ライフサイエンスコーパス: SINE

1 SINE compounds selinexor (KPT-330) and KPT-185, leptomyc

2 SINE DNA is heavily methylated and this was thought to s

3 SINE is a class of retrotransposon transcribed by RNA po

4 SINE loci are generally transcriptionally repressed in s

5 SINE treatment resulted in nuclear retention of snail re

6 SINEs (KPT-185, KPT-127, KPT-205, and KPT-227) inhibited

7 SINEs and LINEs, which have been considered "junk DNA",

8 SINEs are associated with gene pair rearrangement, while

9 SINEs are more abundant in GC-rich DNA, but the regional

10 SINEs are retrotransposons that have enjoyed remarkable

11 SINEs, short interspersed repeated DNA elements, undergo

12 infection revealed transcription from 28 270 SINE loci, with approximately 50% of active SINE element

13 b2-1 from Chironomus thummi contains a 444nt SINE (CTRT1).

14 Platy-1, a SINE, appears to have originated from an Alu element, an

15 lyzed at the endogenous RdDM target AtSN1 (a SINE-like retroelement) in suvh2 and suvh9 single as wel

16 ation to temperate climates in Drosophila, a SINE element is associated with the domestication of sma

17 number and structural signals to identify a SINE element.

18 n when one concludes that the existence of a SINE at a specific locus in multiple individuals is indi

19 associated with an antisense insertion of a SINE-VNTR-Alu (SVA)-type retrotransposon within an intro

20 on identified in the remaining proband was a SINE VNTR Alu (SVA) retroposon insertion in intron 1, wh

21 blished that the disease cosegregates with a SINE insertion in exon 4 of the canine STK38L/NDR2 gene.

22 acking SINE binding site) markedly abrogated SINE activity highlighting an XPO1 and FBXL5 mediated me

23 SINE loci, with approximately 50% of active SINE elements residing within annotated RNA Polymerase I

24 thereby identifying transcriptionally active SINE loci.

25 It also suggests that all SINE RNAs may bind a similar set of cellular proteins.

26 romosomal rearrangements between non-allelic SINEs at distinct loci.

27 the left monomer of the primate-specific Alu SINE family via ASR and CAS in conjunction with major pr

28 interspersed repetitive DNA, such as the Alu SINE sequence, appear to have evolved by the serial repl

29 p is applied to other insertions such as Alu SINEs, it will expand the catalog of genomic variants ev

30 The primate-specific Alu SINEs, as well as the more ancient mammalian-wide inters

31 We found Alu (SINE) elements at the breakpoints in the substrates and

32 lement-variable number of tandem repeat-Alu (SINE-VNTR-Alu), subfamily-E retrotransposon (SVA-E) inse

33 e the age distribution closely follows Alus (SINEs).

34 ddition to retrotransposed RNAs [L1, Alu and SINE-VNTR-Alu (SVA)], L1-RNPs are enriched with cellular

35 The last L1 and SINE insertions date to ~5.3MYA and 4MYA, respectively.

36 nonical GT-AG splice junctions with LINE and SINE elements forming the most RE splice junctions in th

37 u represent the most prolific human LINE and SINE families, respectively.

38 ar share their entire repertoire of LINE and SINE retrotransposons and that Eh_SINE3/Ed_SINE1 origina

39 ication of two novel subfamilies of LINE and SINE retrotransposons in E. dispar and provide evidence

40 vide evidence for how the different LINE and SINE subfamilies evolved in these species.

41 , including Long-Terminal-Repeats (LTRs) and SINE-VNTR-Alus (SVAs), that significantly affect gene ex

42 INE1s (L1s) are active, moving their own and SINE sequences into new genomic locations and occasional

43 e well documented for their role in tRNA and SINE transcription in eukaryotic cells.

44 s which are associated with Alu elements and SINEs (short interspersed elements) and which have been

45 LINEs and SINEs are retrotransposons; that is, they transpose via

46 ng body of evidence indicates that LINEs and SINEs function to regulate gene expression by affecting

47 We discuss how LINEs and SINEs have expanded in eukaryotic genomes and contribute

48 g and short interspersed elements (LINEs and SINEs) are retroelements that make up almost half of the

49 ous non-LTR retrotransposons, i.e. LINEs and SINEs, and with few exceptions there is a sole active LI

50 sidered here are group II introns, LINEs and SINEs, whereas the EP elements considered are the Ty and

51 uding CA repeats, non-CA tandem repeats, and SINEs.

