1
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Li Q, Joshi D, Sanghvi YS, Yan H. Difluoroacetic acid: an alternative acid in the detritylation reaction for the solid-phase synthesis of oligonucleotides. Nucleosides Nucleotides Nucleic Acids 2024:1-9. [PMID: 38602371 DOI: 10.1080/15257770.2024.2337145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Accepted: 03/20/2024] [Indexed: 04/12/2024]
Abstract
Dichloroacetic acid or trichloroacetic acid are commonly used in the detritylation reaction of the automated solid-phase synthesis of oligonucleotides. Dichloroacetic acid, however, is often contaminated with trichloroacetaldehyde (chloral), leading to the formation of inseparable impurities in the final oligonucleotide product. In this work, three different sequences, namely T18, d(TAA)6, and an 18-mer mixed sequence, were used as models to compare the deprotection efficiency of three acids: trichloroacetic acid, dichloroacetic acid, and difluoroacetic acid. Comparable purities of full-length products were obtained for the synthesis of the three model sequences when dichloroacetic acid or difluoroacetic acid were used during the detritylation reaction, however, conditions need to be optimized for the synthesis of purine-rich sequences. Therefore, difluoroacetic acid is a potential alternative to dichloroacetic acid in the solid-phase synthesis of oligonucleotides to avoid the impurity formation due to presence of chloral.
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Affiliation(s)
- Quanjian Li
- Department of Chemistry, Brock University, St. Catharines, Ontario, Canada
| | - Dhruval Joshi
- Department of Chemistry, Brock University, St. Catharines, Ontario, Canada
| | | | - Hongbin Yan
- Department of Chemistry, Brock University, St. Catharines, Ontario, Canada
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2
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Patel M, Vora RK, Sanghvi YS, Kapdi A. Ambient Temperature Metal-Free Thiomethylation of Chloroheteroarenes and Chloropurines. Chem Asian J 2024:e202400114. [PMID: 38598666 DOI: 10.1002/asia.202400114] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Revised: 04/04/2024] [Accepted: 04/10/2024] [Indexed: 04/12/2024]
Abstract
Herein, we report an in-situ mild and metal-free protocol for thiomethylation of heteroarenes in high yields. The thiomethylation of various chloropurines, nucleosides, and chloroheteroarenes has been accomplished offering easy access to agrochemicals and synthetic molecules useful for drug discovery.
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Affiliation(s)
- Manisha Patel
- Institute of Chemical Technology, Chemistry, 302, Advance Centre,, Nathalal Parekh Road, Matunga, 400019, Mumbai, INDIA
| | - Ra K Vora
- Visvesvaraya National Institute of Technology, Chemistry, South Ambazari road, 440010, Nagpur, INDIA
| | - Yogesh S Sanghvi
- Rasayan Inc., Chemistry, 2802 Crystal Ridge Road, 92024-6615, UNITED STATES
| | - Anant Kapdi
- Institute of Chemical Technology, chemistry, Nathalal parekh road, 400019, mumbai, INDIA
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3
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Gadali KE, Rafya M, El Mansouri AE, Maatallah M, Vanderlee A, Mehdi A, Neyts J, Jochmans D, De Jonghe S, Benkhalti F, Sanghvi YS, Taourirte M, Lazrek HB. Design, synthesis, and molecular modeling studies of novel 2-quinolone-1,2,3-triazole-α-aminophosphonates hybrids as dual antiviral and antibacterial agents. Eur J Med Chem 2024; 268:116235. [PMID: 38377828 DOI: 10.1016/j.ejmech.2024.116235] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Revised: 02/01/2024] [Accepted: 02/12/2024] [Indexed: 02/22/2024]
Abstract
With the aim to identify new antiviral agents with antibacterial properties, a series of 2-quinolone-1,2,3-triazole derivatives bearing α-aminophosphonates was synthesized and characterized by 1H NMR, 13C NMR, 31P NMR, single crystal XRD and HRMS analyses. These compounds were examined against five RNA viruses (YFV, ZIKV, CHIKV, EV71 and HRV) from three distinct families (Picornaviridae, Togaviridae and Flaviviridae) and four bacterial strains (S. aureus, E. feacalis, E. coli and P. aeruginosa). The α-aminophosphonates 4f, 4i, 4j, 4k, 4p and 4q recorded low IC50 values of 6.8-10.91 μM, along with elevated selectivity indices ranging from 2 to more than 3, particularly against YFV, CHIKV and HRV-B14. Besides, the synthesized compounds were generally more sensitive toward Gram-positive bacteria, with the majority of them displaying significant potency against E. feacalis. Specifically, an excellent anti-enterococcus activity was obtained by compound 4q with MIC and MBC values of 0.03 μmol/mL, which were 8.7 and 10 times greater than those of the reference drugs ampicillin and rifampicin, respectively. Also, compounds 4f, 4p and 4q showed potent anti-staphylococcal activity with MIC values varying between 0.11 and 0.13 μmol/mL, compared to 0.27 μmol/mL for ampicillin. The results from DFT and molecular docking simulations were in agreement with the biological assays, proving the binding capability of hybrids 4f, 4i, 4j, 4k, 4p and 4q with viral and bacterial target enzymes through hydrogen bonds and other non-covalent interactions. The in silico ADME/Tox prediction revealed that these molecules possess moderate to good drug-likeness and pharmacokinetic properties, with a minimal chance of causing liver toxicity or carcinogenic effects.
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Affiliation(s)
- Khadija El Gadali
- Laboratoire de Recherche en Développement Durable et Santé, Faculty of Sciences and Technology Gueliz (FSTG), BP549, Marrakech 40000, Morocco; Laboratory of Molecular Chemistry, Department of Chemistry, Faculty of Sciences Semlalia, Marrakech 40000, Morocco
| | - Meriem Rafya
- Laboratoire de Recherche en Développement Durable et Santé, Faculty of Sciences and Technology Gueliz (FSTG), BP549, Marrakech 40000, Morocco
| | - Az-Eddine El Mansouri
- University of the Free State Faculty of Natural and Agricultural Sciences Chemistry Department 205 Nelson Mandela, Bloemfontein, 9301, South Africa
| | - Mohamed Maatallah
- Laboratory of Molecular Chemistry, Department of Chemistry, Faculty of Sciences Semlalia, Marrakech 40000, Morocco
| | - Arie Vanderlee
- Institut Européen des Membranes, IEM, UMR 5635, Univ. Montpellier, CNRS, ENSCM, 34095 Montpellier, France
| | - Ahmad Mehdi
- ICGM, UMR5253 1919, Route de Mende 34293 Montpellier cedex 5, France
| | - Johan Neyts
- KU Leuven, Department of Microbiology, Immunology and Transplantation, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, Herestraat 49, Box 1043, B-3000 Leuven, Belgium
| | - Dirk Jochmans
- KU Leuven, Department of Microbiology, Immunology and Transplantation, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, Herestraat 49, Box 1043, B-3000 Leuven, Belgium
| | - Steven De Jonghe
- KU Leuven, Department of Microbiology, Immunology and Transplantation, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, Herestraat 49, Box 1043, B-3000 Leuven, Belgium
| | - Fatiha Benkhalti
- Laboratoire de Recherche en Développement Durable et Santé, Faculty of Sciences and Technology Gueliz (FSTG), BP549, Marrakech 40000, Morocco
| | - Yogesh S Sanghvi
- Rasayan Inc, 2802 Crystal Ridge Road, Encinitas, CA 92024-6615, USA
| | - Moha Taourirte
- Laboratoire de Recherche en Développement Durable et Santé, Faculty of Sciences and Technology Gueliz (FSTG), BP549, Marrakech 40000, Morocco.
| | - Hassan B Lazrek
- Laboratory of Molecular Chemistry, Department of Chemistry, Faculty of Sciences Semlalia, Marrakech 40000, Morocco.
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4
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Seliger H, Sanghvi YS. An Update on Protection of 5'-Hydroxyl Functions of Nucleosides and Oligonucleotides. Curr Protoc 2024; 4:e999. [PMID: 38439607 DOI: 10.1002/cpz1.999] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/06/2024]
Abstract
The synthesis of natural and chemically modified nucleosides and oligonucleotides is in great demand due to its increasing number of applications in diverse areas of research. These include tools for diagnostics and proteomics, research reagents for molecular biology, probes for functional genomics, and the design, discovery, development, and manufacture of new therapeutics. The likelihood of success in synthesizing these molecules is often dependent on the correct choice of a protection strategy to block the 5'-hydroxyl group of a carbohydrate moiety, nucleoside, or oligonucleotide. This topic was reviewed extensively in the year 2000. The purpose of this article is to complement and update the original review with recently published methodologies recommended for the protection and deprotection of the 5'-hydroxyl group. © 2024 Wiley Periodicals LLC.
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5
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Bhowmik S, Ghosh T, Sanghvi YS, Das AK. Synthesis and Structural Studies of Nucleobase Functionalized Hydrogels for Controlled Release of Vitamins. ACS Appl Bio Mater 2023; 6:5301-5309. [PMID: 37971725 DOI: 10.1021/acsabm.3c00582] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
The development of biomolecule-derived biocompatible scaffolds for drug delivery applications is an emerging research area. Herein, we have synthesized a series of nucleobase guanine (G) functionalized amino acid conjugates having different chain lengths to study their molecular self-assembly in the hydrogel state. The gelation properties have been induced by the correct choice of chain lengths of fatty acids present in nucleobase functionalized molecules. The effect of alkali metal cations, pH, and the concentration of nucleobase functionalized amino acid conjugates in the molecular self-assembly process has been explored. The presence of Hoogsteen hydrogen bonding interaction drives the formation of a G-quadruplex functionalized hydrogel. The DOSY nuclear magnetic resonance is also performed to evaluate the self-assembling behavior of the newly formed nucleobase functionalized hydrogel. The nanofibrillar morphology is responsible for the formation of a hydrogel, which has been confirmed by various microscopic experiments. The mechanical behaviors of the hydrogel were evaluated by rheological experiments. The in vitro biostability of the synthesized nucleobase amino acid conjugate is also investigated in the presence of hydrolytic enzymes proteinase K and chymotrypsin. Finally, the nucleobase functionalized hydrogel has been used as a drug delivery platform for the control and sustained pH-responsive release of vitamins B2 and B12. This synthesized nucleobase functionalized hydrogel also exhibits noncytotoxic behavior, which has been evaluated by their in vitro cell viability experiment using HEK 293 and MCF-7 cell lines.
