ライフサイエンスコーパス: phage lambda

1 reminiscent of the Rz/Rz1 lysis gene pair of phage lambda.

2 dified an existing bistable circuit, that of phage lambda.

3 ed to selection for immunity to infection by phage lambda.

4 human cDNA expression library constructed in phage lambda.

5 miniscent of the arrangement established for phage lambda.

6 omal region flanking the attachment site for phage lambda.

7 circuitry of HK620 seems to resemble that of phage lambda.

8 HK022 is a temperate coliphage related to phage lambda.

9 of phage HK022 are resistant to infection by phage lambda.

10 Escherichia coli ihf mutants for plating of phage lambda.

11 discriminate between different operators in phage lambda.

12 genes of Escherichia coli or to the rest of phage lambda.

13 n the interaction of IHF with the H' site of phage lambda.

14 recognition of the gpV major tail protein of phage lambda.

15 y element" derived from the cI/Cro region of phage lambda.

16 ne activity in the DNA packaging reaction of phage lambda.

17 tion of the gpD protein during maturation of phage lambda.

18 lyze the stability of the lysogenic state of phage lambda.

19 2 intrinsic transcription terminator site of phage lambda.

20 ontrolling the direction of recombination in phage lambda.

21 tudied tyrosine recombinases such as that of phage lambda.

22 in E. coli and the lysis/lysogeny switch of phage lambda.

23 ve applied this approach to the circuitry of phage lambda.

24 chanistically distinct from the integrase of phage lambda.

25 solated a full-length mouse P2X3 gene from a phage lambda-129/Sv genomic library.

26 Phage lambda, a well-characterized temperate phage, has

27 The N protein of phage lambda acts with Escherichia coli Nus proteins at

28 complete understanding of gene regulation by phage lambda also requires detailed knowledge of the rol

29 e-stranded DNA binding proteins, such as the phage lambda and D108 repressors, which undergo substant

30 Using Phage Lambda and Escherichia coli as models we selective

31 wo sets of plasmids, pL and pE, that contain phage lambda and Escherichia coli K-12 chromosomal DNA f

32 e component is related to the exonuclease of phage lambda and is common to viruses with linear double

33 alpha-helical peptide from the N protein of phage lambda and its cognate 19 nucleotide box B RNA hai

34 ation at specific loci on the chromosomes of phage lambda and its Escherichia coli host.

35 long-circulating mutants of Escherichia coli phage lambda and of Salmonella typhimurium phage P22.

36 what we know from studies with the temperate phage Lambda and other temperate phages, in laboratory c

37 , and DNA sequencing analysis of recombinant phage lambda and P1 clones revealed that exons encoding

38 sed largely on work done on the integrase of phage lambda and recombinases like Cre, Flp, and XerC/D.

39 id family genome sequences, those of E. coli phage lambda and Salmonella typhimurium phage P22.

40 ut smears were found for digests of DNA from phage lambda and several plasmids.

41 phages and their cognate receptors, such as phage lambda and the Escherichia coli LamB (EcLamB) prot

42 We biolistically transformed linear 48-kb phage lambda and two different circular plasmids into ri

43 d biophysical properties of DNA packaging in phage lambda and, in particular, the nucleoprotein compl

44 n latency and productive replication in both phage-lambda and HIV-1.

45 The DNA-packaging specificities of phages lambda and 21 depend on the specific DNA interact

46 The integrases of phages lambda and HK022 are closely related members of t

47 Analysis of phages lambda and HK022 by Weisberg and collaborators pr

48 Phages lambda and HK022 express proteins N and Nun, resp

49 nes are nearly identical to Escherichia coli phages lambda and HK97, S. enterica phage ST64T, or a Sh

50 Site-specific recombination by phages lambda and P22 is carried out by multiprotein-DNA

51 en evolutionarily diverse bacterial viruses (phages lambda and P22), as well as a eukaryotic virus, h

52 g to form lethal lesions, or "holes." In the phages lambda and T4, the holes have been shown to be la

53 sults to the interaction patterns of E. coli phages lambda and T7.

54 de a tyrosine recombinase similar to that of phage lambda, and xis (excisionase, sacV).

