ライフサイエンスコーパス: microhomology

1 ed junctions or junctions with insertions or microhomology).

2 involving template switching at positions of microhomology.

3 psis of 3' overhangs that have at least 1 nt microhomology.

4 curate non-processive DNA polymerase creates microhomology.

5 quently correlates with increased junctional microhomology.

6 s, deletions, duplications, and instances of microhomology.

7 cal NHEJ and brings about repair at sites of microhomology.

8 joining that was mediated by 2-, 3- or 10-bp microhomology.

9 ted number of nucleotides back to regions of microhomology.

10 olving joining between regions of nucleotide microhomology.

11 ells occurred at unusually long stretches of microhomology.

12 ely, with the last nucleotide used as occult microhomology.

13 e occurred at regions of naturally occurring microhomology.

14 s often stabilized by up to 4 bp of terminal microhomology.

15 earing 5-, 8-, 10-, 13-, 16-, 19-, and 22-nt microhomology.

16 tions were formed via end-joining with short microhomologies.

17 ditions, and 5' boundary and inversion point microhomologies.

18 ination reactions can be detected using such microhomologies.

19 tions may be associated with the presence of microhomologies.

20 ippage, but could only identify the germline microhomology (1-6 bp) anticipated to prime such slippag

21 Alternative NHEJ revealed 2 to 5 bp microhomology (15.7% of cases) or new replication-mediat

22 ases, three involving DMD and one HEXB gene, microhomologies (2-10 bp) were observed at breakpoint ju

23 engths and the annealing of short regions of microhomology (2-6 bp) across the break-site.

24 s (19.2%) and substantially less reliance on microhomology (31%) than previously observed in benign c

25 cleavage site indicative of DSB repair using microhomology (6-12 bp perfect repeats, or 10-16 bp with

26 another viral fragment by a short homology (microhomology), a hallmark of illegitimate recombination

27 in the proportion of deletions with flanking microhomology, a signature associated with a backup, err

28 th end resection), and preferential usage of microhomology-all signs of the alternative end-joining p

29 er, we did observe greater usage of terminal microhomology among NHEJ events recovered from wild-type

30 The pattern of microhomology among switch junction sites in Msh2-defici

31 altered in these cells, with unusually long microhomologies and a lack of direct end-joining.

32 Most Ds and fAc deletion junctions displayed microhomologies and contained filler DNA from nearby seq

33 aims to solve the problem of deletions with microhomologies and deletions with microinsertions.

34 f deletions: blunt deletions, deletions with microhomologies and deletions with microsinsertions.

35 it accounts for most repairs associated with microhomologies and is made efficient by coupling a micr

36 ctions with apparent blunt joins, junctional microhomologies and short indels (deletion with insertio

37 deletions are predominantly associated with microhomology and (iii) targets exhibit variable but rep

38 epairs DNA breaks via the use of substantial microhomology and always results in deletions.

39 vative NHEJ (C-NHEJ), which does not require microhomology and can join ends precisely; and deletiona

40 m sequencing data, especially deletions with microhomology and deletions with microinsertion.

41 somatic breakpoints show significantly less microhomology and fewer templated insertions than germli

42 The co-occurrence of microhomology and inserted sequence is low (10%), sugges

43 reaks is mediated by annealing at regions of microhomology and is always associated with deletions at

44 ons in tert ku70 lig4 mutants contained less microhomology and less telomeric DNA.

45 panzee numt integrations were accompanied by microhomology and short indels of the kind typically obs

46 DNA motif; however, deletions, duplications, microhomologies, and nontemplate DNA were found.

47 involving at least two consecutive rounds of microhomology annealing and synthesis across the break s

48 ever, alt-EJ also produces junctions without microhomology (apparent blunt joins), and the exact role

49 Here we show microhomologies are identified by a scanning mechanism i

50 The means by which microhomologies are identified is thus a critical step i

51 use of an alternative joining pathway where microhomologies are important for CSR break ligation.

52 forms, triplexes and tetraplexes) as well as microhomologies are postulated to participate in the rec

53 With homeologous donors, ICTS uses microhomologies as small as 2 bp.

54 or Exo1 result in increased switch junction microhomology as has also been seen with Msh2 deficiency

55 und deficiency of IgG3 in most mice and long microhomologies at Ig switch (S) joints.

