against transposon activation, indirectly affecting gene regulat

17 are privatized to be recognized only by the transposon-adapted system via sequence specialization, m

18 Natural variation and transposon alleles of drl2 enhance drl1 mutant phenotype

19 Transposon and CRISPR screens in vivo provide complement

20 ells generated with the Sleeping Beauty (SB) transposon and differentiated into cytokine-induced kill

21 eening system where the Sleeping Beauty (SB) transposon and single guide RNA cassette are nested in a

22 ve 5' cis-regulatory enhancer within an MITE transposon and the enhanced allelic expression of CCD4b

23 two transposable elements (TEs): the T1 DNA transposon and the TCN12 retrotransposon.

24 t piRNAs made in animals do not pair well to transposons and currently the functions and targets of p

25 The HUSH complex represses retroviruses, transposons and genes to maintain the integrity of verte

26 of non-CG methylation massively up-regulated transposons and genes.

27 netic and post-transcriptional regulation of transposons and genes.

28 DNA residing between neighbouring Pack-TYPE transposons and its subsequent mobilization.

29 it specifically associates with siRNAs from transposons and newly evolved repetitive elements that a

30 As (piRNAs) engage Piwi proteins to suppress transposons and nonself nucleic acids and maintain genom

31 As play a critical role in the regulation of transposons and other germline genes.

32 ontrast, we observed distinctive features of transposons and other repetitive sequences in Marchantia

33 element (MITE) that contains two additional transposons and produces two mis-spliced transcript vari

34 NAs (piRNAs) engage PIWI proteins to silence transposons and promote germ cell development in animals

35 be very similar with a very high content in transposons and protein-coding genes, extensive duplicat

36 Silenced transposons and repeats did not accumulate around centro

37 helps improve the annotation for various DNA transposons and retrotransposons, such as miniature inve

38 he sequences of currently inactive Pack-TYPE transposons and the acquisition of chromosomal DNA has n

39 ide new insights into the differentiation of transposons and their role in the asymmetric evolution o

40 sed immunity to rapidly evolving viruses and transposons and to regulate conserved host genes.

41 ancy with symmetric methylation in silencing transposons and to regulate the expression of CG/CHG-dep

42 by short RNA sequences, defend cells against transposons and viruses.

43 , including adenovirus, lentivirus, PiggyBac transposon, and Sleeping Beauty transposon, in aggregate

44 g candidate insertion sequences, conjugative transposons, and prophage elements.

45 in the formation of in vivo novel Pack-TYPE transposons, and thus the possible mechanism of gene shu

46 e DNA methylation patterns of some genes and transposons are modified in fpa plants, including the la

47 Although DNA transposons are more efficient with large transgenes, ra

48 at when subject to increased mutation rates, transposons are then more rapidly inactivated.

49 nes and LTR retrotransposons, but not to DNA transposons, are dependent on the ADARs and ERI-6/7.

50 How CRISPR- and transposon-associated machineries collaborate during DNA

51 677 in Escherichia coli requires CRISPR- and transposon-associated molecular machineries, including a

52 is highlights advantages of CRISPRi-seq over transposon-based genetic screens, as all genes, includin

53 the tobacco retrotransposon Tnt1 to create a transposon-based insertion mutant population in B. dista

54 Transposon-based introduction of InDels via the method T

55 Here we introduce a transposon-based mutagenesis approach (TRIAD) to generat

56 We reported earlier that the Himar1 transposon-based random mutagenesis is a valuable tool i

57 Transposon-based strategies provide a powerful and unbia

58 rticular system used may insert not only the transposon but also the entire donor plasmid.

59 RNAs (piRNAs) guide PIWI proteins to silence transposons but, after birth, most post-pubertal pachyte

60 wide integration of the Sleeping Beauty (SB) transposon by combining it with components of the CRISPR

61 ere colocalized with massively amplified DTC transposons (CACTA family) in euchromatin, which may sil

62 yeast binding location data set obtained by transposon calling cards and compare it to recent ChIP-e

63 Transposons can hijack the host developmental process to

64 describe an entirely new mechanism by which transposons can promote genomic alterations at exception

65 is of BQ11 identified acquisition of a novel transposon carrying the penicillin binding protein Pbp2c

66 that combines an inducible promoter into the transposon cassette.