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Affiliation(s)
- Sourav Bhowmik
- Department of Chemistry, Indian Institute of Technology Indore, Indore 453552, India
| | - Tapas Ghosh
- Department of Chemistry, Indian Institute of Technology Indore, Indore 453552, India
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Apurba K Das
- Department of Chemistry, Indian Institute of Technology Indore, Indore 453552, India
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6
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Rajendra Prasad S, Penjarla S, Reddy PY, Rao BPC, Gundla R, Sanghvi YS, Banerjee S. A practical and scalable synthesis of several base modified 3'-O-methyl ribonucleosides. Carbohydr Res 2023; 534:108981. [PMID: 37992558 DOI: 10.1016/j.carres.2023.108981] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2023] [Revised: 11/06/2023] [Accepted: 11/06/2023] [Indexed: 11/24/2023]
Abstract
An easy and efficient large-scale synthesis of 1, 2,-di-O-acetyl-5-O-benzoyl-3-O-methyl-d-ribofuranose (8) was accomplished from commercial 1,2:5,6-di-O-isopropylidene-α-d-allofuranose in 7-steps and 30 % overall yield. The utility of protected 8 was demonstrated via synthesis of 9-(3'-O-methyl-β-d-ribofuranosyl)-6-chloropurine (21) and six other nucleoside analogues in good yields. A library of five novel base modified nucleosides were generated starting from purine nucleoside 21 via functional group manipulations. The 3'-O-modified nucleosides are known to act as chain terminator exerting antiviral activity. The synthesis strategy described herein offers direct access to 3'-O-alkylated nucleosides with wide range of applications, including cap analogues for mRNA vaccine production. This protocol provides a route to exclusive synthesis of 3'-O-alkylated nucleosides, devoid of isomeric 2'-O-alkylated products essential for both therapeutic and biological research.
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Affiliation(s)
- Samudrala Rajendra Prasad
- Sapala Organics Pvt. Ltd., Plot No. 146B & 147, IDA Mallapur, Hyderabad, 500 076, A.P., India; Department of Chemistry, GITAM Deemed to Be University, Hyderabad, Telangana, 502329, India
| | - Srishylam Penjarla
- Sapala Organics Pvt. Ltd., Plot No. 146B & 147, IDA Mallapur, Hyderabad, 500 076, A.P., India
| | - Paidi Yella Reddy
- Sapala Organics Pvt. Ltd., Plot No. 146B & 147, IDA Mallapur, Hyderabad, 500 076, A.P., India
| | - B Purna Chandra Rao
- Department of Chemistry, GITAM Deemed to Be University, Hyderabad, Telangana, 502329, India
| | - Rambabu Gundla
- Department of Chemistry, GITAM Deemed to Be University, Hyderabad, Telangana, 502329, India
| | - Yogesh S Sanghvi
- Sapala Organics Pvt. Ltd., Plot No. 146B & 147, IDA Mallapur, Hyderabad, 500 076, A.P., India; Rasayan Inc. 2802 Crystal Ridge Road, Encinitas, CA, 92024-6615, United States
| | - Shyamapada Banerjee
- Sapala Organics Pvt. Ltd., Plot No. 146B & 147, IDA Mallapur, Hyderabad, 500 076, A.P., India.
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7
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Martín-Nieves V, Menéndez-Méndez LM, Fàbrega C, Fernández S, Sanghvi YS, Ferrero M, Eritja R. Synthesis of 2'- O-Methyl/2'- O-MOE-L-Nucleoside Derivatives and Their Applications: Preparation of G-Quadruplexes, Their Characterization, and Stability Studies. ACS Omega 2023; 8:44893-44904. [PMID: 38046329 PMCID: PMC10688165 DOI: 10.1021/acsomega.3c06231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Revised: 10/03/2023] [Accepted: 10/11/2023] [Indexed: 12/05/2023]
Abstract
Nucleosides and their analogues constitute an important family of molecules with potential antiviral and antiproliferative activity. The enantiomers of natural nucleosides, l-nucleoside derivatives, which have comparable biological activity but more favorable toxicological properties and greater metabolic stability than d-nucleosides, have emerged as a new class of therapeutic agents. Furthermore, l-nucleosides can be used as a building block to prepare l-oligonucleotides, which have identical physical properties in terms of solubility, hybridization kinetics, and duplex thermal stability as d-oligonucleotides but completely orthogonal in nature. Consequently, they are resistant to nuclease degradation, nontoxic, and immunologically passive, which are desirable properties for biomedical applications. Herein, we describe the synthesis of several 2'-O-methyl/2'-O-MOE-l-nucleoside pyrimidine derivatives and their incorporation into G-rich oligonucleotides. Finally, we evaluated the stability and resistance against nucleases of these new G-quadruplexes, demonstrating the potential of the l-nucleosides described in this work in providing enhanced nuclease resistance with a minimal impact in the nucleic acid structural properties.
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Affiliation(s)
- Virginia Martín-Nieves
- Departamento
de Química Orgánica e Inorgánica, Universidad de Oviedo, Oviedo (Asturias) 33006, Spain
| | - Luis Miguel Menéndez-Méndez
- Departamento
de Química Orgánica e Inorgánica, Universidad de Oviedo, Oviedo (Asturias) 33006, Spain
- Dpt.
Chemical & Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), Barcelona 08034, Spain
- CIBER-BBN
Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona 08034, Spain
| | - Carme Fàbrega
- Dpt.
Chemical & Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), Barcelona 08034, Spain
- CIBER-BBN
Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona 08034, Spain
| | - Susana Fernández
- Departamento
de Química Orgánica e Inorgánica, Universidad de Oviedo, Oviedo (Asturias) 33006, Spain
| | - Yogesh S. Sanghvi
- Rasayan
Inc., 2802 Crystal Ridge
Road, Encinitas, California 92024-6615, United
States
| | - Miguel Ferrero
- Departamento
de Química Orgánica e Inorgánica, Universidad de Oviedo, Oviedo (Asturias) 33006, Spain
| | - Ramon Eritja
- Dpt.
Chemical & Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), Barcelona 08034, Spain
- CIBER-BBN
Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona 08034, Spain
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8
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Lachhab S, El Mansouri AE, Mehdi A, Dennemont I, Neyts J, Jochmans D, Andrei G, Snoeck R, Sanghvi YS, Ait Ali M, Loiseau PM, Lazrek HB. Synthesis of new 3-acetyl-1,3,4-oxadiazolines combined with pyrimidines as antileishmanial and antiviral agents. Mol Divers 2023; 27:2147-2159. [PMID: 36251201 PMCID: PMC9573813 DOI: 10.1007/s11030-022-10548-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2022] [Accepted: 10/07/2022] [Indexed: 11/25/2022]
Abstract
A new series of 3-acetyl-1,3,4-oxadiazoline hybrid molecules was designed and synthesized using a condensation between acyclonucleosides and substituted phenylhydrazone. All intermediates and final products were screened against Leishmania donovani, a Protozoan parasite and against three viruses SARS-CoV-2, HCMV and VZV. While no significant activity was observed against the viruses, the intermediate with 6-azatymine as thymine and 5-azathymine-3-acetyl-1,3,4-oxadiazoline hybrid exhibited a significant antileishmanial activity. The later compound was the most promising, exhibiting an IC50 value at 8.98 µM on L. donovani intramacrophage amastigotes and a moderate selectivity index value at 2.4.
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Affiliation(s)
- Saida Lachhab
- Laboratory of Biomolecular and Medicinal Chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakech, Morocco
| | - Az-Eddine El Mansouri
- Department of Chemistry, University of the Free State, P.O. Box 339, Bloemfontein, 9300, South Africa
| | - Ahmad Mehdi
- ICGM, Université Montpellier, CNRS, ENSCM, Montpellier, France
| | - Indira Dennemont
- Antiparasite Chemotherapy, CNRS, BioCIS, Université Paris-Saclay, Chatenay-Malabry, 92290, Paris, France
| | - Johan Neyts
- Rega Institute for Medical Research, KULeuven, Louvain, Belgium
| | - Dirk Jochmans
- Rega Institute for Medical Research, KULeuven, Louvain, Belgium
| | - Graciela Andrei
- Rega Institute for Medical Research, KULeuven, Louvain, Belgium
| | - Robert Snoeck
- Rega Institute for Medical Research, KULeuven, Louvain, Belgium
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, CA, 92024-6615, USA
| | - Mustapha Ait Ali
- Laboratory of Biomolecular and Medicinal Chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakech, Morocco
| | - Philippe M Loiseau
- Antiparasite Chemotherapy, CNRS, BioCIS, Université Paris-Saclay, Chatenay-Malabry, 92290, Paris, France
| | - Hassan B Lazrek
- Laboratory of Biomolecular and Medicinal Chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakech, Morocco.
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9
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Benckendorff CMM, Sanghvi YS, Miller GJ. Preparation of a 4'-Thiouridine Building-Block for Solid-Phase Oligonucleotide Synthesis. Curr Protoc 2023; 3:e878. [PMID: 37747330 PMCID: PMC10946921 DOI: 10.1002/cpz1.878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/26/2023]
Abstract
Starting from a commercially available thioether, we report a nine-step synthesis of a 4'-thiouridine phosphoramidite building-block. We install the uracil nucleobase using Pummerer-type glycosylation of a sulfoxide intermediate followed by a series of protecting group manipulations to deliver the desired phosphite. Notably, we introduce a 3',5'-O-di-tert-butylsilylene protecting group within a 4'-thiosugar framework, harnessing this to ensure regiospecific installation of the 2'-O-silyl protecting group. We envisage this methodology will be generally applicable to other 4'-thionucleosides and duly support the exploration of their inclusion within related nucleic acid syntheses. © 2023 The Authors. Current Protocols published by Wiley Periodicals LLC. Basic Protocol 1: (2R,3S,4R)-2,3-O-Isopopropylidene-5-O-tert-butyldiphenylsilyl-1-(4-sulfinyl)cyclopentane: Sulfoxidation Basic Protocol 2: 2',3'-O-Isopropylidene-5'-O-tert-butyldiphenylsilyl-4'-thiouridine: Pummerer glycosylation Basic Protocol 3: 4'-Thiouridine: Deprotection Basic Protocol 4: 2'-O-tert-Butyldimethylsilyl-3',5'-di-tert-butylsiloxy-4'-thiouridine: 2',3',5'-O-silylation Basic Protocol 5: 2'-O-tert-Butyldimethylsilyl-4'-thiouridine: Selective 3'-5'-desilylation Basic Protocol 6: 2'-O-tert-Butyldimethylsilyl-5'-O-dimethoxytrityl-4'-thiouridine: 5'-O-dimethoxytritylation Basic Protocol 7: 2'-O-tert-butyldimethylsilyl-3'-O-[(2-cyanoethoxy)(N,N-diisopropylamino)phosphino]-5'-O-dimethoxytrityl-4'-thiouridine: 3'-O-phosphitylation.