56 We observed a high frequency of microhomologies at larger deletion breakpoint junctions,

57 The structures of the mutants revealed microhomologies at the breakpoints, consistent with a no

58 mall templated insertions at breakpoints and microhomology at breakpoint junctions, which have been a

59 l types of nonhomologous-end-joining joints: microhomology at junctions (57%), insertion of sequences

60 determining regions 3 and long stretches of microhomology at switch junctions.

61 tely 3 Mb) size distribution and overlapping microhomology at the breakpoints.

62 formed coding joints, but also the extent of microhomology at the coding junctions.

63 rt mutants, there was a greater incidence of microhomology at the fusion junction than in tert mutant

64 chromosome fusions were still detected, but microhomology at the junction was no longer favored.

65 nome-wide, sized 1-100 base pairs often with microhomology at the junction.

66 at CSR sites indicated that there is greater microhomology at the mu-gamma1 switch junctions in ATM B

67 well-defined NHEJ pathway, characterized by microhomology at the repair junctions, play a role in th

68 in Xrcc1(+/-) splenic B cells, the length of microhomology at the switch junctions decreased, suggest

69 ions of DNA sequence homology, also known as microhomology, at chromosomal breakpoints.

70 ication slippage, but lack suitable germline microhomology available for priming.

71 evealed a variety of interactions, including microhomology base pairing, mismatched and flipped-out b

72 nd a shift toward the use of an alternative, microhomology-based end joining during CSR.

73 sults in impaired CSR and increased usage of microhomology-based end joining.

74 This recombination event employs a microhomology-based end-joining repair pathway, as oppos

75 budding yeast and has been implicated in the microhomology-based joining.

76 A shift to the use of microhomology-based, alternative end-joining (A-EJ) and

77 The microhomologies between human and BKPyV genomes were sig

78 ohomology-mediated end joining mostly, since microhomologies between human and BKPyV genomes were sig

79 -deficient cells showed decreased lengths of microhomology between Smicro and Sgamma3 relative to jun

80 eficient B cells showed decreased lengths of microhomology between Smu and Sgamma3 relative to wild-t

81 akpoint junctions are characterized by short microhomologies, blunt ends, and short insertions.

82 rrangement and increased usage of junctional microhomologies both of which also converted to the adul

83 d neither frequency nor length of junctional microhomology, but significantly increased insertion fre

84 lution of DNA breaks with low or no terminal microhomology by a classical nonhomologous end-joining m

85 es do not exist, we have postulated that new microhomologies can be created via limited DNA synthesis

86 rotein/MSH2-dependent pathway that relies on microhomology can act concurrently but independently to

87 bset of ends that thereby gain some terminal microhomology can then be ligated.

88 quences were found on the plasmid, joined by microhomologies characteristic of nonhomologous end-join

89 mologous end joining (NHEJ) that can involve microhomologies close to the broken ends.

90 of these breakpoint junctions had 0-4 bp of microhomology consistent with chromothripsis, and both d

91 cation junctions produced contain regions of microhomology consistent with operation of the nonhomolo

92 unctions were characterized by short (<6 bp) microhomologies, consistent with the hypothesis that the

93 results in DNA ligation at distant sites of microhomology, creating large DNA deletions.

94 etermined both breakpoints flanked by a 4-bp microhomology (CTTG).

95 because earlier rounds of synthesis generate microhomologies de novo that are sufficiently long that

96 cing of vector-chromosome junctions detected microhomologies, deletions and insertions that were simi

97 d in ku70 or lig4, DNA repair was shifted to microhomology-dependent alternative NHEJ.

98 of >2 kb deletions and in the usage of long microhomologies distal to the break site, compared with

99 When accessible pre-existing microhomologies do not exist, we have postulated that ne

100 further indicate that a process identical to microhomology-driven single-strand annealing resolves L1

101 of slippage and strand switching at sites of microhomology during replication.

102 ests a role for the BLM helicase in aligning microhomology elements during recombinational events in

103 loom's syndrome (BS) cells are unable to use microhomology elements within the supF20 gene to restore

104 ors, in which non-homologous end joining and microhomology end joining are the predominant mechanisms

105 Microhomology existed at most junctions between φX17

106 Reducing the microhomology extent between long overhangs reduced thei

107 are aligned using short regions of sequence microhomology followed by processing of the aligned DNA

108 Furthermore, the ability to use microhomologies for end joining was compromised in senes

109 s cerevisiae cells to analyze DSBs requiring microhomologies for repair, known as microhomology-media

110 polymerases use the overhangs as regions of microhomology for template synapsis.

