Cleavage of yeast tRNAPhe with complementary oligonucleotide conjugated to a small ribonuclease mimic

An oligonucleotide conjugate bearing a chemical construct mimicking the catalytic center of ribonuclease A has been designed and studied. The conjugate efficiently cleaves yeast tRNAPhe at a single site adjacent to the target complementary sequence.     

Essential features and rational design of CRISPR RNAs that function with the Cas RAMP module complex to cleave RNAs

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Highlights? CRISPR RNA function requires a conserved CRISPR sequence tag ? CRISPR RNAs can be engineered to direct cleavage of novel target RNAs ? The Cmr complex cleaves complementary RNAs in vivo     

PAcM-AN: Poly(N-Acryloylmorpholine)-Conjugated Antisense Oligonucleotides

Abstract

A new amphiphilic, high-molecular weight poly (N-acryloylmorpholine) (PAcM) polymer has been used to be linked to oligonucleotide chains through a liquid-phase stepwise synthesis. This new conjugate has been investigated for its melting property, nuclease stability and capacity to elicit RNase H activity. Its antisense activity against an HIV-1 target has been also evaluated.     

A Rapid Deprotection Procedure for Phosphotriester DNA Synthesis

Abstract

An equimolar solution of aldoxime and tetramethylguanidine at 70°C cleaves all base labile protecting groups from oligonucleotides.     

Synthesis and Biological Evaluation of a Carbocyclic Azanoraristeromycin Siderophore Conjugate

Abstract

Synthesis and biological evaluation of a carbocyclic azanoraristeromycin siderophore conjugate 22 is reported. Coupling of previously prepared L-alanyl-4′-azanoraristeromycin 19 with protected tripeptide trihydroxamate 20, followed by hydrogenolytic removal of all protecting groups, provided the first carbocylic azanoraristeromycin siderophore conjugate (22, 8 with iron). Compounds 19 and 22 showed inhibitory activity against tumor cells, and conjugate 22, in particular, displayed significant activity against those viruses (i.e. reo, parainfluenza, vaccinia, cytomegalo) that are known to be inhibited by S-adenosylhomocysteine hydrolase inhibitors.     

DNA Conjugates as Novel Functional Oligonucleotides

Abstract

Oligodeoxynucleotides with RNA cleavage activity 1) were conjugated with amines and peptides by solid phase fragment condensation (SPFC). It was found that 29 mer DNA enzyme conjugated with spermine at its 5′-end showed higher affinity to the target RNA sequence and 40 times higher activity of cleavage than native DNA enzyme. It is also to be noted that conjugate DNA enzymes showed increased resistance against nuclease digestion     

The Affinity of an Oligodeoxynucleotide-Peptide Conjugate for an RNA Hairpin Loop Depends on Stereochemistry at the DNA-Peptide Junction

Abstract

Molecular models of an oligodeoxynucleotide-peptide conjugate complexed to an RNA hairpin loop were constructed to assess the effect of stereoisomerism at the point of attachment of the peptide to the oligodeoxynucleotide on the affinity of the conjugate for an RNA target. The peptide portion of the oligodeoxynucleotide-peptide conjugate, (L-lysine)₈, was covalently attached to the N-allyl group of (D)- or (L)-aspartic alcohol that was incorporated into the interior of an antisense oligodeoxynucleotide. The stereocenter in the oligodeoxynucleotide interior originates from either (D)- or (L)-aspartic alcohol. The oligodeoxynucleotide portion of the oligodeoxynucleotide-peptide conjugate forms Watson-Crick base pairs with the single-stranded RNA that flanks the RNA hairpin loop. The positively charged peptide makes specific electrostatic contacts with the negatively charged phosphate backbone of the RNA hairpin loop when attached to the N-allyl of (D)-aspartic alcohol but does not have the proper orientation to make these electrostatic contacts when attached to the N-allyl of (L)-aspartic alcohol. This modelling study emphasizes the importance of stereocontrol at the point of branching in synthesizing oligodeoxynucleotide-peptide conjugates for binding of RNA hairpin loops.     

Folate receptor targeted NIR cleavable liposomal delivery system augment penetration and therapeutic efficacy in breast cancer

BackgroundLiposomes are predominantly used sorts of nanocarriers for active a targeted delivery through surface functionalization using targeting ligand. The folate receptors are overexpressed in various cancers including breast cancer and because of its binding aptitude specifically to folate receptors, folic acid became the attractive ligand.MethodsIn this research, we have developed a folate and Poly-l-Lysine conjugate and coated this conjugate onto the liposomes. The prepared liposomes were characterized using DLS, FTIR, NMR, SEM, TEM, XRD, AFM, stability and drug release studies. Furthermore, in vitro studies were carried out on FR overexpressed breast cancer cell line.ResultsThe FA-LUT-ABC-Lip have diameter of 183 ± 3.17 nm with positive surface charge +33.65 ± 3 mV and the drug release studies confirm the NIR responsive payload cleavage. The coated formulation (in presence of NIR light) effectively reduced the IC₅₀ values and kills breast cancer cells through FR mediated internalization and accelerated drug release. Moreover, LUT Formulation shows anticancer effect due to significant inhibition of cell migration and proliferation by regulating VEGF expression and induced apoptosis through the caspase-3 up-regulation.ConclusionIt is evident from the in vitro studies that the formulation was found to be very effective and can be explored for triggered and targeted delivery of the substances through active targeting.General significanceCombining receptor mediated drug delivery with triggered release aid in more amounts of drug reaching the target site and achieving enhanced therapeutic activity.     