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Affiliation(s)
- Caecilie M. M. Benckendorff
- Centre for GlycoscienceKeele UniversityKeeleStaffordshireUnited Kingdom
- Lennard‐Jones Laboratory, School of Chemical and Physical SciencesKeele UniversityKeeleStaffordshireUnited Kingdom
| | | | - Gavin J. Miller
- Centre for GlycoscienceKeele UniversityKeeleStaffordshireUnited Kingdom
- Lennard‐Jones Laboratory, School of Chemical and Physical SciencesKeele UniversityKeeleStaffordshireUnited Kingdom
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10
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Gaware S, Kori S, Serrano JL, Dandela R, Hilton S, Sanghvi YS, Kapdi AR. Rapid plugged flow synthesis of nucleoside analogues via Suzuki-Miyaura coupling and heck Alkenylation of 5-Iodo-2'-deoxyuridine (or cytidine). J Flow Chem 2023; 13:1-18. [PMID: 37359287 PMCID: PMC10019434 DOI: 10.1007/s41981-023-00265-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 02/09/2023] [Indexed: 03/17/2023]
Abstract
Nucleosides modification via conventional cross-coupling has been performed using different catalytic systems and found to take place via long reaction times. However, since the pandemic, nucleoside-based antivirals and vaccines have received widespread attention and the requirement for rapid modification and synthesis of these moieties has become a major objective for researchers. To address this challenge, we describe the development of a rapid flow-based cross-coupling synthesis protocol for a variety of C5-pyrimidine substituted nucleosides. The protocol allows for facile access to multiple nucleoside analogues in very good yields in a few minutes compared to conventional batch chemistry. To highlight the utility of our approach, the synthesis of an anti-HSV drug, BVDU was also achieved in an efficient manner using our new protocol. Graphical abstract Supplementary Information The online version contains supplementary material available at 10.1007/s41981-023-00265-1.
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Affiliation(s)
- Sujeet Gaware
- Department of Chemistry, Institute of Chemical Technology, Indian Oil Odisha, Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Odisha-751013, Bhubaneswar, India
| | - Santosh Kori
- Department of Chemistry, Institute of Chemical Technology, Indian Oil Odisha, Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Odisha-751013, Bhubaneswar, India
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh road, Mumbai, Matunga 400019 India
| | - Jose Luis Serrano
- Departamento de Ingeniería Química y Ambiental. Área de Química Inorgánica, Universidad Politécnica de Cartagena member of European University of Technology, 30203 Cartagena, Spain
| | - Rambabu Dandela
- Department of Chemistry, Institute of Chemical Technology, Indian Oil Odisha, Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Odisha-751013, Bhubaneswar, India
| | - Stephen Hilton
- UCL School of Pharmacy, 29-39 Brunswick Square, London, WC1N 1AX UK
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802, Crystal Ridge, California, Encinitas CA92024-6615 USA
| | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh road, Mumbai, Matunga 400019 India
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11
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Gadali KE, Rafya M, Mansouri AEE, Maatallah M, Van-derlee A, Mehdi A, Ouahrouch A, Benkhalti F, Sanghvi YS, Taourirte M, Lazrek HB. Synthesis, structural characterization and antibacterial activity evaluation of novel quinolone-1,2,3-triazole-benzimidazole hybrids. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135179] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
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12
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Shet H, Patel M, Waikar JM, More PM, Sanghvi YS, Kapdi AR. Room-Temperature Dialkylamination of Chloroheteroarenes Using a Cu(II)/PTABS Catalytic System. Chem Asian J 2023; 18:e202201006. [PMID: 36355632 DOI: 10.1002/asia.202201006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 10/21/2022] [Indexed: 11/12/2022]
Abstract
The dimethylamino functionality has significant importance in industrially relevant molecules and methodologies to install these efficiently are highly desirable. We report herein a highly efficient, room-temperature dimethylamination of chloroheteroarenes performed via the in-situ generation of dimethylamine using N,N-dimethylformamide (DMF) as precursor wiith a large substrate scope that includes various heteroarenes, purines as well as commercially relevant drugs such as altretamine, ampyzine and puromycin precursor.
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Affiliation(s)
- Harshita Shet
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India.,Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar, 751013, Odisha, India
| | - Manisha Patel
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
| | - Jyoti M Waikar
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
| | - Pavan M More
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge road, Encinitas, CA 92024-6615, U.S.A
| | - Anant R Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
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13
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Kumar RK, Sanghvi YS, Reddy PY, Banerjee S. An Improved Scalable Synthesis of the Potent Antiviral (S)-HPMPA. Curr Protoc 2022; 2:e602. [PMID: 36440983 DOI: 10.1002/cpz1.602] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
We present an improved synthesis of (S)-HPMPA (1) from an easily accessible and commercially available compound, (S)-3-(benzyloxy)propane-1,2-diol (10). Tritylation of primary alcohol 10 was highly selective, and pure product was isolated in good yield. Alkylation of (R)-1-(benzyloxy)-3-(trityloxy)propan-2-ol (11) with diethyl p-toluenesulfonyloxymethyl phosphonate (6) using sodium hydride in tetrahydrofuran followed by detritylation afforded the desired chiral synthon 12. Tosylation of the primary alcohol and subsequent reaction with sodium adeninate afforded protected S-HPMPA (14). Global deprotection using concentrated hydrochloric acid in a sealed tube afforded S-HPMA (1), and the deprotected 1 was crystallized from water and acetone to obtain a 99% pure product. © 2022 Wiley Periodicals LLC. Basic Protocol 1: Preparation of (R)-1-(benzyloxy)-3-(trityloxy)propan-2-ol (11) Basic Protocol 2: Preparation of diethyl (S)-(((1-(benzyloxy)-3-hydroxypropan-2-yl)oxy)methyl)phosphonate (12) Basic Protocol 3: Preparation of (R)-3-(benzyloxy)-2-((diethoxyphosphoryl)methoxy)propyl-4-methylbenzenesulfonate (13) Basic Protocol 4: Preparation of diethyl (S)-(((1-(6-amino-9H-purin-9-yl)-3-(benzyloxy)propan-2-yl)oxy)methyl)phosphonate (14) Support Protocol 1: Preparation of sodium adeninate Basic Protocol 5: Preparation of (S)-(((1-(6-amino-9H-purin-9-yl)-3-hydroxypropan-2-yl)oxy)methyl)phosphonic acid (1).
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Affiliation(s)
| | - Yogesh S Sanghvi
- Sapala Organics Pvt. Ltd, Hyderabad, Telangana, India
- Rasayan Inc., Encinitas, California, USA
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14
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Mishra UK, Sanghvi YS, Abhiraj R, Sampathkumar SG, Ramesh NG. An expeditious synthesis of novel DNA nucleobase mimics of (+)-anisomycin. Carbohydr Res 2022; 520:108645. [PMID: 35964481 DOI: 10.1016/j.carres.2022.108645] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2022] [Revised: 08/01/2022] [Accepted: 08/01/2022] [Indexed: 11/15/2022]
Abstract
A glycal based expeditious synthesis of novel nucleoside analogues of (+)-anisomycin is reported. Readily available tri-O-benzyl-D-glucal was converted to a partially protected trihydroxypyrrolidine that is used as a common scaffold for the introduction of various nucleobases at the primary hydroxyl centre. Nucleoside analogues possessing all four DNA bases have been synthesized. Selective acetylation at C3 position was carried out with two of these unnatural nucleosides in order to mimic the structure of (+)-anisomycin. Cytotoxicity studies of some of these nucleosides showed that they display weaker activity on HeLa cells than Ara-C.
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Affiliation(s)
- Umesh K Mishra
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, CA, 92024-6615, USA
| | - R Abhiraj
- Laboratory of Chemical Biology, National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | | | - Namakkal G Ramesh
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India.
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15
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El Mansouri AE, Lachhab S, Oubella A, Ahmad M, Neyts J, Jochmans D, Chiu W, Vangeel L, De Jonghe S, Morjani H, Ali MA, Zahouily M, Sanghvi YS, Lazrek HB. Synthesis, characterization, molecular docking, and anticancer activities of new 1,3,4-oxadiazole-5-fluorocytosine hybrid derivatives. J Mol Struct 2022; 1272:134135. [PMID: 36101881 PMCID: PMC9459830 DOI: 10.1016/j.molstruc.2022.134135] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Revised: 09/07/2022] [Accepted: 09/08/2022] [Indexed: 01/18/2023]
Abstract
Analogs of pyrimidine and 1,3,4-oxadiazole are two well established class of molecules proven as potent antiviral and anticancer agents in the pharmaceutical industry. We envisioned designing new molecules where these two heterocycles were conjugated with the goal of enhancing biological activity. In this vein, we synthesized a series of novel pyrimidine-1,3,4-oxadiazole conjugated hybrid molecules as potential anticancer and antiviral agents. Herein, we present a new design for 5-fluorocytosine-1,3,4-oxadiazole hybrids (5a-h) connected via a methylene bridge. An efficient synthesis of new derivatives was established, and all compounds were fully characterized by NMR and MS. Eight compounds were evaluated for their cytotoxic activity against fibrosarcoma (HT-1080), breast (MCF-7 and MDA-MB-231), lung carcinoma (A-549), and for their antiviral activity against SARS-CoV-2. Among all compounds tested, the compound 5e showed marked growth inhibition against all cell lines tested, particularly in HT-1080, with IC50 values of 19.56 µM. Meanwhile, all tested compounds showed no anti-SARS-CoV-2 activity, with EC50 >100 µM. The mechanism of cell death was investigated using Annexin V staining, caspase-3/7 activity, and analysis of cell cycle progression. The compound 5e induced apoptosis by the activation of caspase-3/7 and cell-cycle arrest in HT-1080 and A-549 cells at the G2M phase. The molecular docking suggested that the compound 5e activated caspase-3 via the formation of a stable complex protein-ligand.