67 Conversely, most transposon-containing transcripts are chimeric, which su

68 s are correlated with 5mC MTase genotype and transposon content.

69 ated by the inclusion of extensive repeat or transposon data in our genome viewer.

70 As REC8 enrichment is greatest in transposon-dense heterochromatin, we repeated ChIP-seq i

71 SFiNX mutant flies are sterile and exhibit transposon derepression because piRNA-loaded Piwi is una

72 exhibited repression of piRNA metabolism and transposon derepression.

73 Transposon directed insertion-site sequencing (TraDIS) i

74 ion, we developed a new version of "TraDIS" (transposon directed insertion-site sequencing) that we t

75 We applied a transposon-directed insertion site sequencing (TraDIS) s

76 hed in 2009: transposon sequencing (Tn-Seq), transposon-directed insertion site sequencing (TraDIS),

77 Here, using a highly virulent GBS strain and transposon-directed insertion site sequencing (TraDIS),

78 with a 'multi-omics' approach consisting of transposon-directed insertion site sequencing (TraDIS),

79 C-SCID mice to identify virulence loci using transposon-directed insertion site sequencing (TraDIS).

80 We therefore used transposon-directed insertion site sequencing to identif

81 Zhu and colleagues have utilized a transposon-directed insertion-site sequencing (TraDIS) p

82 Using transposon-directed insertion-site sequencing (TraDIS),

83 ed hypersaturated transposon mutagenesis and transposon-directed insertion-site sequencing to determi

84 odes, or mutants carrying both wild-type and transposon disrupted gene copies-highlighting potential

85 lindromic repeats (CRISPR)-Cas9 system and a transposon-disrupted allele.

86 Transposon disruption of genes required for LPS O-polysa

87 ex reveals that the terminal single-stranded transposon DNA adopts unusual A-form and distorted B-for

88 ctor interacts with the terminal base of the transposon DNA, apparently to position the P element DNA

89 genome make Hydra attractive for studies of transposon-driven genome expansions and speciation.

90 ich is known to play a role in repression of transposon elements and is therefore thought to be impor

91 the length expansion of introns inserted by transposon elements.

92 described a system for exploiting a Tn7-type transposon-encoded CRISPR-Cas system to make RNA-guided,

93 Now, two studies show that transposon-encoded variants can guide sequence-specific

94 changes control the path of DNA flanking the transposon end and the generation of DNA-binding sites.

95 transposase to allow the capture of a second transposon end and to integrate a circular intermediate.

96 n array of N-terminal domains binds a single transposon end while the catalytic domain moves to accom

97 centered on the subset of genes containing a transposon end.

98 form a separate dimer that contacts only one transposon end.

99 ween first and second strand cleavage at the transposon end.

100 ain of the transposase targets the enzyme to transposon-end remnants and that this is capable of regu

101 ned structures that capture RAG engaged with transposon ends and U-shaped target DNA prior to integra

102 to the terminal strand transfer complex with transposon ends covalently joined to target DNA, at reso

103 erred integration of single spacers over two transposon ends.

104 y, biofilm and cell wall regulator 1 (Bcr1), transposon enhancement control 1 (Tec1), and non-dityros

105 synteny, they have diversified by subgenomic transposon exchanges that equilibrate genome size, evolu

106 reaks (DSBs), to induce a single DSB by Mos1 transposon excision at defined chromosomal locations in

107 Somatic transposon expression in neural tissue is commonly consi

108 uencing of the same inbred fly strain to map transposon expression in the Drosophila midbrain and fou

109 isingly, had no measurable effect on gene or transposon expression or liver homeostasis.

110 on in the Drosophila midbrain and found that transposon expression patterns are highly stereotyped.