55 The behaviours of phage lambda are determined mainly by the topology of th

56 g scanning calorimetry on a bacterial virus (phage lambda) as an experimental model system, we invest

57 A phage lambda-based recombination system, Red, can be use

58 In the wild-type phage lambda, binding of CI to O(R)2 helps polymerase bo

59 Nun binds the phage lambda boxB RNA sequence (BOXB) on nascent lambda

60 s left operator region (compared to three in phage lambda), but this has a minimal effect on 933W lys

61 from prophage HK022 excludes superinfecting phage lambda by arresting transcription on the lambda ch

62 The phage HK022 Nun protein excludes phage lambda by binding nascent lambda pL and pR transcr

63 Phage HK022 Nun protein excludes phage lambda by binding nascent lambda-nut RNA and induc

64 lly, we established the utility of Cas13a in phage lambda by conducting minimal recoding edits, delet

65 ich linear DNA fragments were generated from phage lambda by intracellular EcoRI restriction followin

66 ts obtained on the canonical tR2 template of phage lambda by means of complementary bulk gel electrop

67 scattering form factor of dsDNA packaged in phage lambda capsid by contrast matching the scattering

68 d for DNA translocation into the capsid, the phage lambda capsid decoration protein gpD is essential

69 acing of double-stranded DNA encapsidated in phage lambda capsids.

70 Much of the gene regulatory circuitry of phage lambda centers on a complex region called the O(R)

71 atalyzes the integration and excision of the phage lambda chromosome into and out of the Esherichia c

72 Packaging a phage lambda chromosome involves cutting the chromosome

73 cherichia coli, we monitored the behavior of phage lambda chromosomes, repressed or not for lambda ge

74 LexA and other cleavable substrates, such as phage lambda CI repressor and E. coli UmuD, bind to a cl

75 en oligomerization of PrgX was tested with a phage lambda cI repressor fusion system, the oligomeriza

76 election method involving replication of the phage lambda cI repressor gene.

77 rized DNA-looping proteins Lac repressor and phage lambda CI to measure interactions between pairs of

78 tion and mapping of a cluster of overlapping phage lambda clones from a BCBL tumor DNA genomic librar

79 ique generality, simplicity, and richness of phage lambda decision making render it a constant source

80 The phage lambda-derived Red recombination system is a power

81 the organization in the tail gene cluster of phage lambda, despite a lack of amino acid sequence simi

82 e, we investigate how organization underpins phage lambda development and decision-making by characte

83 I and ECO:RV endonucleases has been shown on phage lambda DNA and with BCL:I and DPN:II endonucleases

84 Feasibility was tested using Bcl I and phage lambda DNA as a model enzyme and amplicon system,

85 anY, an E. coli protein that is required for phage lambda DNA injection, was found to localize to the

86 gp2.5 lowers the phage lambda DNA melting force as measured by single mol

87 six plasmids that contain BamHI fragments of phage lambda DNA were constructed and transformed into E

88 from a gamma-globin promoter by fragments of phage lambda DNA.

89 Phage lambda encodes two recombination proteins that are

90 In the case of wild-type phage lambda excision junctions, spermidine plays the do

91 se fold, whose structural prototypes are the phage lambda exonuclease, the very short patch repair nu

92 We demonstrate that an engineered temperate phage lambda expressing a programmable dCas9 represses a

93 ch is required for site-specific excision of phage lambda from the bacterial chromosome, has a much s

94 ific DNA recombination reaction that excises phage lambda from the chromosome, the bacterial DNA arch

95 omes that integrate and excise the genome of phage lambda from the Escherichia coli chromosome.

96 The product of phage lambda gene N appears to function in a stoichiomet

97 ase (RNAP) to an antiterminating form by the phage lambda gene Q protein.

98 ption pause, and simultaneously to allow the phage lambda gene Q transcription antiterminator to act.

99 perimental tests of this question, using the phage lambda gene regulatory circuit.

100 Here we test whether the behavior of the phage lambda gene regulatory circuitry is robust.

101 monstrate in this paper that Beta protein of phage lambda generates recombinants in chromosomal DNA b

102 nases, stimulate integration and excision of phage lambda genome, regulate the transcription of sever

103 te two strong Fis binding sites in the 50 kb phage lambda genome.

104 194M downstream of the Walker B motif in the phage lambda gpA packaging motor causes an 8-fold reduct

105 g the wheat transcriptome was constructed in phage lambda gt11 and screened with IgE antibodies from

106 esponding cDNA from an expression library in phage lambda gt11.

107 3' sequence: TC TAAGTAGTTGATTCATA, where the phage lambda H1 consensus sequence of IHF is underlined)

108 structure of the Cro repressor protein from phage lambda has been refined to a crystallographic R-va

109 or site specific recombination of Tn1545 and phage lambda, has been developed.

110 ntrol N protein dependent antitermination in phage lambda have counterparts in many eukaryotic system

111 only two stable behaviours are possible for phage lambda if the main constraints of lambda switch ar

112 Phage lambda implements this strategy by increasing the

113 upplied with either single host (allopatry), phage lambda improved its binding to the available recep

114 s with temperate and virulent mutants of the phage Lambda in laboratory culture.

115 ct lambda-sensitive bacteria from killing by phage lambda in mixed culture.