Interposition of different chemical linkages between antibody and 111In-DTPA to accelerate clearance from non-target organs and blood

Two chemically labile linkages, disulfide and diester, and two stable linkages, thioether and hydrocarbon, were introduced between antibody and ¹¹¹In-DTPA in order to modify their biodistributions. The biodistributions of the new linkages were evaluated in rats with target antigens localized in lungs. For a comparison purpose, the antibody-DTPA conjugate with a peptide linkage was used as a control conjugate. The antibody conjugates with the stable linkages produced the biodistributions similar to that of the peptide linked conjugate during a 48 h period. The disulfide and diester conjugates, however, cleared from blood much faster and are retained in normal organs much lower than the peptide conjugate. The disulfide and the diester conjugate amplified the lung (target) to blood ratio by 15 and 6 times, respectively at 48 h, as compared to the corresponding target to blood ratio of the control conjugate. Compared to the control conjugate, a 3 times higher target to liver ratio was also obtained by the disulfide conjugate and a 4 times higher target to kidney ratio was obtained by the diester conjugate at 48 h.     

Ribonuclease T1 Cleaves RNA After Guanosines Within Single-Stranded Gaps of Any Length

Abstract

RNA-oligonucleotides with defined single-stranded stretches were designed to investigate the minimal requirements of a ribonuclease T1 substrate. It could be shown, that RNase T1 cleaves single-stranded RNA after a unique guanosine flanked by two double-stranded areas. However, the turnover of such a G-gap is significantly lower than that of a gap of two, three or four nucleotides.     

Stability of Stereoregular Oligo(Nucleoside Phosphorothioate)s in Human Cells. Diastereoselectivity of Cellular 3′-Exonuclease

Abstract

Stability of oligo(nucleoside phosphorothioate)s (PS-oligos) in HUVEC (human umbilical vein endothelial cells) has been studied. Cytosolic fraction of HUVEC possesses 3′-exonucleolytic activity which is responsible for degradation of natural oligomers and PS-oligos. The enzyme is R_p-specific, i.e. it cleaves internucleotide phosphorothioate function of R_p- and not S_p-configuration at phosphorus atom.     

Production of polyclonal antibodies towards the immunodetection of insecticide phosalone

Summary Hapten synthesis for the production of specific insecticide phosalone polyclonal antibodies was carried out starting from an intermediate of the phosalone synthesis, 6-chloro-2-benzoxazolone1. Two haptens containing different spacers have been prepared: N-5-carboxypentyl-6-chloro-2-benzoxazolone7 and N-(2-oxo-3-aza-5-carboxypentyl)-6-chloro-2-benzoxazolone12. Each of these two haptens conjugated to bovine serum albumine (BSA) was used to immunize four rabbits. Immunoassays of phosalone were performed with ELISA using solid-phase bound hapten thyroglobulin conjugate and horseradish peroxidase labelled goat antirabbit IgG. The more sensitive response was observed when the antiserum obtained from the rabbit immunized with the hapten-BSA conjugate containing the N-2-oxo-3-aza-5-carboxypentyl spacer was in competition with the same hapten coupled to thyroglobulin. An identical response was obtained under the same conditions when using benzoxazolone instead of phosalone as competitor, showing a good recognition of the specific aromatic part of the organophosphate insecticide phosalone. Reduction of coating conjugate concentration (from 2 to 0.05g/well) and also the use of heterologous coating protein instead of homologous did improve the sensitivity, resulting in a concentration of phosalone required to inhibit binding by 50% of 2 mg/l and a detection limit of 0.02 mg/l.     

Modification of a Phosphorothioate Oligonucleotide with Cholesterol Induces Association of the Oligonucleotide to Serum Lipoproteins and Affects Its Biological Fate

Abstract

A cholesterol-conjugated phosphorothioate ICAM-1 antisense oligo-nucleotide was evaluated for its binding to lipoproteins and its biodistribution. Our study indicates that the conjugate behaves differently from the parent compound.     

Synthesis of 2′,5′-Dideoxy-adenosine-3′-monophosphate Derivatives as Allosteric Inhibitors of Adenylyl Cyclase

Abstract

The synthesis of a fluorescent and a lipophilic conjugate of 2′,5′-dideoxy-3′-AMP, an allosteric inhibitor of adenylyl cyclase, has been devised.     

A Simple and Efficient Procedure for the Synthesis of an Alendronate- Oligonucleotide Conjugate via a Carbamate Linker

Abstract

In order to combine the biological properties of oligonucleotides, a synthetic chemical modelized reaction was performed and the procedure then applied to the preparation of an alendronate-deoxyoligonucleotide conjugate through a carbamate linker.     

A Convenient Method for Labeling Oligonucleotide Analogs by a Fluorogenic Tag for Direct In Vitro and In Vivo Visualization of Carboxyesterase Activity

Abstract

The synthesis of two oligonucleoside phosphorothioate and methyl-phosphonate analogs functionalized with a fluorogenic tag is described. The fluorescent conjugate formation is demonstrated in cell culture medium, cell extracts and in human fibroblasts.