111 We identified a CACTA-like transposon (FaEnSpm-2) insertion in the MYB10-2 promoter

112 ovel Pack-TYPE elements related to the CACTA transposon family, over several plant generations.

113 d, telomere-restricted satellite DNA and DNA transposon fragments occupy its terminal ends.

114 version of our previously reported Tn7-like transposon from Vibrio cholerae, which uses a Type I-F C

115 c zebrafish strains made with the gene-break transposon (GBT) protein trap to simultaneously report a

116 ysical link in the form of abundant chimeric transposon-gene mRNAs.

117 dual-strand piRNA clusters, heterochromatic transposon graveyards that are transcribed from both gen

118 f this paradigm, in which bacterial Tn7-like transposons have co-opted nuclease-deficient CRISPR-Cas

119 Transposons have had a pivotal role in genome evolution(

120 ates efficient Cas9 targeting of the mariner transposon Hsmar1.

121 Transposons impart dynamism to the genomes they inhabit

122 elective pressure drove amplification of the transposon in a tandem array and led to a corresponding

123 y-sequencing approach, we identified a gypsy-transposon in MYB10 that truncates the protein and knock

124 PIWI-interacting RNAs (piRNAs) silence transposons in Drosophila ovaries, ensuring female ferti

125 histone mark, H3K9me2, that mainly silences transposons in heterochromatic regions.

126 erogattii is RNAi-deficient and lacks active transposons in its genome.

127 e potential role of horizontally transferred transposons in promoting adaptation to antibiotics.

128 required for co-transcriptional silencing of transposons in somatic and germline cells of the ovary.

129 The exRNAs of AD-activated genes and transposons in the brain exhibited a concordant trend of

130 the CMTs silence long terminal repeat (LTR) transposons in the distal chromatin that are younger tha

131 piRNAs silence transposons in the germ line of most animals, whereas so

132 lants and in animals also targets subsets of transposons in this early-branching land plant lineage.

133 st, as they control mobile genetic elements (transposons) in germ cells and thus hold great potential

134 us, PiggyBac transposon, and Sleeping Beauty transposon, in aggregate >108,000 vector permutations.

135 A transposon-induced mouse model identifies several novel

136 ution in host genomes using multiple de novo transposon insertion datasets in both plants and animals

137 s well as rrp4 mutants with Piggy Bac (PBac) transposon insertion in the 3'UTR and RNAi flies, we det

138 nut1 is caused by an Ac transposon insertion into the coding region of a unique

139 of ZmMADS69 causes early flowering, while a transposon insertion mutant of ZmMADS69 exhibits delayed

140 The method, called transformation transposon insertion mutant sequencing (TFNseq), employs

141 his limitation, we developed a procedure for transposon insertion mutant sequencing that includes ess

142 arrayed library of over 13,000 K. pneumoniae transposon insertion mutants in the lungs of wild-type (

143 a common mechanism exists, we have analyzed transposon insertion mutants resulting in independent lo

144 Using a genome-wide transposon insertion screen, we identified an operon req

145 Here, we tested whether transposon insertion sequencing (INSeq) could be used to

146 oson-mediated mutagenesis in a method termed transposon insertion sequencing (TIS).

147 ADP1 single-gene deletion strains and a new transposon insertion sequencing (Tn-Seq) dataset that we

148 We used transposon insertion sequencing (Tn-Seq) to define essen

149 Here we use transposon insertion sequencing to identify A. baumannii

150 ance of tRNAs in the absence of thiI Through transposon insertion sequencing, we identified additiona

151 ost of additional sequencing to characterize transposon insertion sites.

152 en 10 years since the introduction of modern transposon-insertion sequencing (TIS) methods, which com

153 In a transposon-insertion sequencing screen to identify mutan

154 Here, we used transposon insertional mutagenesis and deep sequencing (

155 Compared with creating new transposon insertions in each round, this method takes l

156 aDIS experiments that predicts the impact of transposon insertions on nearby genes.