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Affiliation(s)
- Az-Eddine El Mansouri
- Laboratory of Biomolecular and Medicinal chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakesh, Morocco
- Laboratoire de Matériaux, Catalyse & Valorisation des Ressources Naturelles, URAC 24, Faculté des Sciences et Techniques, Université Hassan II, Casablanca B.P. 146, 20650, Morocco
| | - Saida Lachhab
- Laboratory of Biomolecular and Medicinal chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakesh, Morocco
| | - Ali Oubella
- Laboratoire de Synthese Organique et de Physico-Chimie Moleculaire, Departement de Chimie, Faculte´ des Sciences, Semlalia BP 2390, Marrakech 40001, Morocco
| | - Mehdi Ahmad
- ICGM, Univ. Montpellier, CNRS, ENSCM, Montpellier, France
| | - Johan Neyts
- Rega Institute for Medical Research, KU Leuven, Leuven, Belgium
| | - Dirk Jochmans
- Rega Institute for Medical Research, KU Leuven, Leuven, Belgium
| | - Winston Chiu
- Rega Institute for Medical Research, KU Leuven, Leuven, Belgium
| | - Laura Vangeel
- Rega Institute for Medical Research, KU Leuven, Leuven, Belgium
| | | | - Hamid Morjani
- BioSpecT - EA7506 UFR de Pharmacie, Univ-Reims 51, rue Cognacq Jay 51096 Reims cedex, France
| | - Mustapha Ait Ali
- Laboratory of Biomolecular and Medicinal chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakesh, Morocco
| | - Mohamed Zahouily
- Laboratoire de Matériaux, Catalyse & Valorisation des Ressources Naturelles, URAC 24, Faculté des Sciences et Techniques, Université Hassan II, Casablanca B.P. 146, 20650, Morocco
| | - Yogesh S Sanghvi
- Rasayan Inc. 2802 Crystal Ridge Road, Encinitas, CA 92024-6615, U.S.A
| | - Hassan B Lazrek
- Laboratory of Biomolecular and Medicinal chemistry, Faculty of Science Semlalia, University Cadi Ayyad, Marrakesh, Morocco
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16
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Kori S, Khandagale D, Sanghvi YS, Serrano JL, Lozano P, Kapdi AR. Suzuki-Miyaura Coupling, Heck Alkenylation, and Amidation of DMTr-Protected 5-Iodo-2'-Deoxyuridine via Palladium-catalyzed Reactions. Curr Protoc 2022; 2:e502. [PMID: 35895086 DOI: 10.1002/cpz1.502] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Modification of nucleosides via cross-coupling processes has been carried out extensively on unprotected halonucleosides to produce functionalized nucleosides that are often developed for incorporation into oligonucleotides or used as fluorescent probes. This approach requires protection of the 5'-OH with the 4,4'-dimethoxytrityl (DMTr) group, which is complicated and a common cause of reaction failure. Here we report a method for direct functionalization of 5'-O-DMTr-5-iodo-2'-deoxyuridine via Suzuki-Miyaura cross-coupling, Heck alkenylation, and carboamidation. This approach facilitates rapid synthesis of a variety of C5-substituted 5'-O-DMTr-2'-deoxyuridine derivatives. © 2022 Wiley Periodicals LLC. Basic Protocol 1: Synthesis of the SerrKap palladacycle complex Basic Protocol 2: Suzuki-Miyaura coupling of 5'-O-DMTr-5-iodo-2'-deoxyuridine using SerrKap palladacycle Basic Protocol 3: Heck coupling of 5'-O-DMTr-5-iodo-2'-deoxyuridine using SerrKap palladacycle Basic Protocol 4: Heck coupling of 5'-O-DMTr-5-iodo-2'-deoxyuridine with Ruth linker using Pd(OAc)2 /PTABS Basic Protocol 5: Carbonylative amidation of 5'-O-DMTr-5-iodo-2'-deoxyuridine using Pd(OAc)2 /PTABS.
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Affiliation(s)
- Santosh Kori
- Institute of Chemical Technology, Matunga, Mumbai, India
- Department of Chemistry, Institute of Chemical Technology, Indian Oil Odisha Campus Bhubaneswar, Odisha, India
| | | | | | - Jose L Serrano
- Departamento de Ingeniería Química y Ambiental, Universidad Politécnica de Cartagena, European University of Technology, Cartagena, Spain
| | - Pedro Lozano
- Departamento de Bioquímica y Biología Molecular B e Inmunología, Facultad de Química, Regional Campus of International Excellence, Campus Mare Nostrum, Universidad de Murcia, Murcia, Spain
| | - Anant R Kapdi
- Institute of Chemical Technology, Matunga, Mumbai, India
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17
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Shet H, Sahu R, Sanghvi YS, Kapdi AR. Strategies for the Synthesis of Fluorinated Nucleosides, Nucleotides and Oligonucleotides. CHEM REC 2022; 22:e202200066. [PMID: 35638251 DOI: 10.1002/tcr.202200066] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Revised: 05/11/2022] [Indexed: 11/09/2022]
Abstract
Fluorinated nucleosides and oligonucleotides are of specific interest as probes for studying nucleic acids interaction, structures, biological transformations, and its biomedical applications. Among various modifications of oligonucleotides, fluorination of preformed nucleoside and/or nucleotides have recently gained attention owing to the unique properties of fluorine atoms imparting medicinal properties with respect to the small size, electronegativity, lipophilicity, and ability for stereochemical control. This review deals with synthetic protocols for selective fluorination either at sugar or base moiety in a preformed nucleosides, nucleotides and nucleic acids using specific fluorinating reagents.
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Affiliation(s)
- Harshita Shet
- Department of Chemistry, Institute of Chemical Technology -, Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar, Odisha-751013, India.,Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh road, Matunga, Mumbai-400019, India
| | - Rajesh Sahu
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh road, Matunga, Mumbai-400019, India
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802, Crystal Ridge, Encinitas, CA92024-6615, California, USA
| | - Anant R Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh road, Matunga, Mumbai-400019, India
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18
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Serrano JL, Gaware S, Pérez JA, Pérez J, Lozano P, Kori S, Dandela R, Sanghvi YS, Kapdi AR. Quadrol-Pd(II) complexes: phosphine-free precatalysts for the room-temperature Suzuki-Miyaura synthesis of nucleoside analogues in aqueous media. Dalton Trans 2022; 51:2370-2384. [PMID: 35043803 DOI: 10.1039/d1dt03778a] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Commercially available Quadrol, N,N,N',N'-tetrakis(2-hydroxypropyl)ethylenediamine (THPEN), has been used for the first time as a N^N-donor neutral hydrophilic ligand in the synthesis and characterization of new water soluble palladium(II) complexes containing chloride, phthalimidate or saccharinate as co-ligands. [PdCl2(THPEN)] (1) [Pd(phthal)2(THPEN)] (2), [Pd(sacc)2(THPEN)] (3) and the analogous complex with the closely related N,N,N',N'-tetrakis(2-hydroxyethyl)ethylenediamine (THEEN) [Pd(sacc)2(THEEN)] (4) were efficiently prepared in a one-pot reaction from [PdCl2(CH3CN)2] or Pd(OAc)2. Structural characterization of 1 and 3 by single crystal X-ray diffraction produced the first structures reported to date of palladium complexes with Quadrol. The resultant palladium complexes are highly soluble in water and were found to be effective as phosphine-free catalysts for the synthesis of functionalized nucleoside analogues under room-temperature Suzuki-Miyaura cross-coupling conditions between 5-iodo-2'-deoxyuridine (& 5-iodo-2'-deoxycytidine) with different aryl boronic acids in neat water. This is the first report of the coupling process performed on nucleosides in water at room temperature.
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Affiliation(s)
- José Luis Serrano
- Departamento de Ingeniería Química y Ambiental. Área de Química Inorgánica, Universidad Politécnica de Cartagena member of European University of Technology, 30203 Cartagena, Spain.
| | - Sujeet Gaware
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar 751013, Odisha, India
| | - Jose Antonio Pérez
- Departamento de Ingeniería Química y Ambiental. Área de Química Inorgánica, Universidad Politécnica de Cartagena member of European University of Technology, 30203 Cartagena, Spain.
| | - José Pérez
- Departamento de Ingeniería Química y Ambiental. Área de Química Inorgánica, Universidad Politécnica de Cartagena member of European University of Technology, 30203 Cartagena, Spain.
| | - Pedro Lozano
- Departamento de Bioquímica y Biología Molecular B e Inmunología, Facultad de Química, Regional Campus of International Excellence "Campus Mare Nostrum", Universidad de Murcia, 30071 Murcia, Spain
| | - Santosh Kori
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar 751013, Odisha, India.,Department of Chemistry, Institute of Chemical Technology, Mumbai, Nathalal Road, Matunga, Mumbai-400019, India.
| | - Rambabu Dandela
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar 751013, Odisha, India
| | - Yogesh S Sanghvi
- Rasayan Inc. 2802, Crystal Ridge Road, Encinitas, California, 92024-6615, USA
| | - Anant R Kapdi
- Department of Chemistry, Institute of Chemical Technology, Mumbai, Nathalal Road, Matunga, Mumbai-400019, India.
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19
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Abstract
Trifluoromethylated nucleosides, such as trifluridine, have widespread applications in pharmaceuticals as anticancer and antiviral agents. However, site-selective addition of a trifluoromethyl group onto a nucleobase typically requires either inconvenient multi-step synthesis or expensive trifluoromethylation reagents, or results in low yield. This article describes a simple, scalable, and high-yielding protocol for late-stage direct trifluoromethylation of pyrimidine nucleosides via a microwave-irradiated pathway. First, 5-iodo pyrimidine nucleosides undergo complete benzoylation to obtain N3 -benzoyl-3',5'-di-O-benzoyl-5-iodo-pyrimidine nucleosides as key precursors. Next, trifluoromethylation is carried out under both conventional and microwave heating using an inexpensive and commercially accessible Chen's reagent, i.e., methyl fluorosulfonyldifluoroacetate, to produce N3 -benzoyl-3',5'-di-Obenzoyl-5-trifluoromethyl-pyrimidine nucleosides. The microwave-assisted transformation accentuates its simplicity, mild reaction conditions, and dominance, providing a facile route to access trifluoromethylation. Finally, the envisioned 5-trifluoromethyl pyrimidine nucleosides are obtained by a routine debenzoylation procedure. This concludes a convenient three-step synthesis to obtain trifluridine and its 2'-modified analogs on a gram scale with consistently high yields, starting from their respective iodo-precursors, and requires only one chromatographic purification at the trifluoromethylation step. Furthermore, this operationally simple protocol can be utilized as a definitive methodology to produce various other trifluoromethylated therapeutics. © 2021 Wiley Periodicals LLC. Basic Protocol: Synthesis of 5-trifluoromethyl pyrimidine nucleosides 4a-c Alternate Protocol: Conventional trifluoromethylation: Synthesis of N3-benzoyl-3',5'-di-O-benzoyl-5-trifluoromethyl pyrimidine nucleosides (3a-c).
