Chemoenzymatic Synthesis of a Gene Control Region

Abstract

By the phosphitetriester approach we synthesized the fragments for constructing a synthetically idealized promoter (SIP). The total construction consists of the promoter, operator and Shine-Dalgarno (SD) region. This control region was fused to the gene for γ-interferon.

We chemically synthesized a control region in order to optimally express our synthetic genes considering the following criteria. For easy modifications, e.g. for structure function studies we designed each functional domain as a cassette which can conveniently be dissected by the appropriate restriction enzymes. The regulation unit consists of a promoter^1,2, an operator³ and a Shine-Dalgarno-sequence⁴ (FIG. 1).     

A Convenient Synthesis of 2′-Deoxy-2-fluoroadenosine; a Potential Prodrug for Suicide Gene Therapy

Abstract

A convenient synthesis of 2′-deoxy-2-fluoro-adenosine (1) is described. Deaminative fluorination of 2-aminoadenosine (2) followed by silylation of the 3′, 5′-hydroxyl groups gave the corresponding 2-fluoroadenosine derivative 4 in good yield. Thiocarbonylation of 4 to thiocarbonylimidazolyl derivative 5a followed by treatment with an excess of tris(trimethylsilyl)silane (TTMSS) and tert-butyl peroxide in toluene at 80 [ddot]C was found to affect an efficient deoxygenation to the corresponding 2′-deoxy derivative 6. Desilylation of 6 by Et₄NF in CH₃CN afforded 1 in high yield.     

Synthesis of a Gene Coding for Human Vasoactive Intestinal Peptide (VIP)

Abstract

A gene coding for human Vasoactive Intestinal Peptide (VIP) was designed as a double-stranded 99 base pair DNA sequence. The sixteen fragments of the gene were chemically synthesized using a solid-phase phosphoramidite triester coupling approach and enzymatically assembled using T4 DNA ligase. The resulting gene was cloned into pBR322 and sequenced using the Maxam-Gilbert sequencing procedure.     

Synthesis of a Gene Coding for Vasoactive intestinal Peptide (VIP)

Abstract

A solid phase phosphoramidite triester coupling approach was used for the synthesis of the 16 fragments of a gene coding for human/porcine VIP. The design, synthesis, purification, subcloning and sequencing of the gene will be described.     

A Large Fragment Approach to Gene Synthesis

Abstract

The total synthesis of a 232 base-pair coding sequence of the proteinase inhibitor eglin c from only six synthetic fragments is described.     

Selective Synthesis and Application to the Synthesis of (E)-Fluorovinyl Nucleosides

A selective method for synthesizing (E)-fluorovinyl was developed. Novel acyclic (E)-fluorovinyl versions of neplanocin A were designed and selectively synthesized as potential antiviral agents. The condensation of the bromide 7 with the nucleosidic bases (5-FU, C, A, G) and the deprotection afforded the desired acyclic fluorovinyl nucleosides. The synthesized compounds 11, 12, 13, and 16 were evaluated for their antiviral activity. The guanine derivative 16 showed toxicity-dependent anti-HIV-1 activity in MT-4 cells.     

Chemical Synthesis and Cloning of a Gene Coding for Bacillus Subjilis Hbsu Protein

Abstract

A gene coding for Bacillus subtilis non-specifically DNA-binding HBsu protein has been chemically synthesized and cloned. The gene was designed to permit expression of the encoded protein in several ways.     

Investigating micronucleus assay applicability for prediction of normal tissue intrinsic radiosensitivity in gynecological cancer patients