111 servative pathway involving the annealing of microhomologies found within the 17-nt overhangs produce

112 Our work thus describes the mechanism for microhomology identification and shows how it both mitig

113 ic recombinants with two distinct patches of microhomology, implying that these proteins are crucial

114 preference for switch junctions with longer microhomologies in Mlh1(GR/GR) mice suggests that throug

115 revious reports showing decreased S-junction microhomologies in MSH2-deficient mice and an exonucleas

116 y end-joining pathway relies more heavily on microhomologies in producing deletions.

117 intra-Smu region recombinations, no/minimal microhomologies in S-S junctions, decreased c-Myc/IgH tr

118 lternative(A)-NHEJ pathway, which introduces microhomologies in S-S junctions.

119 ced more insertions and fewer donor/acceptor microhomologies in Smu-Sgamma1 and Smu-Sgamma3 DNA junct

120 apparent blunt joins), and the exact role of microhomology in both alt-EJ and classical non-homologou

121 We explain the paradox of the "missing" microhomology in the majority of FLT3-ITDs through occul

122 however, preference may be due to the use of microhomology in the V, D, and J segments.

123 In this study, we have therefore shown that microhomology in this area of chromosome 1 predisposes t

124 nnealing of complementary sequence segments (microhomologies) in these tails, followed by microhomolo

125 had significantly longer deletions and more microhomology, indicative of alt-NHEJ.

126 d MSH5 alleles show increased donor/acceptor microhomology, involving pentameric DNA repeat sequences

127 Hence, annealing at sites of microhomology is very important, but the flexibility of

128 CSR joins also display direct and microhomology joins, and CSR has been suggested to use C

129 ng pathway, which is markedly biased towards microhomology joins, supports CSR at unexpectedly robust

130 ds with several base-pair homologies to form microhomology joins.

131 ivergence and exhibit a different pattern of microhomology junctions.

132 delta) is critical for MMEJ, independent of microhomology length and base-pairing continuity.

133 repair efficiency increased concomitant with microhomology length and decreased upon introduction of

134 Break proximity, microhomology length and GC-content all favored repair a

135 Pol zeta also participates in repair by microhomology mediated break-induced replication.

136 ions and that PARP proteins were involved in microhomology mediated end joining (MMEJ), one of the ch

137 Exploiting the bias of NHEJ outcomes towards microhomology mediated events, we demonstrate the progra

138 was predominantly, and possibly exclusively, microhomology mediated, a situation unique among organis

139 Ku and favor repair by the Lig4-independent microhomology-mediated A-EJ process.

140 t resected DNA is preferentially repaired by microhomology-mediated A-NHEJ.

141 eas classical NHEJ (C-NHEJ) is undetectable, microhomology-mediated alternative NHEJ efficiently repa

142 s DNA double-strand break repair through the microhomology-mediated alternative-end-joining (Alt-EJ)

143 he shelterin-free telomeres are processed by microhomology-mediated alternative-NHEJ when Ku70/80 is

144 opsis chloroplast that resemble the nuclear, microhomology-mediated and nonhomologous end joining pat

145 Models such as microhomology-mediated break-induced replication (MM-BIR

146 talling and template switching (FoSTeS), and microhomology-mediated break-induced replication (MMBIR)

147 stalling and template switching (FoSTeS) and microhomology-mediated break-induced replication (MMBIR)

148 microhomology, suggesting replication error Microhomology-Mediated Break-Induced Replication (MMBIR)

149 echanistic details have been provided in the microhomology-mediated break-induced replication (MMBIR)

150 the SV and provide compelling support for a microhomology-mediated break-induced replication (MMBIR)

151 Recently, CGRs were suggested to result from microhomology-mediated break-induced replication (MMBIR)

152 most often via nonhomologous end joining or microhomology-mediated break-induced replication.