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Affiliation(s)
- Priyanka Mangla
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | | | - Ashok K Prasad
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
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20
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Martín-Nieves V, Fàbrega C, Guasch M, Fernández S, Sanghvi YS, Ferrero M, Eritja R. Oligonucleotides Containing 1-Aminomethyl or 1-Mercaptomethyl-2-deoxy-d-ribofuranoses: Synthesis, Purification, Characterization, and Conjugation with Fluorophores and Lipids. Bioconjug Chem 2021; 32:350-366. [PMID: 33543930 PMCID: PMC9122261 DOI: 10.1021/acs.bioconjchem.0c00717] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Oligonucleotide conjugates are widely used as therapeutic drugs, gene analysis, and diagnostic tools. A critical step in the biologically relevant oligonucleotide conjugates is the design and synthesis of functional molecules that connect oligonucleotide with ligands. Here, we report the synthesis and application for oligonucleotide functionalization of novel tethers based on aminomethyl and mercaptomethyl sugar derivatives. Starting from a common cyano sugar precursor, three novel phosphoramidites have been prepared in the two α- and β-anomeric forms. The mercaptomethyl sugar was protected with the S-acetyl group, while two different protecting groups have been developed for the aminomethyl sugar. These two protecting groups are orthogonal, as they can be removed independently using photolysis or ammonolysis. This combination allowed the introduction of two different ligands in a single oligonucleotide.
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Affiliation(s)
- Virginia Martín-Nieves
- Departamento de Química Orgánica e Inorgánica, Universidad de Oviedo, 33006-Oviedo, Asturias, Spain
| | - Carme Fàbrega
- Department of Chemical and Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), 08034-Barcelona, Spain.,CIBER-BBN Networking Centre on Bioengineering, Biomaterials and Nanomedicine, 08034-Barcelona, Spain
| | - Marc Guasch
- Department of Chemical and Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), 08034-Barcelona, Spain.,CIBER-BBN Networking Centre on Bioengineering, Biomaterials and Nanomedicine, 08034-Barcelona, Spain
| | - Susana Fernández
- Departamento de Química Orgánica e Inorgánica, Universidad de Oviedo, 33006-Oviedo, Asturias, Spain
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Miguel Ferrero
- Departamento de Química Orgánica e Inorgánica, Universidad de Oviedo, 33006-Oviedo, Asturias, Spain
| | - Ramon Eritja
- Department of Chemical and Biomolecular Nanotechnology, Institute for Advanced Chemistry of Catalonia (IQAC, CSIC), 08034-Barcelona, Spain.,CIBER-BBN Networking Centre on Bioengineering, Biomaterials and Nanomedicine, 08034-Barcelona, Spain
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21
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Abstract
Design of Janus-faced or double-headed homoazanucleosides with the possibility to undergo self-organization through base pairing has been conceptualized and accomplished. The synthetic strategy demonstrates the unique ability to introduce two similar or complementary nucleobases on opposite arms of a chiral polyhydroxypyrrolidine while also ensuring that their faces are anti to each other to allow only intermolecular interactions between the nucleobases, an essential requisite for self-assembly. Single-crystal X-ray structures were determined for all three types of homoazanucleosides, one possessing two adenine molecules, the other with two thymine moieties, and the third containing both adenine and thymine. The crystal structures of all three display noncovalent interactions, including Watson-Crick base pairing, Hoogsteen H-bonding, and π-π stacking, resulting in unusual supramolecular patterns. The most striking supramolecular motif among them, which emerged from the crystal structure of the homoazanucleoside containing both adenine and thymine, is a left-handed helix formed through Watson-Crick pairing between nucleobases. The present study thus forms a prelude to the design of Janus-faced building blocks to establish helical pillars as well as lateral branches that together define a three-dimensional (3D) lattice. The ready accessibility of these molecules is expected to spur the next generation of discoveries in the design of functional nanomaterials.
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Affiliation(s)
- Umesh K Mishra
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Martin Egli
- Department of Biochemistry, School of Medicine, Vanderbilt University, Nashville, Tennessee 37232, United States
| | - Namakkal G Ramesh
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
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22
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Serrano JL, García L, Pérez J, Lozano P, Correia J, Kori S, Kapdi AR, Sanghvi YS. Imine-Palladacycles as Phosphine-Free Precatalysts for Low-Temperature Suzuki–Miyaura Synthesis of Nucleoside Analogues in Aqueous Media. Organometallics 2020. [DOI: 10.1021/acs.organomet.0c00580] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- José Luis Serrano
- Departamento de Ingeniería Química, Área de Química Inorgánica, 30203 Regional Campus of International Excellence, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - Luis García
- Departamento de Ingeniería Química, Área de Química Inorgánica, 30203 Regional Campus of International Excellence, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - José Pérez
- Departamento de Ingeniería Química, Área de Química Inorgánica, 30203 Regional Campus of International Excellence, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - Pedro Lozano
- Departamento de Bioquímica y Biología Molecular B e Inmunología, Facultad de Química, Regional Campus of International Excellence “Campus Mare Nostrum”, Universidad de Murcia, 30071 Murcia, Spain
| | - Jevy Correia
- Institute of Chemical Technology, Mumbai, Nathalal Road,
Matunga, Mumbai 400019, India
| | - Santosh Kori
- Institute of Chemical Technology, Mumbai, Nathalal Road,
Matunga, Mumbai 400019, India
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar 751013, Odisha, India
| | - Anant R. Kapdi
- Institute of Chemical Technology, Mumbai, Nathalal Road,
Matunga, Mumbai 400019, India
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
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23
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Shet H, Bhilare S, Sanghvi YS, Kapdi AR. Tandem Homometallic or Multimetallic Catalysis for Assembly of Base-Modified Nucleosides. ACTA ACUST UNITED AC 2020; 83:e117. [PMID: 32997433 DOI: 10.1002/cpnc.117] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Tandem catalysis has been at the forefront of synthesis in the past decade due to the reduction in the number of steps and purification needed for the synthesis of commercially relevant molecules. With the right combination of catalyst systems, which could be homometallic or multimetallic, one can construct complex structural motifs in a one-pot procedure without the requirement for the isolation of the intermediates, reducing both reagent waste and time. Over the years, application of tandem catalysis has certainly extended towards arene and heteroarene motifs; nucleoside modification using such a strategy has been rare. In this regard, we would like to report herein the development of numerous homometallic and multimetallic tandem catalytic protocols for the modification of nucleosides, providing efficient access to a diverse range of molecules with promising fluorescent properties, as well as pharmaceutically relevant antiviral drugs such as FV-100. © 2020 Wiley Periodicals LLC. Basic Protocol 1: Double tandem one-pot Sonogashira/cyclization of 5-IdU for the synthesis of FV-100 and analogs Basic Protocol 2: Double tandem one-pot Heck/Suzuki-Miyaura of 5-IdU for the synthesis of fluorescent nucleoside analogs Basic Protocol 3: Double tandem one-pot Suzuki-Miyaura cross-coupling of 5-IdU for the synthesis of fluorescent nucleoside analogs Basic Protocol 4: Double tandem one-pot amination/amidation for the synthesis of Sangivamycin precursor Basic Protocol 5: Triple tandem one-pot chemoselective etherification/Sonogashira coupling/cyclization for synthesis of BCNA analogs Basic Protocol 6: Triple tandem one-pot sequential Heck/borylation/Suzuki-Miyaura reaction.
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Affiliation(s)
- Harshita Shet
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar, Odisha, India
| | | | | | - Anant R Kapdi
- Institute of Chemical Technology, Mumbai, India.,Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza Samantpuri, Bhubaneswar, Odisha, India
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Kapdi AR, Bhilare S, Kori S, Shet H, Balaram G, Mahendar K, Sanghvi YS. Scale-Up of a Heck Alkenylation Reaction: Application to the Synthesis of an Amino-Modifier Nucleoside ‘Ruth Linker’. SYNTHESIS-STUTTGART 2020. [DOI: 10.1055/s-0040-1707260] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
AbstractRuth linker is a C5 pyrimidine modified nucleoside analogue widely utilized for the incorporation of a primary amine in a synthetic oligonucleotide. The increasing demand for non-radioactive labeling, detection of biomolecules, and assembly of COVID-19 test kits has triggered a need for scale-up of Ruth linker. Herein, an efficient protocol involving a palladium-catalyzed Heck alkenylation is described. The synthesis has been optimized with a goal of low catalyst concentration, column-free isolation, high product purity, reproducibility, and shorter reaction time. The scalability and utility of the process have been demonstrated successfully on a 100 g scale (starting material). Additionally, for scale-up of the Heck alkenylation protocol, 7-phospha-1,3,5-triaza-adamantanebutane sulfonate (PTABS) as the coordinating caged phosphine ligand was also synthesized on a multigram scale after careful optimization of the conditions.
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Affiliation(s)
- Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology
| | | | - Santosh Kori
- Department of Chemistry, Institute of Chemical Technology
- Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre
| | - Harshita Shet
- Department of Chemistry, Institute of Chemical Technology
- Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre
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25
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Abstract
Synthesis of novel homoazanucleosides and their peptidyl analogs as hybrid molecules comprised of amino acids, an iminosugar and natural nucleobases is reported for the first time. A pluripotent amino-substituted chiral polyhydroxypyrrolidine, possessing orthogonally different functional groups on either arm of the pyrrolidine ring, served as an ideal substrate for the synthesis of the proposed peptidyl homoazanucleosides. The acid sensitive primary benzyloxy group, on one arm of the pyrrolidine ring, after selective deprotection, was utilized for the introduction of nucleobases to obtain the homoazanucleosides. The amino group on the other side offered the opportunity to be coupled with amino acids to deliver the desired peptidyl homoazanucleosides. Glycosidase inhibition studies revealed that the acetamido derivatives of homoazanucleosides were found to be sub-millimolar inhibitors of β-N-acetyl-glucosaminidase.
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Affiliation(s)
- Rahul Vilas Salunke
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi - 110016, India.
| | - Pawan Kumar Mishra
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi - 110016, India.
| | - Yogesh S Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, CA 92024-6615, USA
| | - Namakkal G Ramesh
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi - 110016, India.