52 Applying SINE-seq to monitor murine B2 SINE expression during a g

53 urrently active in the human genome, such as SINE-VNTR-Alu (SVA) and long interspersed nuclear elemen

54 f its own RNA in cis and other RNAs, such as SINE/variable-number tandem-repeat (VNTR)/Alu (SVA) elem

55 vidual, highly conserved, elements of the B1 SINE family were identified from the GenBank nucleotide

56 Mouse B1 and B2 SINE RNAs stimulate reporter gene expression in mouse ce

57 hyperthermic shock, the amounts of B1 and B2 SINE RNAs transiently increase in all tissues by as much

58 e polycomb protein EZH2 and RNA made from B2 SINE retrotransposons controls stress-responsive genes i

59 Applying SINE-seq to monitor murine B2 SINE expression during a gammaherpesvirus infection reve

60 The high frequency of bimorphic SINE insertions in the dog population is predicted to pr

61 on appears to have preceded the loss of both SINE and L1 activity rather than to have filled an empty

62 mechanisms during retrotransposition of both SINEs and non-LTR retrotransposons and thus the distinct

63 n and signaling events that are modulated by SINE ncRNAs, particularly during gammaherpesvirus infect

64 Either certain SINEs are more successful genomic parasites or positive

65 t Eh_SINE3/Ed_SINE1 originated as a chimeric SINE from Eh/Ed_SINE2 and Eh_SINE1/Ed_SINE3.

66 mammals, and 80% identical to the coelacanth SINE, contains a 31-amino-acid-residue alternatively spl

67 banding patterns, reflecting a more complex SINE structure than has been previously reported.

68 ive element named after its main components, SINE, VNTR and Alu.

69 ort a very recent transposition of the CTRT1 SINE into one of at least two already diverged ct-13 glo

70 ectively profiles RNA Polymerase III-derived SINE RNA, thereby identifying transcriptionally active S

71 et site preference with previously described SINEs, BoS elements have several unusual features.

72 When different SINE RNAs were substituted for the BC1 ID sequence, the

73 egulate the transcription of three different SINEs (Alu, B2 and ID) by constructing chimeric construc

74 lies, BoS represents one of the most diverse SINE families described to date.

75 on of L1 and the Short Interspersed Element (SINE) Alu.

76 dentified walnut short interspersed element (SINE) and terminal-repeat retrotransposon in miniature (

77 ssion of the Bm1 short interspersed element (SINE) family in cultured silk worm cells is examined.

78 most successful short interspersed element (SINE) in primates and CpG dinucleotides make up about 20

79 e shortest known short interspersed element (SINE) in primates, and harbors features characteristic o

80 are members of a short interspersed element (SINE) repetitive DNA family within the rodent genome.

81 ransfer RNAs and short interspersed element (SINE) retrotransposons, indicating that these factors ma

82 nrichment of Alu short interspersed element (SINE) sequences near or within the junction.

83 nd a polymorphic short interspersed element (SINE) were identified.

84 nscribed 0.55 kb short interspersed element (SINE)-like element previously identified as IE or ehapt2

85 petitive short interspersed nuclear element (SINE) analysis in dark-adapted, nondamaged control (dark

86 INE) and short interspersed nuclear element (SINE) insertions in six genes in 95 cultivated and wild

87 nce of a short interspersed nuclear element (SINE) sequence just proximal to long arrays of telomere-

88 e human short interspersed repeated element (SINE), Alu, amplifies through a poorly understood RNA-me

89 known short interspersed repetitive element (SINE) retroposon family that was active in the Sarcopter

90 her short interspersed transposable element (SINE or Alu elements), long terminal repeat (LTR), long

91 Two human elements SINE-R.C2 and HS307 were the furthest removed from the H

92 in both short interspersed nuclear elements (SINE) and long interspersed nuclear elements (LINE), but

93 otide polymorphisms and repetitive elements (SINE, LINE, etc.) have also been incorporated.