157 l variants (SVs), including thousands of new transposon insertions, and of highly polymorphic and med

158 a single transgenic line harboring five Tnt1 transposon insertions, we generated a near-saturated ins

159 ve about 50 million years ago when an Hsmar1 transposon integrated downstream of a SET-domain methyla

160 hanisms, and potential role of CRISPR-Cas in transposon integration and plasmid maintenance.

161 Enrichment of transposon integrations was dependent on the sgRNA, and

162 several acquired traits including plasmids, transposons, integrative conjugative elements (ICEs), pa

163 We identified 264 genes where transposons introduce cryptic splice sites into the nasc

164 how the germline gains protection from a new transposon invasion.

165 Every detected transposon is resident in at least one cellular gene wit

166 The piggyBac DNA transposon is used widely in genome engineering applicat

167 ch suggests that somatic expression of these transposons is largely driven by cellular genes.

168 urate annotation of the repeatome, including transposons, is critical for deepening our understanding

169 Unlike other transposons, its excision site can be precisely repaired

170 ii) casposons, (iii) insertion sequence-like transposons, (iv) integrative-conjugative elements and (

171 inverted repeat (TIR) transposons, short TIR transposons known as miniature inverted transposable ele

172 In this study, we screened a high-density transposon library for mutants that affect the susceptib

173 n this study, we use a high-density S. Typhi transposon library in hu-SRC-SCID mice to identify virul

174 tain genes that regulate cspA, we screened a transposon library that exhibited reduced cspA expressio

175 rtebrate immune systems could shed dangerous transposon-like propensities, and instead, support the o

176 h establishing repressive heterochromatin at transposon loci.

177 In comparison with retrotransposons, DNA transposons make up a smaller proportion of most plant g

178 led by a single build of a barcoded in vitro transposon-mediated disruption library.

179 Unlike transposon-mediated domain insertion that was severely b

180 Transcriptomics confirms transposon-mediated effects on expression of these genes

181 Using a transposon-mediated gene-activation screen in human cell

182 Through benchmarking to MuA transposon-mediated library generation on four ion chann

183 by microinjection of human ERBB4 mRNA and by transposon-mediated muscle-specific ERBB4 overexpression

184 DNA sequencing was combined with advances in transposon-mediated mutagenesis in a method termed trans

185 not exhibit changes in DSB formation or Tc1 transposon mobility upon temperature increases.

186 ng into polymorphic transposons, rather than transposon mobilization, may contribute to functional di

187 erm cell genomes from the harmful effects of transposon mobilization.

188 essing canonical transcription of individual transposon mRNAs, Mael helps Rhi drive non-canonical tra

189 We applied hypersaturated transposon mutagenesis and transposon-directed insertion

190 es can be identified on a genome-scale using transposon mutagenesis approaches; however, variability

191 simple and rapid method to analyse multiple transposon mutagenesis data sets allowing this technolog

192 ors to drug resistance and demonstrated that transposon mutagenesis drives the development of 5-fluor

193 model agrees well with genome-scale in vivo transposon mutagenesis experiments, showing a Matthews c

194 ional mutant mice by whole-exome sequencing, transposon mutagenesis forward genetic screening, and tr

195 Using two genome-wide transposon mutagenesis screens, we identified 69 GAS gen

196 bserved for biotin biosynthesis genes during transposon mutagenesis studies in mouse infection models

197 This property enabled a transposon mutagenesis study and growth studies to confi

198 on of ER-PM contact sites we used saturating transposon mutagenesis to identify synthetic lethal muta

199 Here, we employ genome-wide transposon mutagenesis to identify the genes that suppor

200 Using transposon mutagenesis we identified genes that were ess

201 ing (TIS) methods, which combine genome-wide transposon mutagenesis with high-throughput sequencing t

202 Using Sleeping Beauty (SB) transposon mutagenesis, we identified novel genetic driv

203 mic features based on the in vitro effect of transposon mutagenesis.

