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1.
Artigo em Inglês | MEDLINE | ID: mdl-39041320

RESUMO

Helicobacter pylori, a leading human pathogen associated with duodenal ulcer and gastric cancer, presents a significant threat to human health due to increasing antibiotic resistance rates. This study investigates G-quadruplexes (G4s), which are non-canonical secondary structures form in G-rich regions within the H. pylori genome. Extensive research on G4s in eukaryotes has revealed their role in epigenetically regulating cellular processes like gene transcription, DNA replication, and oncogene expression. However, understanding of G4-mediated gene regulation in other organisms, especially bacterial pathogens, remains limited. Although G4 motifs have been extensively studied in a few bacterial species such as Mycobacterium, Streptococci, and Helicobacter, research on G4 motifs in other bacterial species is still sparse. Like in other organisms such as archaea, mammals, and viruses, G4s in H. pylori display a non-random distribution primarily situated within open reading frames of various protein-coding genes. The occurrence of G4s in functional regions of the genome and their conservation across different species indicates that their placement is not random, suggesting an evolutionary pressure to maintain these sequences at specific genomic sites. Moreover, G-quadruplexes show enrichment in specific gene classes, suggesting their potential involvement in regulating the expression of genes related to cell wall/membrane/envelope biogenesis, amino acid transport, and metabolism. This indicates a probable regulatory role for G4s in controlling the expression of genes essential for H. pylori survival and virulence. Biophysical techniques such as Circular Dichroism spectroscopy and Nuclear Magnetic Resonance were used to characterize G4 motifs within selected H. pylori genes. The study revealed that G-quadruplex ligand inhibited the growth of H. pylori, with minimal inhibitory concentrations in the low micromolar range. This suggests that targeting G4 structures could offer a promising approach for developing novel anti-H. pylori drugs.

2.
Appl Microbiol Biotechnol ; 107(16): 5145-5159, 2023 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-37410137

RESUMO

Neisseria gonorrhoeae is an obligate human pathogen that causes gonorrhea and has shown a vast emergence of multidrug resistance in recent times. It is necessary to develop novel therapeutic strategies to combat this multidrug-resistant pathogen. The non-canonical stable secondary structures of nucleic acids, G-quadruplexes (GQs), are reported to regulate gene expressions in viruses, prokaryotes, and eukaryotes. Herein, we explored the whole genome of N. gonorrhoeae to mine evolutionary conserved GQ motifs. The Ng-GQs were highly enriched in the genes involved in various important biological and molecular processes of N. gonorrhoeae. Five of these GQ motifs were characterized using biophysical and biomolecular techniques. The GQ-specific ligand, BRACO-19, showed a high affinity towards these GQ motifs and stabilized them in both in vitro and in vivo conditions. The ligand showed potent anti-gonococcal activity and modulated the gene expression of the GQ-harboring genes. Strikingly, BRACO-19 also altered the biofilm formation in N. gonorrhoeae and its adhesion and invasion of the human cervical epithelial cells. In summary, the present study showed a significant role of GQ motifs in N. gonorrhoeae biology and put forward a step closer towards the search for therapeutic measures in combating the emerging antimicrobial resistance in the pathogen. KEY POINTS: •Neisseria gonorrhoeae genome is enriched in non-canonical nucleic acid structures-G-quadruplexes. •These G-quadruplexes might regulate bacterial growth, virulence, and pathogenesis. •G-quadruplex ligands inhibit biofilm formation, adhesion, and invasion of the gonococcus bacterium.