116 Studies of phage lambda in vivo have indicated that its own recombi

117 l S. aureus strain SA564, and in restricting phage lambda infection when the endonuclease is expresse

118 show that while it makes cells resistant to phage lambda infection, induction of lambda prophage fro

119 teraction network in Escherichia coli during phage lambda infection.

120 ulations using parameter values derived from phage lambda-infection also showed an optimal lysis time

121 The final step of lysis in phage lambda infections of Escherichia coli is mediated

122 IN on T-mediated lysis in the context of the phage lambda infective cycle, in the absence of other T4

123 How the classic phage lambda initiates infection is not yet understood.

124 cessary to resolve Holliday junctions during phage lambda Int-mediated recombination.

125 Escherichia coli phage lambda integrase (Int) is a 40 kilodalton, 356 ami

126 fferent site-specific recombination enzymes, phage lambda integrase and transposon Tn3 resolvase.

127 The Escherichia coli phage lambda integrase protein (Int) belongs to the larg

128 viously identified hexapeptide inhibitors of phage lambda integrase-mediated recombination block the

129 host cytoplasm, the temperate bacteriophage (phage) lambda integrates a cascade of expressions from v

130 ange events leading to Holliday junctions in phage lambda integration and excision are asymmetric, pr

131 which terminase, the DNA packaging enzyme of phage lambda, introduces staggered nicks into viral conc

132 The integrase protein (Int) of phage lambda is a well-studied representative of the tyr

133 The gene regulatory circuitry of phage lambda is among the best-understood circuits.

134 The Rap protein of phage lambda is an endonuclease that nicks branched DNA

135 The lysogenic state of phage lambda is maintained by the CI repressor.

136 EGS construct is used in vivo, burst size of phage lambda is reduced by > or = 40%.

137 final steps in the morphogenetic pathway of phage lambda is the packaging of a single genome into a

138 the switch from lysogenic to lytic growth of phage lambda is the self-cleavage of lambda repressor, w

139 Ejection of the genome from the virus, phage lambda, is the initial step in the infection of it

140 g functionally similar to its counterpart in phage lambda, it shows no homology at the level of prote

141 laof plasmid pBR322; (iii) the PLpromoter of phage lambda; (iv) and (v) the replication control promo

142 In previous work with phage lambda, lethal mutations that changed ATP-reactive

143 l N-protein-dependent antitermination in the phage lambda life cycle have counterparts in the regulat

144 The phiKO2 virion is unusual in that its phage lambda-like tails have an exceptionally long (3,43

145 Apart from phage lambda, little is known about other phages that ta

146 Here we show that regulated expression of phage lambda lysis genes S and R causes dramatic lysis o

147 he historical and ongoing development of the phage lambda lysis-lysogeny decision as a model system t

148 ic phenotype selection is analyzed using the phage lambda lysis-lysogeny decision circuit as a model

149 mportant noise sources in gene expression of phage lambda lysogen are quantified using models describ

150 properties of a soluble, assembly-deficient phage lambda major capsid protein, MCP(W308A).

151 Some of the dispensable features of phage lambda may be evolutionary refinements.

152 e demonstrate by inserting the chromosome of phage lambda (minus a region apparently unstable in Esch

153 A td intron-phage lambda model system was developed to analyze exon

154 uss the origins and progress of quantitative phage lambda modeling from the 1950s until today, as wel

155 predicted Walker-B ATP-binding motif in the phage lambda motor and to investigate the roles of the c

156 of Rho-dependent transcription termination, phage lambda N and rRNA transcription antitermination, a

157 RNase P from Escherichia coli can cleave phage lambda N mRNA in vitro or in vivo when the mRNA is

158 Stabilization of these contacts by phage lambda N protein leads to antitermination.

159 n vivo and in vitro at pause sites distal to phage lambda N-Utilization (nut) site RNA sequences.

160 h motif of the phage HK022 Nun protein binds phage lambda nascent mRNA transcripts while the carboxy-

161 nd binds to the N utilization (nut) sites on phage lambda nascent RNA and induces transcription termi

162 nine-rich motif of coliphage HK022 Nun binds phage lambda nascent transcript, whereas the carboxyl-te

163 HK022 Nun protein binds to NUT sequences in phage lambda nascent transcripts and induces transcripti

164 radigm for this abundance-driven decision is phage lambda of E. coli, whose propensity to lysogenize

165 In this sense, phage WO might be likened to phage lambda of the endosymbiont world.

166 undle with unexpected structural homology to phage lambda Orf, a protein that binds to E. coli single

167 pression of a gene(s) from the nin region of phage lambda partially complemented both the viability a

168 studies of the closed complex formed on the phage lambda prmup-1 Delta265 promoter under reaction co

169 n and prenicking at various positions of the phage lambda prmup-1Delta265 promoter DNA on the rate of

170 sible; however, here we demonstrate that the phage lambda procapsid can be expanded with urea in vitr

171 tment of the phosphorylated CTF doublet with phage lambda protein phosphatase eliminated the 20- to 2

172 The enzymes of phage lambda provide a model for understanding a recombi

173 eam of the gene encoding the analogue of the phage lambda Q transcription activator with its site of

174 like the Redbeta synaptase component of the phage lambda recombinase.