94 Short interspersed DNA elements (SINEs) amplify by retroposition either by (i) successive

95 Short interspersed elements (SINEs) and long interspersed elements (LINEs) are transp

96 Short INterspersed Elements (SINEs) are non-autonomous retrotransposons, usually betw

97 Short interspersed elements (SINEs) are nonautonomous non-LTR retrotransposons that p

98 mplification of short interspersed elements (SINEs) for species-specific detection and quantitation o

99 ID elements are short interspersed elements (SINEs) found in high copy number in many rodent genomes.

100 oup of related, short interspersed elements (SINEs) found in primates.

101 ghly repetitive short interspersed elements (SINEs) have been tolerated throughout evolution and why

102 ell as B and ID short interspersed elements (SINEs) in mice that undoubtedly influence many developme

103 ominant type of short interspersed elements (SINEs) in the human genome.

104 unctionality of short interspersed elements (SINEs) is investigated by assaying the effects of physio

105 In addition to short interspersed elements (SINEs) mobilized by L1, we found several families of SIN

106 presentation of short interspersed elements (SINEs) probably linked to hypoxia tolerance, degeneratio

107 ranscribed from short interspersed elements (SINEs), is a transacting transcriptional repressor durin

108 categorized as short interspersed elements (SINEs), long interspersed elements (LINEs), and long ter

109 nts (LINEs) and short interspersed elements (SINEs).

110 from the high, copy, short mobile elements (SINEs) interact with proteins to form RNA-protein (RNP)

111 short or long interspersed nuclear elements (SINEs or LINEs), the most common transposable elements a

112 and B1 short interspersed nuclear elements (SINEs) are inactive in a group of South American rodents

113 Short interspersed nuclear elements (SINEs) are retrotransposons evolutionarily derived from

114 Short Interspersed Nuclear Elements (SINEs) are transposable elements (TEs) that amplify thro

115 ses of short, interspersed nuclear elements (SINEs) B1 and B2, both strands of near-centromeric satel

116 almonid short interspersed nuclear elements (SINEs) detected DNA fingerprint patterns in 14 species o

117 airs of short interspersed nuclear elements (SINEs) sequence than biallelically expressed genes.

118 namely short interspersed nuclear elements (SINEs), long interspersed nuclear elements (LINEs) and t

119 o fewer short interspersed nuclear elements (SINEs), long interspersed nuclear elements (LINEs), and

120 Short interspersed nuclear elements (SINEs), such as Alu, spread by retrotransposition, which

121 (LINEs)/short interspersed nuclear elements (SINEs).

122 nverted short interspersed nuclear elements (SINEs).

123 erse short interspersed repetitive elements (SINEs) and processed pseudogenes.

124 ding short interspersed repetitive elements (SINEs) are discussed.

125 some short interspersed repetitive elements (SINEs), and of an insertion sequence (InsIpCHSD) found i

126 inct short interspersed repetitive elements (SINEs).

127 of short interspersed transposable elements (SINEs) and an intragenic conserved inverted repeat that

128 ck short interspersed transposable elements (SINEs).

129 ion with other types of transposed elements (SINEs, LINEs, LTRs), even unannotated sequence to form p

130 Short interspersed repetitive elements - SINEs - are being championed as near-perfect phylogeneti

131 activity is a general property of eucaryotic SINEs.

132 Most eukaryotic SINEs are ancestrally related to tRNA genes, although th

133 During primate evolution, SINE accumulation in imprinted regions occurred at a dec

134 In a first hybridization excess SINE elements were hybridized to a driver (canine cerebe

135 1) by Selective Inhibitor of Nuclear Export (SINE) compounds results in reversal of EMT in snail-tran

136 able selective inhibitors of nuclear export (SINE) that irreversibly bind to CRM1 and block the funct

137 Selective inhibitors of nuclear export (SINEs) bind to CRM-1 to irreversibly inhibit its ability

138 cule selective inhibitors of nuclear export (SINEs) were designed that specifically inhibit XPO1.