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26
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Bhilare S, Shet H, Sanghvi YS, Kapdi AR. Discovery, Synthesis, and Scale-up of Efficient Palladium Catalysts Useful for the Modification of Nucleosides and Heteroarenes. Molecules 2020; 25:E1645. [PMID: 32260100 PMCID: PMC7181029 DOI: 10.3390/molecules25071645] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2020] [Revised: 03/25/2020] [Accepted: 04/01/2020] [Indexed: 02/07/2023] Open
Abstract
Nucleic acid derivatives are imperative biomolecules and are involved in life governing processes. The chemical modification of nucleic acid is a fascinating area for researchers due to the potential activity exhibited as antiviral and antitumor agents. In addition, these molecules are also of interest toward conducting useful biochemical, pharmaceutical, and mutagenic study. For accessing such synthetically useful structures and features, transition-metal catalyzed processes have been proven over the years to be an excellent tool for carrying out the various transformations with ease and under mild reaction conditions. Amidst various transition-metal catalyzed processes available for nucleoside modification, Pd-catalyzed cross-coupling reactions have proven to be perhaps the most efficient, successful, and broadly applicable reactions in both academia and industry. Pd-catalyzed C-C and C-heteroatom bond forming reactions have been widely used for the modification of the heterocyclic moiety in the nucleosides, although a single catalyst system that could address all the different requirements for nucleoside modifications isvery rare or non-existent. With this in mind, we present herein a review showcasing the recent developments and improvements from our research groups toward the development of Pd-catalyzed strategies including drug synthesis using a single efficient catalyst system for the modification of nucleosides and other heterocycles. The review also highlights the improvement in conditions or the yield of various bio-active nucleosides or commercial drugs possessing the nucleoside structural core. Scale ups wherever performed (up to 100 g) of molecules of commercial importance have also been disclosed.
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Affiliation(s)
- Shatrughn Bhilare
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India;
| | - Harshita Shet
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, MouzaSamantpuri, Bhubaneswar 751013, Odisha, India;
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802, Crystal Ridge Road, Encinitas, CA 92024-6615, USA;
| | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India;
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, MouzaSamantpuri, Bhubaneswar 751013, Odisha, India;
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Ramsingh Girase T, Bhilare S, Sankar Murthy Bandaru S, Chrysochos N, Schulzke C, Sanghvi YS, Kapdi AR. Carbazole‐Based N‐Heterocyclic Carbenes for the Promotion of Copper‐Catalyzed Palladium‐Free Homo‐/Hetero‐Coupling of Alkynes and Sonogashira Reactions. ASIAN J ORG CHEM 2020. [DOI: 10.1002/ajoc.202000016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
| | - Shatrughn Bhilare
- Department of ChemistryInstitute of Chemical Technology Nathalal Parekh road, Matunga Mumbai 400019 India
| | | | - Nicolas Chrysochos
- Institut für BiochemieUniversität Greifswald Felix-Hausdorff-Straße 4 D-17487 Greifswald Germany
| | - Carola Schulzke
- Institut für BiochemieUniversität Greifswald Felix-Hausdorff-Straße 4 D-17487 Greifswald Germany
| | - Yogesh S. Sanghvi
- Rasayan Inc. 2802, Crystal Ridge Road Encinitas, California 92024-6615 USA
| | - Anant R. Kapdi
- Department of ChemistryInstitute of Chemical Technology Nathalal Parekh road, Matunga Mumbai 400019 India
- Institute of Chemical Technology-Indian Oil Odisha CampusIIT Kharagpur extension Centre Mouza Samantpuri Bhubaneswar 751013, Odisha India
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Carnero A, Martín-Nieves V, Sanghvi YS, Russel OO, Bassit L, Schinazi RF, Fernández S, Ferrero M. Novel 1′-homo-N-2′-deoxy-α-nucleosides: synthesis, characterization and biological activity. RSC Adv 2020; 10:15815-15824. [PMID: 34603689 PMCID: PMC8486263 DOI: 10.1039/d0ra03254a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023] Open
Abstract
For the first time, a series of novel 1′-homo-N-2′-deoxy-α-nucleosides containing natural nucleobases as well as 5-fluoro and 5-iodopyrimidine analogs have been synthesized in an efficient manner. Additionally, a high yield protocol for the assembly of a dimeric scaffold containing two sugar moieties linked to the N-1 and N-3 positions of a single pyrimidine base has been accomplished. The structures of the novel homonucleosides were established by a single crystal X-ray structure of 1′-homo-N-2′-deoxy-α-adenosine and NMR studies. The biological activity of these 1′-homo-N-2′-deoxy-α-nucleosides as antiviral (HIV-1 and HBV) and cytotoxic studies was measured in multiple cell systems. The unique structure and easy accessibility of these compounds may allow their use in the design of new nucleoside analogs with potential biological activity and as a scaffold for combinatorial chemistry. Novel 1′-homo-N-2′-deoxy-α-nucleosides and dimers.![]()
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Affiliation(s)
- Alejandro Carnero
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | | | | | - Olivia O. Russel
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Leda Bassit
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Raymond F. Schinazi
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Susana Fernández
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | - Miguel Ferrero
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
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Ardhapure AV, Gayakhe V, Bhilare S, Kapdi AR, Bag SS, Sanghvi YS, Gunturu KC. Extended fluorescent uridine analogues: synthesis, photophysical properties and selective interaction with BSA protein. NEW J CHEM 2020. [DOI: 10.1039/d0nj02803g] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
The improvement in fluorescence properties of 2′-deoxyuridine was made possible by the introduction of (hetero)aromatic moieties at the C–5 position of uridine with alkenyl/phenyl/styryl linkers to create a library of useful fluorescent nucleosides.
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Affiliation(s)
| | - Vijay Gayakhe
- Department of Chemistry
- Institute of Chemical Technology
- Matunga
- Mumbai-400019
- India
| | - Shatrughn Bhilare
- Department of Chemistry
- Institute of Chemical Technology
- Matunga
- Mumbai-400019
- India
| | - Anant R. Kapdi
- Department of Chemistry
- Institute of Chemical Technology
- Matunga
- Mumbai-400019
- India
| | - Subhendu Sekhar Bag
- Bioorganic Chemistry Laboratory
- Department of Chemistry
- Indian Institute of Technology
- Guwahati 781039
- India
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Bhujabal YB, Vadagaonkar KS, Gholap A, Sanghvi YS, Dandela R, Kapdi AR. HFIP Promoted Low-Temperature SNAr of Chloroheteroarenes Using Thiols and Amines. J Org Chem 2019; 84:15343-15354. [DOI: 10.1021/acs.joc.9b02371] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Yuvraj B. Bhujabal
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Kamlesh S. Vadagaonkar
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Aniket Gholap
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Yogesh S. Sanghvi
- Rasayan Incorporation, 2802, Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Rambabu Dandela
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, MouzaSamantpuri, Bhubaneswar 751013, Odisha, India
| | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
- Department of Chemistry, Institute of Chemical Technology-Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, MouzaSamantpuri, Bhubaneswar 751013, Odisha, India
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31
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Bhilare S, Shah J, Gaikwad V, Gupta G, Sanghvi YS, Bhanage BM, Kapdi AR. Pd/PTABS: An Efficient Catalytic System for the Aminocarbonylation of a Sugar-Protected Nucleoside. SYNTHESIS-STUTTGART 2019. [DOI: 10.1055/s-0039-1690190] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
A highly efficient and mild protocol for the aminocarbonylation of a nucleoside is developed by employing palladium/(1,3,5-triaza-7-phosphaadamantan-1-ium-1-yl)butane-1-sulfonate (Pd/PTABS) as the catalytic system. The developed aminocarbonylation methodology employs CO gas at a relatively low temperature of 60 °C and is suitable for a wide range of amines, including (heteroaryl)benzylic, aliphatic acyclic, alicyclic and secondary amines. This protocol is also utilized for the synthesis of a sangivamycin precursor by carrying out the Pd-catalyzed amination and aminocarbonylation simultaneously. The utility of this protocol is further demonstrated by the synthesis of the drugs moclobemide and nikethamide.
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Affiliation(s)
| | - Jagrut Shah
- Department of Chemistry, Institute of Chemical Technology
| | | | - Gaurav Gupta
- Department of Chemistry, Institute of Chemical Technology
| | | | | | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology
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32
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Bandaru SSM, Bhilare S, Cardozo J, Chrysochos N, Schulzke C, Sanghvi YS, Gunturu KC, Kapdi AR. Pd/PTABS: Low-Temperature Thioetherification of Chloro(hetero)arenes. J Org Chem 2019; 84:8921-8940. [DOI: 10.1021/acs.joc.9b00840] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
| | - Shatrughn Bhilare
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Jesvita Cardozo
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Nicolas Chrysochos
- Institut für Biochemie, Universität Greifswald, Felix-Hausdorff-Straße 4, Greifswald D-17487, Germany
| | - Carola Schulzke
- Institut für Biochemie, Universität Greifswald, Felix-Hausdorff-Straße 4, Greifswald D-17487, Germany
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | | | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
- Institute of Chemical Technology, Indian Oil Odisha Campus, IIT Kharagpur Extension Centre, Mouza
Samantpuri, Bhubaneswar, Odisha 751013, India
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33
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Abstract
Therapeutic oligonucleotides have emerged as a powerful paradigm with the ability to treat a wide range of the human diseases. As a result, we have witnessed more than one hundred oligonucleotides currently in active clinical trials and eight Food and Drug Administration (FDA)-approved drugs. Until now, the demand for oligonucleotide-based drugs has been fulfilled by conventional solid-phase synthesis in an effective manner. However, there are products in advanced stages of clinical trials projecting a collective demand of metric ton quantities in the near future. Therefore, large-scale manufacturing of these products has become a high priority for process chemists. This article summarizes the advances in liquid-phase oligonucleotide synthesis (LPOS) as a possible alternative strategy to meet the scale-up challenge. A review of the literature describing major efforts in developing LPOS technologies is presented. Gratifyingly, serious attempts are under way to develop an efficient environmentally benign green chemistry protocol that is scalable and cost effective for the manufacturing of oligonucleotides. A summary of the most innovative LPOS protocols has been included to provide a glimpse of what may be possible in the future for large-scale production of oligonucleotides. © 2019 by John Wiley & Sons, Inc.