Assuntos
Quadruplex G , Gonorreia , Humanos , Neisseria gonorrhoeae/genética , Gonorreia/microbiologia , Ligantes , Eucariotos/genética , Antibacterianos/farmacologia , Testes de Sensibilidade Microbiana
3.
Environ Monit Assess ; 195(1): 139, 2022 Nov 22.
Artigo em Inglês | MEDLINE | ID: mdl-36416991

RESUMO

The success of a species in future climate change scenarios depends on its morphological, physiological, and demographic adaptive responses to changing climate. The existence of threatened species against climate adversaries is constrained due to their small population size, narrow genetic base, and narrow niche breadth. We examined if ecological niche model (ENM)-based distribution predictions of species align with their morpho-physiological and demographic responses to future climate change scenarios. We studied three threatened Ilex species, viz., Ilex khasiana Purkay., I. venulosa Hook. f., and I. embelioides Hook. F, with restricted distribution in Indo-Burma biodiversity hotspot. Demographic analysis of the natural populations of each species in Meghalaya, India revealed an upright pyramid suggesting a stable population under the present climate scenario. I. khasiana was confined to higher elevations only while I. venulosa and I. embelioides had wider altitudinal distribution ranges. The bio-climatic niche of I. khasiana was narrow, while the other two species had relatively broader niches. The ENM-predicted potential distribution areas under the current (2022) and future (2050) climatic scenarios (General Circulation Models (GCMs): IPSL-CM5A-LR and NIMR-HADGEM2-AO) revealed that the distribution of highly suitable areas for the most climate-sensitive I. khasiana got drastically reduced. In I. venulosa and I. embelioides, there was an increase in highly suitable areas under the future scenarios. The eco-physiological studies showed marked variation among the species, sites, and treatments (p < 0.05), indicating the differential responses of the three species to varied climate scenarios, but followed a similar trend in species performance aligning with the model predictions.


Assuntos
Borboletas , Ilex , Animais , Espécies em Perigo de Extinção , Monitoramento Ambiental , Mudança Climática , Dinâmica Populacional
4.
Genomics ; 112(6): 4863-4874, 2020 11.
Artigo em Inglês | MEDLINE | ID: mdl-32898642

RESUMO

The G-quadruplex structure is a highly conserved drug target for preventing infection of several human pathogens. We tried to explore G-quadruplex forming motifs as promising drug targets in the genome of Salmonella enterica that causes enteric fever in humans. Herein, we report three highly conserved G-quadruplex motifs (SE-PGQ-1, 2, and 3) in the genome of Salmonella enterica. Bioinformatics analysis inferred the presence of SE-PGQ-1 in the regulatory region of mgtA, SE-PGQ-2 in ORF of entA, and SE-PGQ-3 in the promoter region of malE and malK genes. The G-quadruplex forming sequences were confirmed by biophysical and biomolecular techniques. Cellular studies affirm the inhibitory effect of G-quadruplex specific ligands on Salmonella enterica growth. Further, PCR inhibition, reporter based assay, and RT-qPCR assays emphasize the biological relevance of G-quadruplexes in these genes. Thus, this study confirmed the presence of G-quadruplex motifs in Salmonella enterica and characterized them as a promising drug target.


Assuntos
Quadruplex G , Proteínas Ligantes de Maltose/genética , Salmonella enterica/genética , Virulência/genética , Transportadores de Cassetes de Ligação de ATP/genética , Proteínas de Bactérias/genética , Transporte de Íons , Regiões Promotoras Genéticas , Salmonella enterica/patogenicidade
5.
J Chem Inf Model ; 60(12): 5754-5770, 2020 12 28.
Artigo em Inglês | MEDLINE | ID: mdl-32551639