139 re enriched for LINE repeats, but have fewer SINE, DNA, and simple repeats than the rest of the genom

140 The first SINE element showed high levels of sequence similarity t

141 DNA is the first SINE isolated from zebrafish (Danio rerio) exhibiting al

142 common 3' sequence with LINEs, and the first SINE-like elements that have been associated with the R4

143 that are depleted of LINE1 and enriched for SINE elements, predicted to impair XIST spreading.

144 We have identified two hot spots for SINE insertion within mys-9 and at each hot spot have fo

145 re depleted of LINE repeats but enriched for SINEs and simple repeats.

146 Genes with upstream regions enriched for SINEs are prone to be reactivated.

147 In contrast to generic SINE elements, DANA appears to have been assembled by in

148 transactivation potential, and that GROUCHO-SINE OCULIS (SO) interactions provide another mechanism

149 et al. demonstrate that Alu RNA from a human SINE represses RNA polymerase II transcription during he

150 in brain and testis from one locus of the ID SINE family, exists as a discrete RNP complex.

151 Although most similar to the ID SINE, it clearly was not derived from the known ID maste

152 We identified SINEs that inhibit CRM-1 and promote nuclear accumulatio

153 More importantly, SINE slows disease progression, and improves overall sur

154 ers (P < 10(-4)) and hypomethylated cDMRs in SINE repeats (P < 10(-100)) was also identified.

155 s are characterized by a sharp inflection in SINE content, demonstrating that this genomic characteri

156 uilibrium and show that they are enriched in SINEs, in simple repeats, and in sequences that are cons

157 6% of the 27kb of Ant2 sequence and included SINEs, LINEs and LTR elements.

158 g that other physiological stresses increase SINE RNA expression.

159 Moreover, increased SINE RNA expression is a vital response to stress and by

160 sequence proved most efficient in increasing SINE transcription.

161 ach hot spot have found that two independent SINE insertions have occurred at identical sites.

162 how adenosine-to-inosine editing influences SINE function and how ongoing retrotransposition is coun

163 proteins, providing a link between intronic SINEs and protein function.

164 mong the walnut-unique repetitive DNA, Julia SINE and JrTRIM elements represent the first identified

165 mon 3' end with a highly transcribed 0.65 kb SINE-like element called EhLSINE2 in this report.

166 nvestigated the antileukemic activity of KPT-SINE (KPT-185 and KPT-276) in vitro and in vivo in acute

167 reported here support clinical trials of KPT-SINE in AML.

168 In summary, KPT-SINE are highly potent in vitro and in vivo in AML.

169 r transfection with cys528 mut-Xpo1 (lacking SINE binding site) markedly abrogated SINE activity high

170 upported the identification of a full-length SINE, with a consensus sequence notably distinct from ot

171 ntrons of the genes rather than a CTRT1-like SINE.

172 nces including segmental duplications, LINE, SINE, and LTR elements.

173 Retrotransposons, mainly LINEs, SINEs, and endogenous retroviruses, make up roughly 40%

174 region showed an extremely high LINE and low SINE content, low G+C content, and yet a relatively high

175 e criterion of their inducibility, mammalian SINEs behave like regulated cell stress genes.

176 In analogy to mammalian SINEs, the level of the Bm1 transcripts increases in res

177 show that nucleosomes containing methylated SINE and LINE elements and CpG islands are the main site

178 de several lines of evidence that methylated SINE DNA is occupied by RNA polymerase III, including th

179 In contrast to L1-mobilized SINEs, the RTE-mobilized SINEs in Monodelphis appear to

180 ast to L1-mobilized SINEs, the RTE-mobilized SINEs in Monodelphis appear to shift from G+C-rich to G+

181 loverleaf structure is not apparent for most SINE consensus RNAs.

182 elated structural motifs are present in most SINE RNAs from mammals, fishes and plants, suggesting co

183 r the downregulation compared to TCTT motif (SINE) which is a candidate for the upregulation of gene

184 Each new SINE insertion will be located in a new chromosomal envi

185 The computational identification of new SINEs are challenging because of their weak structural s

186 cluding 14 LINE-derived repeats; and a novel SINE element, MER131, that may have been exapted as a hi

187 outperforms the previously published de novo SINE discovery program.

188 Numerous SINE families have been identified in animals, whereas o

189 Analysis of SINE insertion sites from the genomes of nine additional

190 ined introns contain ID elements, a class of SINE retrotransposon.