153 her diseases have revealed the occurrence of microhomology-mediated chromosome rearrangements and cop

154 utes to two error-prone DSB repair pathways: microhomology-mediated end joining (a Ku86-independent m

155 Microhomology-mediated end joining (MHEJ) is always acco

156 showed that DNA ends can also be joined via microhomology-mediated end joining (MHEJ), especially wh

157 (NHEJ) repair results in various mutations, microhomology-mediated end joining (MMEJ) creates precis

158 Microhomology-mediated end joining (MMEJ) is a major pat

159 This microhomology-mediated end joining (MMEJ) is Ku independ

160 Microhomology-mediated end joining (MMEJ) joins DNA ends

161 g that precise correction is mediated by the microhomology-mediated end joining (MMEJ) pathway.

162 to 3.5% by Cas9 alone, were repaired through microhomology-mediated end joining (MMEJ) rather than th

163 Of interest, robust microhomology-mediated end joining (MMEJ) was observed w

164 Microhomology-mediated end joining (MMEJ), an error-pron

165 wever, a mutagenic alternative NHEJ pathway, microhomology-mediated end joining (MMEJ), can also be d

166 , less characterized repair mechanism, named microhomology-mediated end joining (MMEJ), has received

167 minated by homologous recombination (HR) and microhomology-mediated end joining (MMEJ), while non-hom

168 overview on homology-directed repair (HDR)-, microhomology-mediated end joining (MMEJ)-, and nonhomol

169 an alternative error-prone mechanism termed microhomology-mediated end joining (MMEJ).

170 s, we propose a model of synthesis-dependent microhomology-mediated end joining (SD-MMEJ), in which d

171 This model, called synthesis-dependent microhomology-mediated end joining (SD-MMEJ), predicts t

172 likely to give rise to a single predominant microhomology-mediated end joining allele (PreMA) repair

173 evidence that Brca1 has an essential role in microhomology-mediated end joining and suggest a novel m

174 d self-targeting, cell fitness decreases and microhomology-mediated end joining becomes active, gener

175 int junctions, suggesting the involvement of microhomology-mediated end joining in their generation.

176 metastatic tumors followed the mechanism of microhomology-mediated end joining mostly, since microho

177 hich sister chromatid fusion is initiated by microhomology-mediated end joining of double strand brea

178 family where a deletion has occurred through microhomology-mediated end joining rather than nonalleli

179 a de novo 6.3-kb deletion that arose through microhomology-mediated end joining rather than nonalleli

180 The strategy utilizes CRISPR/Cas9 and microhomology-mediated end joining repair for efficient

181 ntially undergo non-homologous compared with microhomology-mediated end joining repair.

182 ce and an exonuclease 1 (EXO1) role in yeast microhomology-mediated end joining suggest that mismatch

183 e strand breaks by homologous recombination, microhomology-mediated end joining, and single strand an

184 ously unrecognized complex events, involving microhomology-mediated end joining, preceded or accompan

185 show that the most common repair outcome is microhomology-mediated end joining, which occurs during

186 n origin by DNA repair synthesis followed by microhomology-mediated end joining.

187 o HR, CtIP dimerization is also required for microhomology-mediated end joining.

188 -Cas self targeting indicated DNA repair via microhomology-mediated end joining.

189 Here we show that a null mutation in the microhomology-mediated end-joining (MMEJ) component, pol

190 merase-helicase fusion protein that promotes microhomology-mediated end-joining (MMEJ) of DNA double-

191 trand breaks, referred to as the error-prone microhomology-mediated end-joining (MMEJ) pathway.

192 Finally, we developed a microhomology-mediated end-joining (MMEJ) reporter and s

193 of 53BP1 are correlated with a promotion of microhomology-mediated end-joining (MMEJ), a subtype of

194 quiring microhomologies for repair, known as microhomology-mediated end-joining (MMEJ).

195 occurs through non-homologous end-joining or microhomology-mediated end-joining (MMEJ).

196 ent studies have identified a third pathway, microhomology-mediated end-joining (MMEJ).

197 double-strand break repair pathway known as microhomology-mediated end-joining (MMEJ).

198 (HR), nonhomologous end-joining (NHEJ), and microhomology-mediated end-joining (MMEJ).

199 ) MEFs exhibited a 50-100-fold deficiency in microhomology-mediated end-joining activity of a defined

200 As microhomology-mediated end-joining requires annealing of

201 nation in Aplf(-/-) B cells is biased toward microhomology-mediated end-joining, a pathway that opera

202 nctions in both homologous recombination and microhomology-mediated end-joining.