175 mediated recombination distinguishes it from phage lambda recombination, in which the phage recombina

176 y be more relevant to the process of in vivo phage lambda recombination.

177 a two-subunit recombinase reminiscent of the phage lambda Red alpha/beta recombination system and tha

178 n this procedure, recombination requires the phage lambda Red recombinase, which is synthesized under

179 we find that both Escherichia coli RecET and phage lambda Red recombination proteins function ineffic

180 model for viral recombination, based on the phage lambda Red recombination system, is proposed.

181 ets recombinant joint molecules arising from phage lambda Red-mediated genetic exchange.

182 PCR mutagenesis, overlap extension PCR, and phage lambda Red-mediated homologous recombination and t

183 Phage lambda-Red proteins are powerful tools for pulling

184 ucture and energy of the encapsidated DNA in phage lambda regulates the mobility required for its eje

185 We have addressed this question using the phage lambda regulatory circuit, which can persist in tw

186 ein, CI, is essential to the behavior of the phage lambda regulatory circuit.

187 s seen in other groups of phages such as the phage lambda-related group of phages of enteric hosts an

188 In this classic phage conflict, P2-OLD halts phage Lambda replication in host cells carrying the P2 p

189 new high resolution crystal structure of the phage lambda repressor reveals the basis for repressor d

190 -studied cooperative interactions is that of phage lambda repressor, which binds cooperatively to two

191 orts real-time measurements of ejection from phage lambda, revealing how the speed depends on key phy

192 role of diverse rII homologues in subverting phage Lambda RexAB-mediated immunity to superinfection a

193 t of Escherichia coli's RecBCD function with phage lambda's Red function generates a strain whose chr

194 Cosmids are plasmids that contain the phage lambda sequences (cos) required for packaging of t

195 d to trap Holliday junction intermediates of phage lambda site-specific recombination in vivo.

196 Salmonella chromosome architecture using the phage lambda site-specific recombination system as a pro

197 Peptide inhibitors of phage lambda site-specific recombination were previously

198 fitness, we constructed a series of isogenic phage lambda strains that differ only in their late prom

199 Isogenic phage lambda-strains with different combinations of six

200 hod to the dynamics of reduced models of the phage lambda switch, and show that the switching times b

201 ally, we present data which demonstrate that phage lambda terminase can efficiently utilize DNA from

202 Phage lambda terminase carries out the cos cleavage reac

203 ve thus constructed a deletion mutant of the phage lambda terminase gpNu1 subunit which constitutes a

204 y are displayed as fusions to the surface of phage lambda that are marked with different selectable d

205 Compared to phage lambda, the covalent crosslinking at the icosahedr

206 n N regulates the transcriptional program of phage lambda through recognition of RNA enhancer element

207 We extend this concept by engineering phage lambda to deliver CRISPR-guided transposases, acco

208 p in bacteriophage infection, the docking of phage lambda to its membrane receptor maltoporin, at the

209 e results suggest a remarkable adaptation of phage lambda to the environment of its host bacteria in

210 ntly, the enthalpy) during DNA ejection from phage lambda, triggered in solution by a solubilized rec

211 predicted to adopt the beta-sandwich fold of phage lambda TTP.

212 We have recently found that DNA packaged in phage lambda undergoes a disordering transition triggere

213 To achieve this, we engineered phage lambda using homologous recombination paired with

214 this paper we study the stable behaviours of phage lambda via a hybrid system based model.

215 Recently, the holin S gene of phage lambda was overexpressed and the holin protein was

216 minal portion of the cl repressor protein of phage lambda was used as a reporter of dimerization in E

217 e microscopy nanoindentation measurements of phage lambda, we previously proposed a minimal model des

218 al class I lambda holin, the S105 protein of phage lambda, which controls lysis by forming holes in t

219 s complex with an orthologous structure from phage lambda, which has a dissimilar binding site sequen

220 previously shown that the Cro repressor from phage lambda, which is a dimer, can be converted into a

221 Unlike phage lambda, which is a member of the Siphoviridae fami

222 Phage lambda with the chimeric terminase is unable to fo

223 ction of each copy, a helper plasmid bearing phage lambda xis and int genes is introduced into the ce

224 ent on DNA similar to that described for the phage lambda Xis protein.