191 We studied the effects of SINE analogs in a panel of pancreatic cancer cell lines

192 ccount for many of the principal features of SINE transcriptional regulation potentially providing a

193 lation-prone genes have a lower frequency of SINE and LINE retrotransposons near their transcription

194 SINE_Scan integrates hallmark of SINE transposition, copy number and structural signals t

195 The presence of SINE in the promoter 1 (P1) resulted in higher expressio

196 zes, due primarily to a continuing series of SINE (short interspersed element) insertions into this l

197 increases the estimation of the abundance of SINEs in these genomes.

198 lation has little effect on accessibility of SINEs to transcription machinery or their expression in

199 This selection could be because of SINEs attracting and spreading methylation, as has been

200 ort proteins; we investigated a new class of SINEs in pancreatic cancer cells.

201 why mouse cells harbor two major classes of SINEs, whereas human cells contain only one.

202 s and provide a basis for the development of SINEs in CLL and related hematologic malignancies.

203 obilized by L1, we found several families of SINEs that appear to use RTE elements for mobilization.

204 se genome consists of five known families of SINEs: B1, B2, B4/RSINE, ID, and MIR.

205 Therefore, this family of SINEs has recently evolved, and since it has thus far be

206 Here we describe a new family of SINEs, named BoS, that is widespread in Brassicaceae and

207 refore have implications for the mobility of SINEs even if they are incompetent for L1 retrotransposi

208 e for the dispersion and high copy number of SINEs.

209 Previous studies have indicated a paucity of SINEs within the genomes of the guinea pig and nutria, r

210 A recent proliferation of SINEs was also found in the probocidean lineage, whereas

211 The clinical relevance of SINEs was explored in chronic lymphocytic leukemia (CLL)

212 he evolutionary dynamics and significance of SINEs requires determining whether or not they have a fu

213 Pathway analysis on SINE treated HMECs further verified the involvement of a

214 rcussions for phylogenetic analyses based on SINE insertions, indicating the need for caution when on

215 The constraint on SINE accumulation in imprinted regions may be mediated b

216 E in a short interspersed nuclear element or SINE in the CAMP promoter of primates that was absent in

217 ments, but not the truncated Ta1 elements or SINE (Alu) insertions generated by Ta1 activity, were su

218 ealed that removal of either the Alu-like or SINE-R domain in the context of a full-length SVA has li

219 Short interspersed nuclear elements, or SINEs, are an abundant class of retrotransposons that ar

220 erent chromosomal distribution than LINEs or SINEs - preferentially in GC-poor regions.

221 expressed a series of altered BC1, and other SINE-related RNAs, in several cell lines and tested for

222 Two other SINE RNAs, human scAlu RNA and mouse B1 RNA, also bind P

223 In contrast, the non-coding parasitic SINE (Alu) only appears to need the L1 ORF2p for its own

224 , 7 simple tandem repeats, and 2 polymorphic SINE insertions within the genes mapped.

225 _Scan, a highly efficient program to predict SINE elements in genomic DNA sequences.

226 shuffling and the genesis of some primordial SINEs.

227 yltransferase inhibitor selectively promotes SINE expression and occupancy by RNA polymerase III.

228 The EhLSINEs are the first protist SINE-like elements identified that share a common 3' seq

229 nt insertions at the same locus may be rare, SINE insertions are not homoplasy-free phylogenetic mark

230 step model for the evolution of tRNA-related SINEs in eukaryotes.

231 A novel family of tRNA-related SINEs named gecko was discovered in the yellow fever mos

232 e ancient mammalian-wide interspersed repeat SINEs, are found at significantly low densities in impri

233 thout removing those containing repetitive ( SINE ) elements, despite the presence of these elements

234 r the youngest active human retrotransposon, SINE-VNTR-Alu (SVA).

235 sequence notably distinct from other rodent SINEs.