203 nd propose that class switching can occur by microhomology-mediated end-joining.

204 man breast carcinoma cells while suppressing microhomology-mediated error-prone end-joining and restr

205 cribe the features and mechanistic models of microhomology-mediated events, discuss their physiologic

206 ats, whereas the other two fusions exhibited microhomology-mediated events.

207 and AGCT) at the breakpoints indicated that microhomology-mediated FoSTeS events were involved in th

208 at double-strand breaks induce a genome-wide microhomology-mediated illegitimate recombination pathwa

209 I-SceI-mediated double-strand break induces microhomology-mediated integration randomly throughout t

210 Irradiated yeast cells displayed 77% microhomology-mediated integration, compared to 27% in u

211 estriction enzymes increase the frequency of microhomology-mediated integration.

212 Microhomology-mediated joining appears to serve a subsid

213 s during CSR, supporting a role for XRCC1 in microhomology-mediated joining.

214 omic fragments assembled by nonhomologous or microhomology-mediated joining.

215 Microhomology-mediated linking of disparate segments of

216 rom compatible termini, an essential step in microhomology-mediated NHEJ.

217 and DNA joining reactions that complete the microhomology-mediated pathway of nonhomologous end join

218 sm while possibly suppressing an alternative microhomology-mediated pathway.

219 udies are elucidating the characteristics of microhomology-mediated pathways, which are mutagenic.

220 r the bulk of germline structural variation: microhomology-mediated processes involving short (2-20 b

221 ich suggests its involvement in a non-random microhomology-mediated recombination generating the rear

222 A distinct mechanism namely microhomology-mediated recombination occurs between a fe

223 gulation of many key genes, and an inducible microhomology-mediated recombination pathway could be a

224 appearance from some species is occurring by microhomology-mediated recombination.

225 n events at random non-restriction sites via microhomology-mediated recombination.

226 the initial lesion (hairpins) and facilitate microhomology-mediated repair (A/T tracks) that lead to

227 53BP1), which results in fast and error-free microhomology-mediated repair and a low mutant frequency

228 ble-stranded DNA break site will utilize the microhomology-mediated repair pathway; and (iii) MENTHU,

229 at the Igh locus increases DSB resolution by microhomology-mediated repair while decreasing C-NHEJ ac

230 These rearrangements were resolved by microhomology-mediated repair, which suggests that L1-as

231 complex duplication-associated variants was microhomology-mediated repair.

232 AHR), non-homologous end joining (NHEJ), and microhomology-mediated replication-dependent recombinati

233 However, a modest shift toward microhomology-mediated switch junction formation was obs

234 Small, approximately 10-kilobase microhomology-mediated tandem duplications are abundant

235 Importantly, we show that these microhomology-mediated template switches, indicative of

236 Especially prominent are microhomology-mediated template switches.

237 defective DNA replication initiates serial, microhomology-mediated template switching (chromoanasynt

238 ss mechanism terminated by end joining or by microhomology-mediated template switching, the latter fo

239 hed DSBs are repaired by a highly mutagenic, microhomology-mediated, alternative end-joining pathway,

240 t and a DNA repair signature consistent with microhomology-mediated, break-induced replication.

241 ely conserved DNA polymerase that mediates a microhomology-mediated, error-prone, double strand break

242 ng (Alt-EJ) pathway that preferentially uses microhomology (MH) at the junctions.

243 y C-NHEJ to form junctions either with short microhomologies (MHs; "MH-mediated" joins) or no homolog

244 ions have between 0 and 4 base pairs (bp) of microhomology (n = 26), short inserted sequences (n = 8)

245 r size distribution, which frequently showed microhomology near the breakpoints resembling repair by

246 o be important for processing ends to expose microhomologies needed for NHEJ.

247 ith no homology through resection to uncover microhomologies of a few nucleotides.

248 urate repair of an I-SceI DSB lacking nearby microhomologies of greater than four nucleotides in Dros

249 s and showed a preference for annealing at a microhomology of 8 nt buried within the DNA substrate; t

250 tions of up to 302 bp, annealed by imperfect microhomology of about 8 to 10 bp at the junctions.

251 e rejoining of DSBs that utilized a recessed microhomology or DSBs bearing 5'-hydroxyls but no gap.