BackgroundPelvic organs morbidity after irradiation of cancer patients remains a major problem although new technologies have been developed and implemented. A relatively simple and suitable method for routine clinical practice is needed for preliminary assessment of normal tissue intrinsic radiosensitivity. The micronucleus test (MNT) determines the frequency of the radiation induced micronuclei (MN) in peripheral blood lymphocytes, which could serve as an indicator of intrinsic cell radiosensitivity.AimTo investigate a possible use of the micronucleus test (MNT) for acute radiation morbidity prediction in gynecological cancer patients.Materials and methodsForty gynecological cancer patients received 50 Gy conventional external pelvic irradiation after radical surgery. A four-field “box” technique was applied with 2D planning. The control group included 10 healthy females.Acute normal tissue reactions were graded according to NCI CTCAE v.3.0. From all reaction scores, the highest score named “summarized clinical radiosensitivity” was selected for a statistical analysis.MNT was performed before and after in vitro irradiation with 1.5 Gy. The mean radiation induced frequency of micronuclei per 1000 binucleated cells (MN/1000) and lymphocytes containing micronuclei per 1000 binucleated cells (cells with MN/1000) were evaluated for both patients and controls.An arbitrary cut off value was created to pick up a radiosensitive individual: the mean value of spontaneous frequency of cells with MN/1000 ± 2SD, found in the control group.ResultsBoth mean spontaneous frequency of cells with MN/1000 and MN/1000 were registered to be significantly higher in cancer patients compared to the control group (t = 2.46, p = 0.02 and t = 2.51, p = 0.02). No statistical difference was registered when comparing radiation induced MN frequencies between those groups.Eighty percent (32) of patients developed grade 2 summarized clinical radiosensitivity, with great variations in MNT parameters. Only three patients with grade 2 “summarized clinical radiosensitivity” had values of cells with MN/1000 above the chosen radiosensitivity threshold.ConclusionThe present study was not able to confirm in vitro MNT applicability for radiosensitivity prediction in pelvic irradiation.     

Synthesis and Fluorescent Properties of 6-(4-Biphenylyl)-3,9-dihydro-9-oxo-5H-imidazo[1,2-A]purine Analogues of Acyclovir and Ganciclovir

Abstract

Tricyclic (T) analogues of acyclovir (ACV, 1) and ganciclovir (GCV, 2) carrying the 3,9-dihydro-9-oxo-5H-imidazo[1,2-a]purine system [i.e., 6-(4-BrPh)TACV, 5 and 6-(4-BrPh)TGCV, 6] were transformed into 6-[(4′-R²)-4-biphenylyl] derivatives of TACV (7–9) and TGCV (10–12) by Suzuki cross coupling with 4-substituted phenylboronic acids. Compound 11 (R² = CH₂OH) showed a high (～1000) selectivity index against herpes simplex virus type 1 (HSV-1) together with advantageous fluorescence properties (emission in visible region, little overlap with absorption and moderate intensity).     

Chemoenzymatic Gene Synthesis of A Gene for Human Growth Hormone Releasing Hormone (hGHRH), its Expression in E. Coli and Enzymatic Amidation

Abstract

A gene coding for hGHRH was constructed from chemically synthesized oligonucleotides in two fragments; After subcloning and joining the total gene was expressed in E. coli as a fusion protein with β-galactosidase. Chemical cleavage thereof with cyanogen bromide, purification of Leu²⁷ GHRH-Gly⁴⁵ by chromatography followed by enzymatic conversion yielded Leu²⁷ GHRHNH₂.     

Bacterial Protein Interaction Networks: Connectivity is Ruled by Gene Conservation,Essentiality and Function

BackgroundProtein-protein interaction (PPI) networks are the backbone of all processes in living cells. In this work, we relate conservation, essentiality and functional repertoire of a gene to the connectivity k (i.e. the number of interactions, links) of the corresponding protein in the PPI network.MethodsOn a set of 42 bacterial genomes of different sizes, and with reasonably separated evolutionary trajectories, we investigate three issues: i) whether the distribution of connectivities changes between PPI subnetworks of essential and nonessential genes; ii) how gene conservation, measured both by the evolutionary retention index (ERI) and by evolutionary pressures, is related to the connectivity of the corresponding protein; iii) how PPI connectivities are modulated by evolutionary and functional relationships, as represented by the Clusters of Orthologous Genes (COGs).ResultsWe show that conservation, essentiality and functional specialisation of genes constrain the connectivity of the corresponding proteins in bacterial PPI networks. In particular, we isolated a core of highly connected proteins (connectivities k≥40), which is ubiquitous among the species considered here, though mostly visible in the degree distributions of bacteria with small genomes (less than 1000 genes).ConclusionThe genes that support this highly connected core are conserved, essential and, in most cases, belong to the COG cluster J, related to ribosomal functions and the processing of genetic information.     