204 A high-density transposon mutagenized library was challenged with a pan

205 sis that we applied here with the Z. mobilis transposon mutant dataset, could easily be utilized to i

206 analysis of a published dataset from pooled transposon mutant fitness experiments as an approach for

207 Deep sequencing of transposon mutant libraries (or TnSeq) is a powerful met

208 acute infections were dissected by passaging transposon mutant libraries through mouse lungs (acute)

209 e fitness profiling with a randomly barcoded transposon mutant library that was grown on the leaf sur

210 on, we profiled a sequence-defined S. aureus transposon mutant library, identifying mutants with atte

211 -of-function screening of an M. tuberculosis transposon mutant library, we identified 16 genes that c

212 ere we have generated saturating genome-wide transposon mutant pools in a strain of MAH (MAC109) and

213 e profiling of a Pseudomonas aeruginosa AlgP transposon mutant provided unique insights into the mode

214 During an unbiased transposon mutant screen, we observed that disruption of

215 terial fitness in high-throughput, culturing transposon-mutant libraries in pools can mask community

216 n of mutants generated from a C. perfringens transposon-mutant library, here we identified an immunor

217 Here, we use functional transposon-mutant screening in Bartonella henselae to id

218 We screened Acinetobacter baumannii transposon mutants and identified a number of mutants wi

219 screens using a minilibrary of K. pneumoniae transposon mutants identified putative functions for a s

220 a collection of Mycobacterium marinum ESX-1 transposon mutants in a macrophage infection model and s

221 Using precision genome editing, transposon mutants, and gene complementation, we empiric

222 Using a set of hpn transposon mutants, we demonstrate that both reduced hop

223 nation of CG methylation did not dysregulate transposons or genes.

224 from engineered constructs such as plasmids, transposons, or other transgenes underlies many function

225 re often pockmarked with insertion elements, transposons, prophages and integrases - paying testament

226 precursors without generating mRNAs encoding transposon proteins.

227 xcising from an IS26-flanked pseudo-compound transposon, PTn6762, which harbours bla(TEM-1B).

228 ced by alternative splicing into polymorphic transposons, rather than transposon mobilization, may co

229 i has regional centromeres that contain only transposon relics.

230 epression of deleterious transcripts such as transposons, repetitive elements, and pseudogenes.

231 s provides innate immunity against virus and transposon replication(1-4).

232 in post-transcriptional gene regulation and transposon repression.

233 ctions in maize, we have mined the UniformMu transposon resource to identify insertional mutations in

234 e specificity and efficacy of piRNA-mediated transposon restriction, and provide a substrate for puri

235 ococcus neoformans, CG methylation occurs in transposon-rich repeats and requires the DNA methyltrans

236 o targets of RNA interference, as well as to transposon RNAs.

237 egrating recombination activating gene (RAG) transposon(s) in a TCR-like gene would result in greater

238 Using a high-density transposon screen in the enteric pathogen Citrobacter ro

239 Here, we used a transposon screen to identify a membrane protein complex

240 Here, we performed a genome-wide barcoded transposon screen to identify essential and CCM-related

241 Through a genome-wide transposon screen, we discovered that a deletion in mneA

242 enes exclusively produce chimeric mRNAs with transposon sequence; on average, 11.6% of the mRNAs prod

243 In this study, we used transposon sequencing (TN-seq) to understand how the res

244 Four TIS variations were published in 2009: transposon sequencing (Tn-Seq), transposon-directed inse

245 of wild-type (WT) and neutropenic mice using transposon sequencing (Tn-seq).

246 Here, transposon sequencing analysis along the colonization tr

247 Nguyen et al. used transposon sequencing analysis and competitive colonizat

248 Transposon sequencing has been employed to define the co

249 Here, we use transposon sequencing in conjunction with fluorescence r

250 In this study, we utilized transposon sequencing to comprehensively identify genes

251 Using transposon sequencing, we discovered that 33% of the A.

252 Using transposon sequencing, we identify Legionella pneumophil

253 ne under each condition was then assessed by transposon-sequencing.