252 t linear integration pattern and a potential microhomology or nonhomologous end joining integration m

253 gating two free DNA ends of little homology (microhomology) or DNA ends of no homology.

254 uman Polmu promoted microhomology search and microhomology pairing between the primer and the templat

255 tions and deletions as well as higher-degree microhomology patterns that enrich for longer deletions.

256 ype and, importantly, a similar long S joint microhomology phenotype was observed in both Msh5 and Ms

257 y processive to complete repair of breaks in microhomology-poor, AT-rich regions.

258 roceed either by homologous recombination or microhomology-primed re-initiation.

259 earch to removal of non-homologous tails and microhomology-primed synthesis across broken ends.

260 microhomologies) in these tails, followed by microhomology-primed synthesis sufficient to resolve bro

261 one-dimensional sliding, and length-specific microhomology recognition to efficiently align DNA seque

262 mediated by two Cas9 ribonucleoproteins with microhomology recombination requiring only 50-bp regions

263 igned the primer to achieve annealing with a microhomology region in the template several nucleotides

264 to stabilize duplexes between pairs of short microhomology regions, thereby impeding short-range reco

265 t both mitigates limitations implicit in the microhomology requirement and generates distinctive geno

266 We demonstrate that microhomology-rich S-S junctions are enriched in cells i

267 As a result, human Polmu promoted microhomology search and microhomology pairing between t

268 mologies and is made efficient by coupling a microhomology search to removal of non-homologous tails

269 is leads to one or more additional rounds of microhomology search, annealing, and synthesis; this pro

270 joining and V(D)J recombination through its microhomology searching and pairing activities but do no

271 iency of Msh2 does not lead to the increased microhomology seen with Mlh1 or Exo1 deficiencies, sugge

272 oximity to sgRNAs and cannot be predicted by microhomology sequences alone.

273 in the majority of FLT3-ITDs through occult microhomology: specifically, by priming through use of n

274 the breakpoints of these rearrangements had microhomologies, suggesting their origin from replicatio

275 ts showing eight to 43 base pairs of perfect microhomology, suggesting replication error Microhomolog

276 SR events have similar lengths of junctional microhomology, suggesting trans-CSR occurs by nonhomolog

277 Microhomology (TAA and AGCT) at the breakpoints indicate

278 -S junctions induced by DeltaAID have longer microhomologies than do those induced by full-length AID

279 e of Msh2 results in CSR junctions with less microhomology than joinings that occur when MMR is initi

280 tes alternative EJ (ALT-EJ) events involving microhomology that is embedded from the edge of the DSB.

281 umber with inversions, deletions, and 5'-end microhomologies to the target DNA sequence.

282 and deletional NHEJ (D-NHEJ), which utilizes microhomology to join the ends with small deletions.

283 n homologs versus sister chromatids by using microhomology to prime DNA replication-a prediction of t

284 gramming of deletion patterns by introducing microhomology to specific locations in the vicinity of t

285 A survey of microhomologies typically revealed sequences of between

286 deletions based on the alignment of flanking microhomologies (uHs).

287 ases solve this problem by searching in 8-nt microhomology units, reducing the search space and accel

288 ng to single-stranded 3' ends, which require microhomology upstream and downstream of the DSB.

289 oth 53BP1 and BRCA1 increases repair needing microhomology usage and augments loss of DNA sequence, s

290 -EJ) can operate and exhibits a trend toward microhomology usage at the break junction.

291 ly, 60% of patients presented with increased microhomology use at switched regions.

292 Furthermore, increased use of long microhomologies was found at recombination junctions der

293 alt-EJ depends on annealing at pre-existing microhomologies, we examined inaccurate repair of an I-S

294 Very short sequence elements or microhomologies were also identified.

295 AT-to-CG transversions and deletions at microhomologies were enhanced modestly by AZT.

296 Insertions and microhomologies were found at the breakpoint junctions,

297 Small deletions and microhomology were present in most junctions; insertions

298 B2 leads to larger deletions, typically with microhomology, when compared to the disruption of BRCA1,

299 of the deletion breakpoints have 1-30 bp of microhomology, whereas 33% of deletion breakpoints conta

300 tic selection of 8-nucleotide (nt) tracts of microhomology, which kinetically confines the search to