Nucleotides. LXXIV Synthesis of a-D-Arabino-oligonucleotides

The 5 α-D-arabinofuranosylnucleosides α-araU (15), α-araT (18), α-araC (22), α-araA (25), and α-araG (28) have been synthesized by the modified silyl-method. The amino groups at the nucleobases and the 2′-hydroxy group at the sugar moiety were protected by the 2-(4-nitro-phenyl) ethoxycarbonyl (npeoc) group (37-40) and the amide function in α-araG was additionally blocked by the 2-(4-nitrophenyl)ethyl group (63) to improve solubility in organic solvents. Mono-and dimethoxytritylation of the 5′-OH group was performed in the usual manner to give 41-48, 64, and 65 in high yields and further substitution of the 3′-OH group led to the monomeric building blocks 66-75 as well as the 3′-O-succinoyl derivatives 76-85 functioning as starting units in solid-support oligonucleotide synthesis. A large number of oligo-α-arabinonucleotides have been prepared on modified CPG-material applying the npeoc/npe strategy as a very efficient synthetic tool for highly purified, homogenous oligomers. Hybridizations between α-arabinonucleotide strands revealed in analogy to earlier findings an antiparallel orientation whereas the combination of an oligo-α-D-arabinonucleotide with a complementary oligo-2′-deoxy-β-D-ribofuranosylnucleotide showed base-pairing only if a parallel polarity was present. The advantages in oligo-α-arabinonucleotide synthesis were furthermore demonstrated by the synthesis of the tα-ANA ^his a structural analog of the natural tRNA ^his of the phage T5.     

A Versatile Synthesis of Dihydropyrimidinone C‐Nucleosides

A versatile synthesis of N‐substituted dihydropyrimidinone C‐nucleosides (20–29) is described. Glycosyl amino esters (3–9), obtained by reductive alkylation of glycosyl amino esters 1 and 2, on condensation with different isocyanates afforded respective ureido derivatives (10–19) in good to quantitative yields. The latter on cyclative amidation with a combination of DBU/TBAB (tetrabutylammonium bromide)/4Å molecular sieve gave the corresponding nucleosides (20–29) in good yields.     

脂质体介导VEGF基因对成骨细胞增殖、合成骨钙素以及细胞周期的相关研究

目的:研究脂质体介导血管内皮生长因子(VEGF)基因对成骨细胞增殖、合成骨钙素以及细胞周期的影响。方法:通过脂质体介导的基因转染方法,将携带外源性VEGF重组pcDNA3-hVEGF质粒导入体外培养的成骨细胞,酶联免疫吸附测定法(ELISA)检测转染后细胞中VEGF浓度变化,以判断转染效果;采用细胞计数法检测转染重组质粒的成骨细胞的增殖活性;流式细胞术检测转染重组质粒的成骨细胞周期的变化;ELISA检测转染重组质粒的成骨细胞骨钙素浓度变化。结果:与对照组相比,转染组成骨细胞中VEGF的浓度显著增加,与对照组间差异具有统计学意义(P0.05);转染重组质粒的成骨细胞的增殖能力较对照组显著增强,差异具有统计学意义(P0.05),与对照组相比,转染重组质粒的成骨细胞周期(G2/M+S)%明显增加,差异具有统计学意义(P0.05);转染重组质粒的成骨细胞合成的骨钙素浓度较对照组显著升高,差异具有统计学意义(P0.05)。结论:脂质体介导成骨细胞增加血管内皮生长因子的水平,可促进成骨细胞增殖,增加成骨细胞骨钙素的浓度,从而提高成骨细胞的功能。     

Synthesis and Absolute Configuration of Pyriculol

A total synthesis of optically active pyriculol is described. The Wittig reaction between an aldehyde 19 and a triphenylphosphonium ylide 12 gave an intermediate 20. Successive treatment of 20 with p-toluenesulfonic acid, active manganese dioxide, and potassium carbonate gave (3′R,4′S)-pyriculol (23), which was identical with natural pyriculol (1) in all respects. From this synthesis, the absolute stereochemistry of pyriculol (1) was determined to be 2-[(3′R,4′S)-3′,4′-dihydroxy- (1′E,5′E)-1′,5′-heptadienyl]-6-hydroxybenzaldehyde     

Finger Prick Dried Blood Spots for HIV Viral Load Measurement in Field Conditions in Zimbabwe