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Affiliation(s)
- Alejandro Gimenez Molina
- Nucleic Acid Center, Department of Physics, Chemistry & Pharmacy, University of Southern Denmark, Odense, Denmark
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34
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Mangla P, Maity J, Rungta P, Verma V, Sanghvi YS, Prasad AK. Synthesis of 6′‐Methyl‐2′‐
O
,4′‐
C
‐methylene‐
α
‐L‐ ribofuranosyl‐pyrimidine Nucleosides. ChemistrySelect 2019. [DOI: 10.1002/slct.201900809] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Priyanka Mangla
- Bioorganic Laboratory, Department of ChemistryUniversity of Delhi Delhi- 110 007 India
| | - Jyotirmoy Maity
- Bioorganic Laboratory, Department of ChemistryUniversity of Delhi Delhi- 110 007 India
| | - Pallavi Rungta
- Bioorganic Laboratory, Department of ChemistryUniversity of Delhi Delhi- 110 007 India
| | - Vineet Verma
- Bioorganic Laboratory, Department of ChemistryUniversity of Delhi Delhi- 110 007 India
| | | | - Ashok K. Prasad
- Bioorganic Laboratory, Department of ChemistryUniversity of Delhi Delhi- 110 007 India
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Abstract
An increasing number of therapeutic oligonucleotides are entering human clinical trials, leading to multiple marketed drugs. Thus, large-scale automated synthesis of these products has become a high priority for process chemists. This chapter summarizes the advances in the large-scale solid-support synthesis of oligonucleotides using conventional phosphoramidite chemistry. An overview of the most prevalent modifications currently utilized for the assembly of modified oligonucleotides along with a four-step automated process is presented. A brief description of the post-synthesis processes is also included with protocols for characterization of drug substance. A glimpse of possible future technologies that may tackle the economic and ecological challenges of the 21st century when oligonucleotides will be required in metric-tonne quantity is also discussed.
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Bhilare S, Murthy Bandaru SS, Shah J, Chrysochos N, Schulzke C, Sanghvi YS, Kapdi AR. Pd/PTABS: Low Temperature Etherification of Chloroheteroarenes. J Org Chem 2018; 83:13088-13102. [DOI: 10.1021/acs.joc.8b01840] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Shatrughn Bhilare
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Siva Sankar Murthy Bandaru
- Institut für Biochemie, Ernst-Moritz-Arndt Universität Greifswald, Felix-Hausdorff-Straße 4, D-17487 Greifswald, Germany
| | - Jagrut Shah
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
| | - Nicolas Chrysochos
- Institut für Biochemie, Ernst-Moritz-Arndt Universität Greifswald, Felix-Hausdorff-Straße 4, D-17487 Greifswald, Germany
| | - Carola Schulzke
- Institut für Biochemie, Ernst-Moritz-Arndt Universität Greifswald, Felix-Hausdorff-Straße 4, D-17487 Greifswald, Germany
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400019, India
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Bhilare S, Bandaru SSM, Kapdi AR, Sanghvi YS, Schulzke C. Pd/PTABS: An Efficient Water-Soluble Catalytic System for the Amination of 6-Chloropurine Ribonucleoside and Synthesis of Alogliptin. ACTA ACUST UNITED AC 2018; 74:e58. [DOI: 10.1002/cpnc.58] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Shatrughn Bhilare
- Department of Chemistry, Institute of Chemical Technology; Mumbai India
| | | | - Anant R. Kapdi
- Department of Chemistry, Institute of Chemical Technology; Mumbai India
| | | | - Carola Schulzke
- Institut für Biochemie, Ernst-Moritz-Arndt-Universität Greifswald; Greifswald Germany
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Ejlersen M, Lou C, Sanghvi YS, Tor Y, Wengel J. Modification of oligodeoxynucleotides by on-column Suzuki cross-coupling reactions. Chem Commun (Camb) 2018; 54:8003-8006. [PMID: 29967912 DOI: 10.1039/c8cc01360h] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The on-column functionalization of oligodeoxynucleotides via base-free Suzuki cross-coupling reactions is reported herein. These cross-coupling reactions were carried out with various boronic acids and either full-length modified oligonucleotides containing one or more 2'-deoxy-5-iodouridine (5IdU) monomer(s) or on oligonucleotide fragments immediately after incorporation of 5IdU. Five different functionalities were coupled to oligonucleotides containing one or three attachment points.
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Affiliation(s)
- Maria Ejlersen
- Biomolecular Nanoscale Engineering Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, DK-5230 Odense M, Denmark.
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39
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Penjarla S, Prasad SR, Reddy DS, Banerjee S, Penta S, Sanghvi YS. Copper(II)nitrate catalyzed regioselective protection of primary alcohols with 4,4'-dimethoxytrityl and 2,7-dimethyl-9-phenyl xanthen-9-yl groups in nucleosides and carbohydrates. Nucleosides Nucleotides Nucleic Acids 2018; 37:232-247. [PMID: 29723125 DOI: 10.1080/15257770.2018.1460480] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
Regioselective protection of primary hydroxyl group in nucleoside and carbohydrate analogs was accomplished using dimethoxytrityl alcohol (DMTr-OH) or dimethylpixyl alcohol (DMPx-OH) in presence of copper(II)nitrate as a Lewis acid catalyst. Excellent selectivity was observed for the protection of primary hydroxyl group over secondary while glycosidic bond remain unaffected. Utility of this methodology was further exemplified via DMTr- and DMPx-protection of alipahtic acyclic and cyclic diols.
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Affiliation(s)
- Srishylam Penjarla
- a Research & Development , Sapala Organics Private Ltd , IDA Mallapur, Hyderabad , India.,b Chemistry Department , National Institute of Technology , Raipur G.E. Road, Raipur , Chhattisgarh , India
| | - S Rajendra Prasad
- a Research & Development , Sapala Organics Private Ltd , IDA Mallapur, Hyderabad , India
| | - Dhande Sudhakar Reddy
- a Research & Development , Sapala Organics Private Ltd , IDA Mallapur, Hyderabad , India
| | - Shyamapada Banerjee
- a Research & Development , Sapala Organics Private Ltd , IDA Mallapur, Hyderabad , India
| | - Santhosh Penta
- b Chemistry Department , National Institute of Technology , Raipur G.E. Road, Raipur , Chhattisgarh , India
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Ardhapure AV, Sanghvi YS, Borozdina Y, Kapdi AR, Schulzke C. Crystal structure of 8-(4-methyl-phen-yl)-2'-de-oxy-adenosine hemihydrate. Acta Crystallogr E Crystallogr Commun 2018; 74:1-5. [PMID: 29416880 PMCID: PMC5778474 DOI: 10.1107/s2056989017017212] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/24/2017] [Accepted: 11/30/2017] [Indexed: 11/23/2022]
Abstract
8-(4-Methylphenyl)-2′-deoxyadenosine was synthesized using a Suzuki–Miyaura cross-coupling reaction of 8-bromo-d-2′-deoxyadenosine and 4-methylphenylboronic acid in the presence of Pd(OAc)2 and a salton-derived ligand as a highly catalytically active system. There are two independent molecules plus one solvent water in the asymmetric unit and the packing in the crystal lattice is heavily influenced by hydrogen bonding In the asymmetric unit, equalling the unit cell (triclinic, P1, Z = 1), two molecules of the title compound, 8-(4-methylphenyl)-d-2′-deoxyadenosine, C17H19N5O3, are present, with distinct conformations of the two sugar moieties, together with one solvent water molecule. All three ribose O atoms are involved in hydrogen bonding and the crystal packing is largely determined by hydrogen-bonding or hydrogen–heteroatom interactions (O—H⋯O, O—H⋯N, N—H⋯O, C—H⋯O and C—H⋯N) with one independent molecule directly linked to four neighbouring molecules and the other molecule directly linked to six neighbouring molecules. The two independent molecules of the asymmetric unit display three weak intramolecular C—H-to-heteroatom contacts, two of which are very similar despite the different conformations of the deoxyribosyl moieties. The aromatic ring systems of both molecules are in proximity to each other and somehow aligned, though not coplanar. The absolute structures of the two molecules were assumed with reference to the reactant 8-bromo-d-2′-deoxyadenosine as they could not be determined crystallographically.
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Affiliation(s)
- Ajaykumar V Ardhapure
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400 019, India
| | - Yogesh S Sanghvi
- Rasayan Inc. 2802, Crystal Ridge Road, Encinitas, California 92024-6615, USA
| | - Yulia Borozdina
- Max Planck Institute for Biological Cybernetics Spemannstrasse 41, D-72076 Tübingen, Germany
| | - Anant Ramakant Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai 400 019, India
| | - Carola Schulzke
- Institut für Biochemie, Ernst-Moritz-Arndt Universität Greifswald, Felix-Hausdorff-Strasse 4, D-17487 Greifswald, Germany
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41
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Srishylam P, Raji Reddy A, Banerjee S, Penta S, Sanghvi YS. DDQ mediated regiospecific protection of primary alcohol and deprotection under neutral conditions: Application of new p -methoxy benzyl-pixyl ether as reagent of choice for nucleoside protection. Tetrahedron Lett 2017. [DOI: 10.1016/j.tetlet.2017.05.066] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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Maity J, Srivastava S, Sanghvi YS, Prasad AK, Stromberg R. Facile Access to Bromonucleosides Using Sodium Monobromoisocyanurate (SMBI). ACTA ACUST UNITED AC 2017; 68:1.39.1-1.39.9. [PMID: 28252180 DOI: 10.1002/cpnc.24] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Bromonucleosides constitute a significant class of molecules and are well known for their biological activity. 5-Bromouridine, 5-bromo-2'-deoxyuridine, 5-bromouridine-5'-triphosphate, and nucleotides containing 5-bromouridine have been tested and used for numerous biological studies. 8-Bromopurine nucleosides have been used as essential precursors for the synthesis of nucleosides with fluorescent properties. This unit describes protocols for the synthesis of bromonucleosides using sodium monobromoisocyanurate (SMBI) in a straightforward way. Reactions are carried out at room temperature, and aqueous solvent mixtures are used to dissolve the nucleosides. Sodium azide is used as catalyst for the bromination of pyrimidine nucleosides, and no catalyst is necessary for the bromination of purine nucleosides. Unprotected 2'-deoxy pyrimidine and 2'-deoxy purine nucleosides are treated with SMBI to afford C-5 bromo pyrimidine and C-8 bromo purine nucleosides, respectively. This methodology has been found to be efficient for the synthesis of bromonucleosides on gram scale with consistently high yields. © 2017 by John Wiley & Sons, Inc.
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Affiliation(s)
- Jyotirmoy Maity
- Department of Biosciences and Nutrition, Karolinska Institutet, Novum, Sweden.,Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Smriti Srivastava
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | | | - Ashok K Prasad
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Roger Stromberg
- Department of Biosciences and Nutrition, Karolinska Institutet, Novum, Sweden
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Carnero A, Pérez-Rentero S, Alagia A, Aviñó A, Sanghvi YS, Fernández S, Ferrero M, Eritja R. The impact of an extended nucleobase-2′-deoxyribose linker in the biophysical and biological properties of oligonucleotides. RSC Adv 2017. [DOI: 10.1039/c6ra26852h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The introduction of a novel thymine derivative at the 3′-end of the sense strand generates more potent and selective siRNAs.