254 otransposons, terminal inverted repeat (TIR) transposons, short TIR transposons known as miniature in

255 onucleotidyltransferase that is required for transposon silencing and RNA interference in Caenorhabdi

256 ate numerous biological functions, including transposon silencing, development, reproduction, and str

257 piRNAs function in transposon silencing, epigenetic regulation, and germlin

258 athway that can play roles in viral defense, transposon silencing, heterochromatin formation and post

259 class 22G-RNAs are also broadly required for transposon silencing, whereas piRNAs are largely dispens

260 suggesting an ancestral role of this mark in transposon silencing.

261 tes, a process that is critical for germline transposon silencing.

262 t step in understanding a critical aspect of transposon silencing; namely, how RNAs are chosen to ins

263 Using random barcode transposon-site sequencing with an analysis pipeline tha

264 We present self-reporting transposons (SRTs) and use them in single-cell calling c

265 -1B) type' prophages exhibited a classic Tn2 transposon structure with 100% sequence identity, wherea

266 preferentially locate within young SINE/LINE transposons, suggesting that when subject to increased m

267 Depletion of strong nucleosomes in older transposons suggests frequent positioning changes during

268 bserved, but abundant circular DNA indicated transposon "suicide" by auto-integration within the VLP.

269 were generated using a Sleeping Beauty (SB) transposon system and extent of lesions over a 12-month

270 genic plants overexpressing FPA By contrast, transposons targeted by IBM2 and localized outside intro

271 theless, Cas9 is an attractive candidate for transposon-targeting because it has a high affinity and

272 rentially to virus-derived piRNAs but not to transposon-targeting piRNAs.

273 Here, using a combination of CRISPR-Cas9 and transposon technologies, we show that pigs with all PERV

274 s with transcription and is reduced in COPIA transposons that reactivate expression in kyp suvh5 suvh

275 reatly enhanced by technological advances in transposon (Tn) mutagenesis.

276 We screened a transposon (Tn) mutant library in the cop- background an

277 n in vivo Thus, we screened a low-complexity transposon (Tn) mutant library to identify novel genes i

278 ed with a strictly conserved recombinase and transposon Tn3 family but with a difference: the 'bla(TE

279 Transposon Tn7 is notable for the control it exercises o

280 Erm(51) is inserted in a transposon (TnErm51) that is associated with a putative

281 roles for H3K27me2 in silencing euchromatic transposons to maintain genome stability and in modifyin

282 n euchromatin, which may silence euchromatic transposons to maintain genome stability during polyploi

283 atogenesis provides a unique opportunity for transposons to mobilize and modify genomes, driving evol

284 Here, we describe PiggyBac transposon tools and mouse models for recessive screenin

285 direct the protein Piwi to silence germline transposon transcription.

286 argeting of nuclear PIWI proteins to nascent transposon transcripts, yet the subsequent molecular eve

287 We used the Sleeping Beauty (SB) transposon/transposase system to identify activated onco

288 omplex encoded by the Vibrio cholerae Tn6677 transposon using cryo-electron microscopy, revealing the

289 t palindromic repeats-Cas9 (CRISPR-Cas9) and transposon vectors to disrupt Trp53 and overexpress C-My

290 nd is targeted to active genes and telomeric transposons via binding of the PWWP domain of JASPer to

291 I-2 and SMEDWI-3 cooperate to degrade active transposons via the ping-pong cycle.

292 y, the vast majority of BonnMu and UniformMu transposons was inserted near the transcription start si

293 lowering plants, a significant proportion of transposons were marked by H3K27me3, which is otherwise

294 Integrated transgene-containing transposons were quantified after liver repopulation via

295 strain from hospital A carried a Tn1331-like transposon, whereas none of the hospital B isolates did.

296 n insertion profiling approaches rely on DNA transposons, which are constrained by sequence bias.

297 expression depending on the activity of the transposons, which is largely reflected by the activity

298 with high resolution, include an active DNA transposon, widely affect functional features, and overl

299 the 'IntI1 type' co-occurred with the TnAs2 transposon with only 84% sequence identity.

300 sase catalyzes the mobility of P element DNA transposons within the Drosophila genome.