236 S1Bn SINE retroposons are two-fold more methylated than the a

237 We observed that S1Bn SINE retroposons are methylated at symmetrical and asymm

238 f a class of plant mobile elements, the S1Bn SINEs, was analysed in detail using the bisulfite modifi

239 s derived from different regions of the same SINE detect only partially overlapping banding patterns,

240 However, the second SINE element appeared to co-exist with the Mermaid eleme

241 zebrafish Mermaid element, while the second SINE element is not similar to the Mermaid element excep

242 ort and long interspersed nuclear sequences (SINEs and LINEs) and pseudogenes in eukaryotic genomes i

243 ort interspersed nuclear element sequencing, SINE-seq), which selectively profiles RNA Polymerase III

244 rtially explained by the presence of several SINE and LINE fragments.

245 ncing randomly primed cloned inserts, short (SINE/MER) or long (LINE/ORF2) interspersed repeat-like s

246 cking Dicer, although the production of some SINE- and simple repeat-associated short RNAs appeared t

247 IDL is derived from a hystricognath-specific SINE family.

248 cine, chicken, and ruminant species-specific SINE-based PCR assays, respectively.

249 Alu elements are the most successful SINEs (Short INterspersed Elements) in primate genomes a

250 han DNA plays a dominant role in suppressing SINE transcription.

251 This modification, which we term SINE (short interspersed repetitive element)-enhanced sh

252 he insertion frequency of repeats other than SINEs correlates strongly positively with the frequency

253 iments and X-ray structures demonstrate that SINE covalently bind to a cysteine residue in the cargo-

254 The present study also illustrates that SINE-based approaches are a powerful tool in primate phy

255 These results support the proposal that SINE RNAs serve a role in the cell stress response that

256 These data support the hypothesis that SINEs can influence gene expression by attracting de nov

257 ergence of insects and mammals implying that SINEs are essentially a class of cell stress genes.

258 Evidence is presented that SINEs can restore normal regulation to the majority of t

259 o B1 elements, despite previous reports that SINEs are generally excluded from imprinted promoters.

260 The SINE-based PCR methods we report here are species-specif

261 The SINE-R retroposon family has been identified by its rela

262 the ASL-associated retrotransposon, and the SINE-like element, SMalpha.

263 common selective constraints imposed at the SINE RNA structural level.

264 he DNA fingerprint patterns derived from the SINE probes are individual-specific and inherited in a M

265 Furthermore, the SINE in P1 acts as an enhancer in contrast with the LINE

266 elements are primate-specific members of the SINE (short interspersed element) retroposon family, whi

267 because the ancestral state (absence of the SINE) is known, Alu elements are useful genetic markers

268 Thus the SINE-R family appears to have continued to be active in

269 ide-long repeat sequences that belong to the SINE family of retrotransposons found abundantly in prim

270 In addition, one clone belonged to the SINE repetitive element family.

271 data suggest that PABP may contribute to the SINE retrotransposition process.

272 M16) showed 99.1% sequence identity with the SINE-R.C2 element, which is human-specific.

273 The effects of the SINEs also were investigated in mice with subcutaneous a

274 Like the human Alu sequence, the SINEs found in salmonids could provide useful genetic ma

275 Here, we review the biology of these SINE ncRNAs, explore how DNA virus infection may lead to

276 E assay to determine which portions of these SINE RNAs contribute to protein binding.

277 A portion of these SINEs confers dendritic targeting to exogenous and endog

278 As in other species, these SINEs and TRIM elements could be exploited for developin

279 These results demonstrate that this SINE family continues to contribute to the dynamics of g

280 Though SINE elements have undergone exaptation into gene regula

281 tDNA via reverse transcription, analogous to SINE elements in animal cells.

282 tDNA via reverse transcription, analogous to SINE elements in animal cells.

283 utations in the region of CRM-1 that bind to SINEs (Cys-528), or small inhibitor RNA knockdown of PAR

284 to gene regulatory elements, how transcribed SINE RNA impacts transcriptional and post-transcriptiona

285 ones to identify potentially uncharacterized SINEs within the guinea pig genome, and identified numer

286 play an important role in determining which SINE elements are preferentially active in a genome.

287 cidean lineage, whereas the Afrotherian-wide SINEs in mammoth have undergone a rather flat and stepwi

288 but contained the same ratio of clones with SINE elements found in the unsubtracted library.

289 However, correlations with SINEs show the opposite effects.

290 preference for insertion (monitored in young SINEs) differs between rodents and humans.