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Affiliation(s)
- Alejandro Carnero
- Departamento de Química Orgánica e Inorgánica
- Instituto Universitario de Biotecnología de Asturias
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | - Sónia Pérez-Rentero
- Dpt. Chemical & Biomolecular Nanotechnology
- Institute for Advanced Chemistry of Catalonia (IQAC)
- CSIC
- 08034-Barcelona
- Spain
| | - Adele Alagia
- Dpt. Chemical & Biomolecular Nanotechnology
- Institute for Advanced Chemistry of Catalonia (IQAC)
- CSIC
- 08034-Barcelona
- Spain
| | - Anna Aviñó
- Dpt. Chemical & Biomolecular Nanotechnology
- Institute for Advanced Chemistry of Catalonia (IQAC)
- CSIC
- 08034-Barcelona
- Spain
| | | | - Susana Fernández
- Departamento de Química Orgánica e Inorgánica
- Instituto Universitario de Biotecnología de Asturias
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | - Miguel Ferrero
- Departamento de Química Orgánica e Inorgánica
- Instituto Universitario de Biotecnología de Asturias
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | - Ramon Eritja
- Dpt. Chemical & Biomolecular Nanotechnology
- Institute for Advanced Chemistry of Catalonia (IQAC)
- CSIC
- 08034-Barcelona
- Spain
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Carnero A, Sanghvi YS, Gotor V, Fernández S, Ferrero M. Short and Efficient Chemoenzymatic Syntheses of non-Natural (−)-Muscarine and (+)-allo-Muscarine from Cyano-Sugar Precursors Catalyzed by ImmobilizedBurkholderia cepaciaLipase. Adv Synth Catal 2016. [DOI: 10.1002/adsc.201600749] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Alejandro Carnero
- Departamento de Química Orgánica e Inorgánica and Instituto Universitario de Biotecnología de Asturias; Universidad de Oviedo; Avenida Julián de Clavería 8 33006 Oviedo (Asturias Spain
| | | | - Vicente Gotor
- Departamento de Química Orgánica e Inorgánica and Instituto Universitario de Biotecnología de Asturias; Universidad de Oviedo; Avenida Julián de Clavería 8 33006 Oviedo (Asturias Spain
| | - Susana Fernández
- Departamento de Química Orgánica e Inorgánica and Instituto Universitario de Biotecnología de Asturias; Universidad de Oviedo; Avenida Julián de Clavería 8 33006 Oviedo (Asturias Spain
| | - Miguel Ferrero
- Departamento de Química Orgánica e Inorgánica and Instituto Universitario de Biotecnología de Asturias; Universidad de Oviedo; Avenida Julián de Clavería 8 33006 Oviedo (Asturias Spain
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Gayakhe V, Ardhapure AV, Kapdi AR, Sanghvi YS, Serrano JL, Schulzke C. C-C Bond Formation: Synthesis of C5 Substituted Pyrimidine and C8 Substituted Purine Nucleosides Using Water Soluble Pd-imidate Complex. ACTA ACUST UNITED AC 2016; 65:1.37.1-1.37.15. [PMID: 27248782 DOI: 10.1002/cpnc.1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
The synthesis of a highly efficient, water soluble [Pd(Sacc)2 (TPA)2 ] complex for C-C bond formation is described. Additionally, application of the [Pd(Sacc)2 (TPA)2 ] complex for Suzuki-Miyaura arylation of all four nucleosides (5-iodo-2'-deoxyuridine [5-IdU], 5-iodo-2'-deoxycytidine [5-IdC], 8-bromo-2'-deoxyadenosine, and 8-bromo-2'-deoxyguanosine) with various aryl/heteroaryl boronic acids in plain water under milder conditions is demonstrated. © 2016 by John Wiley & Sons, Inc.
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Affiliation(s)
| | | | | | | | - Jose Luis Serrano
- Departamento de Ingeniería Minera, Geológica, y Cartográfica, Área de Química Inorgánica, Regional Campus of International Excellence "Campus Mare Nostrum," Universidad Politécnica de Cartagena, Cartagena, Spain
| | - Carola Schulzke
- Ernst-Moritz-Arndt-Universität Greifswald, Institut für Biochemie, Greifswald, Germany
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Gayakhe V, Ardhapure A, Kapdi AR, Sanghvi YS, Serrano JL, García L, Pérez J, García J, Sánchez G, Fischer C, Schulzke C. Water-Soluble Pd–Imidate Complexes: Broadly Applicable Catalysts for the Synthesis of Chemically Modified Nucleosides via Pd-Catalyzed Cross-Coupling. J Org Chem 2016; 81:2713-29. [DOI: 10.1021/acs.joc.5b02475] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Vijay Gayakhe
- Institute of Chemical Technology, Mumbai Nathalal Road, Matunga, Mumbai 400019, India
| | - Ajaykumar Ardhapure
- Institute of Chemical Technology, Mumbai Nathalal Road, Matunga, Mumbai 400019, India
| | - Anant R. Kapdi
- Institute of Chemical Technology, Mumbai Nathalal Road, Matunga, Mumbai 400019, India
| | - Yogesh S. Sanghvi
- Rasayan, Inc. 2802 Crystal Ridge Road, Encinitas, California 92024-6615, United States
| | - Jose Luis Serrano
- Departamento
de Ingeniería
Minera, Geológica y Cartográfica, Universidad Politécnica
de Cartagena, Área de Química Inorgánica, Regional
Campus of International Excellence “Campus Mare Nostrum”, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - Luis García
- Departamento
de Ingeniería
Minera, Geológica y Cartográfica, Universidad Politécnica
de Cartagena, Área de Química Inorgánica, Regional
Campus of International Excellence “Campus Mare Nostrum”, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - Jose Pérez
- Departamento
de Ingeniería
Minera, Geológica y Cartográfica, Universidad Politécnica
de Cartagena, Área de Química Inorgánica, Regional
Campus of International Excellence “Campus Mare Nostrum”, Universidad Politécnica de Cartagena, 30203 Cartagena, Spain
| | - Joaquím García
- Departamento de Química
Inorgánica, Regional Campus of International Excellence “Campus
Mare Nostrum”, Universidad de Murcia, 30071 Murcia, Spain
| | - Gregorio Sánchez
- Departamento de Química
Inorgánica, Regional Campus of International Excellence “Campus
Mare Nostrum”, Universidad de Murcia, 30071 Murcia, Spain
| | - Christian Fischer
- Ernst-Moritz-Arndt-Universität
Greifswald, Institut für Biochemie, Felix-Hausdorff-Strasse 4, 17489 Greifswald, Germany
| | - Carola Schulzke
- Ernst-Moritz-Arndt-Universität
Greifswald, Institut für Biochemie, Felix-Hausdorff-Strasse 4, 17489 Greifswald, Germany
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Bhilare S, Gayakhe V, Ardhapure AV, Sanghvi YS, Schulzke C, Borozdina Y, Kapdi AR. Novel water-soluble phosphatriazenes: versatile ligands for Suzuki–Miyaura, Sonogashira and Heck reactions of nucleosides. RSC Adv 2016. [DOI: 10.1039/c6ra19039a] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Abstract
Two new water-soluble phosphatriazene as versatile ligands for catalyzing Suzuki–Miyaura reactions of purines and pyrimidines in neat water with the possibility of recycling. Copper-free Sonogashira and Heck reaction were also made possible.
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Affiliation(s)
- Shatrughn Bhilare
- Department of Chemistry
- Institute of Chemical Technology
- Mumbai-400019
- India
| | - Vijay Gayakhe
- Department of Chemistry
- Institute of Chemical Technology
- Mumbai-400019
- India
| | | | | | - Carola Schulzke
- Institute for Biochemie
- Ernst-Moritz-Arndt-Universität Greifswald
- 17489 Greifswald
- Germany
| | - Yulia Borozdina
- Institute for Biochemie
- Ernst-Moritz-Arndt-Universität Greifswald
- 17489 Greifswald
- Germany
| | - Anant R. Kapdi
- Department of Chemistry
- Institute of Chemical Technology
- Mumbai-400019
- India
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48
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Reddy L CS, Sharma VK, Kumar R, Singh A, Parmar VS, Sanghvi YS, Prasad AK. Facile Access to 5'-S-(4,4'-Dimethoxytrityl)-2',5'-Dideoxyribonucleosides via Stable Disulfide Intermediates. Curr Protoc Nucleic Acid Chem 2015; 62:1.34.1-1.34.9. [PMID: 26380902 DOI: 10.1002/0471142700.nc0134s62] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Thionucleosides represent an important class of modified nucleos(t)ides that have found distinct applications in the chemical biology of synthetic oligonucleotides, but the use of these compounds is substantially lessened by the instability or high reactivity of the sulfhydryl group. This unit describes a protocol for the synthesis of 2',5'-dideoxy-5'-thioribonucleoside disulfides by utilizing Mitsunobu reaction conditions on 3'-O-levulinyl-2'-deoxyribonucleosides in the presence of thiobenzoic acid followed by facile hydrolysis and in situ oxidation of the resulting 5'-thiolated nucleosides using methanolic ammonia. The utility of these disulfides has been demonstrated as stable precursors for the synthesis of 5'-thio-modified 2'-deoxynucleosides. To validate the potential of the methodology, 5'-S-(4,4'-dimethoxytrityl)-2',5'-dideoxythymidine phosphoramidite has been synthesized by in situ cleavage of the disulfide linkage of 2',5'-dideoxy-5'-thiothymidine disulfide followed by protection with a dimethoxytriphenyl (DMT) group and 3'-phosphitylation using 2-cyanoethyl N,N-diisopropylchlorophosphoramidite.
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Affiliation(s)
| | - Vivek K Sharma
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Rajesh Kumar
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Ankita Singh
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Virinder S Parmar
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | | | - Ashok K Prasad
- Bioorganic Laboratory, Department of Chemistry, University of Delhi, Delhi, India
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50
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Carnero A, Sanghvi YS, Gotor V, Fernández S, Ferrero M. Process Development of Biocatalytic Regioselective 5′-O-Levulinylation of 2′-Deoxynucleosides. Org Process Res Dev 2015. [DOI: 10.1021/acs.oprd.5b00152] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alejandro Carnero
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802 Crystal
Ridge Road, Encinitas, California 92024-6615, United States
| | - Vicente Gotor
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Susana Fernández
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Miguel Ferrero
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
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