BackgroundIn the context of a community-randomized trial of antiretrovirals for HIV prevention and treatment among sex workers in Zimbabwe (the SAPPH-IRe trial), we will measure the proportion of women with HIV viral load (VL) above 1000 copies/mL (“VL>1000”) as our primary endpoint. We sought to characterize VL assay performance by comparing results from finger prick dried blood spots (DBS) collected in the field with plasma samples, to determine whether finger prick DBS is an acceptable sample for VL quantification in the setting.MethodsWe collected whole blood from a finger prick onto filter paper and plasma samples using venipuncture from women in two communities. VL quantification was run on samples in parallel using NucliSENS EasyQ HIV-1 v2.0. Our trial outcome is the proportion of women with VL>1000, consistent with WHO guidelines relating to regimen switching. We therefore focused on this cut-off level for assessing sensitivity and specificity. Results were log transformed and the mean difference and standard deviation calculated, and correlation between VL quantification across sample types was evaluated.ResultsA total of 149 HIV-positive women provided DBS and plasma samples; 56 (63%) reported being on antiretroviral therapy. VL ranged from undetectable-6.08 log₁₀ using DBS and undetectable-6.40 log10 using plasma. The mean difference in VL (plasma-DBS) was 0.077 log₁₀ (95%CI = 0.025–0.18 log₁₀; standard deviation = 0.63 log₁₀,). 78 (52%) DBS and 87 (58%) plasma samples had a VL>1000. Based on plasma ‘gold-standard’, DBS sensitivity for detection of VL>1000 was 87.4%, and specificity was 96.8%.ConclusionThere was generally good agreement between DBS and plasma VL for detection of VL>1000. Overall, finger prick DBS appeared to be an acceptable sample for classifying VL as above or below 1000 copies/mL using the NucliSENS assay.     

A Convenient Method for the Synthesis of ATP and Ap4A

Abstract

A bifunctional phosphorylating reagent, O-8-(5-chloroquinolyl) S-phenyl phosphorothioate (1) was employed for the synthesis of adenosine 5′-triphosphate (ATP) and diadenosine 5′-tetraphosphate (Ap₄A) from adenosine 5′-phosphate (AMP) on a large scale.     

Synthesis and biological evaluation of some new pyridazinone derivatives

A series of pyridazinone derivatives (19–34) were synthesized with an aim to synthesize safer anti-inflammatory agents. The compounds were evaluated for their anti-inflammatory, analgesic, ulcerogenic and lipid peroxidation (LPO) actions. The percentage inhibition in edema at different time intervals indicated that compounds 20, 26, 28 and 34 exhibited good anti-inflammatory potential, comparable with that of ibuprofen (85.77%) within a range of 67.48–77.23%. The results illustrate that 5-(4-fluoro-benzyl)-3-(4-chloro-phenyl)-1,6-dihydro-6-pyridazinone (26) and 5-(4-chloro-benzyl)-3-(4-chloro-phenyl)-1,6-dihydro-6-pyridazinone (20) showed best anti-inflammatory activity. Furthermore, activity is more in case of chloro substitution as compared with methyl-substitution. The compounds synthesized were also evaluated for their ulcerogenic and LPO action and showed superior gastrointestinal safety profile along with reduction in LPO as compared with that of the ibuprofen.     

Synthesis and Biological Activity of Some 2-Aminopurine Carbonucleosides

Abstract

A series of new o ne t wo subtituted c arbonucleoside analogues (OTC) of purine was synthesized and evaluated against cytomegalovims and varicella-zoster virus in human embryonic lung (HEL) cells.     

New Acyclic Quinoxaline Nucleosides. Synthesis and Anti-Hiv Activity

A series of acyclonucleosides substituted 1-(4,5-dihydroxypentyl) (13-8) and 2-(4,5-dihydroxypentyloxy)quinoxalines (19-24) were synthesized by the sharpless asymmetric dihydroxylation of the derivatives 1-6 and 7-12, respectively. Treatment of the quinoxaline base 26 with (R)-2,2-dimethyl-1,3-dioxolan-4-ylmethyl-p-toluenesulfonate (27) in the presence of NaH/DMF furnished 28. Acid hydrolysis of 28 gave 1-(2,3-dihydroxypropyl)-6,7-dimethyl-quinoxaline-2-one (29). Alternatively, 29 was prepared by sharpless dihydroxylation of 30. All the compounds were evaluated for their in vitro anti-HIV-1 and HIV-2 in MT-4 cell and found inactive, except 29, which showed inhibition of HIV-1 with EC₅₀ value of 0.15 ± 0.1 μg/ml and a therapeutic index (SI) of 73.