RESUMO

The novel coronavirus, SARS-CoV-2, has caused a recent pandemic called COVID-19 and a severe health threat around the world. In the current situation, the virus is rapidly spreading worldwide, and the discovery of a vaccine and potential therapeutics are critically essential. The crystal structure for the main protease (Mpro) of SARS-CoV-2, 3-chymotrypsin-like cysteine protease (3CLpro), was recently made available and is considerably similar to the previously reported SARS-CoV. Due to its essentiality in viral replication, it represents a potential drug target. Herein, a computer-aided drug design (CADD) approach was implemented for the initial screening of 13 approved antiviral drugs. Molecular docking of 13 antivirals against the 3-chymotrypsin-like cysteine protease (3CLpro) enzyme was accomplished, and indinavir was described as a lead drug with a docking score of -8.824 and a XP Gscore of -9.466 kcal/mol. Indinavir possesses an important pharmacophore, hydroxyethylamine (HEA), and thus, a new library of HEA compounds (>2500) was subjected to virtual screening that led to 25 hits with a docking score more than indinavir. Exclusively, compound 16 with a docking score of -8.955 adhered to drug-like parameters, and the structure-activity relationship (SAR) analysis was demonstrated to highlight the importance of chemical scaffolds therein. Molecular dynamics (MD) simulation analysis performed at 100 ns supported the stability of 16 within the binding pocket. Largely, our results supported that this novel compound 16 binds with domains I and II, and the domain II-III linker of the 3CLpro protein, suggesting its suitability as a strong candidate for therapeutic discovery against COVID-19.


Assuntos
Antivirais/química , Tratamento Farmacológico da COVID-19 , Proteases 3C de Coronavírus/metabolismo , Etanolaminas/química , SARS-CoV-2/efeitos dos fármacos , Antivirais/farmacologia , Sítios de Ligação , Desenho de Fármacos , Etanolaminas/farmacologia , Humanos , Conformação Molecular , Simulação de Acoplamento Molecular , Simulação de Dinâmica Molecular , Relação Estrutura-Atividade
6.
Int J Biol Macromol ; 269(Pt 1): 131806, 2024 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-38670179

RESUMO

Acinetobacter baumannii is a notorious pathogen that commonly thrives in hospital environments and is responsible for numerous nosocomial infections in humans. The burgeoning multi-drug resistance leaves relatively minimal options for treating the bacterial infection, posing a significant problem and prompting the identification of new approaches for tackling the same. This motivated us to focus on non-canonical nucleic acid structures, mainly G-quadruplexes, as drug targets. G-quadruplexes have recently been gaining attention due to their involvement in multiple bacterial and viral pathogenesis. Herein, we sought to explore conserved putative G-quadruplex motifs in A. baumannii. In silico analysis revealed the presence of eight conserved motifs in genes involved in bacterial survival and pathogenesis. The biophysical and biomolecular analysis confirmed stable G-quadruplex formation by the motifs and showed a high binding affinity with the well-reported G-quadruplex binding ligand, BRACO-19. BRACO-19 exposure also decreased the growth of bacteria and downregulated the expression of G-quadruplex-harboring genes. The biofilm-forming ability of the bacteria was also affected by BRACO-19 addition. Taking all these observations into account, we have shown here for the first time the potential of G-quadruplex structures as a promising drug target in Acinetobacter baumannii, for addressing the challenges posed by this infamous pathogen.


Assuntos
Acinetobacter baumannii , Quadruplex G , Acinetobacter baumannii/genética , Acinetobacter baumannii/efeitos dos fármacos , Quadruplex G/efeitos dos fármacos , Biofilmes/efeitos dos fármacos , Biofilmes/crescimento & desenvolvimento , Antibacterianos/farmacologia , Antibacterianos/química , Humanos , Regulação Bacteriana da Expressão Gênica/efeitos dos fármacos
7.
RSC Chem Biol ; 5(2): 109-116, 2024 Feb 07.
Artigo em Inglês | MEDLINE | ID: mdl-38333191

RESUMO

We recently developed Riboglow-FLIM, where we genetically tag and track RNA molecules in live cells through measuring the fluorescence lifetime of a small molecule probe that binds the RNA tag. Here, we systematically and quantitatively evaluated key elements of Riboglow-FLIM that may serve as the foundation for Riboglow-FLIM applications and further tool development efforts. Our investigation focused on measuring changes in fluorescence lifetime of representative Riboglow-FLIM probes with different linkers and fluorophores in different environments. In vitro measurements revealed distinct lifetime differences among the probe variants as a result of different linker designs and fluorophore selections. To expand on the platform's versatility, probes in a wide variety of mammalian cell types were examined using fluorescence lifetime imaging microscopy (FLIM), and possible effects on cell physiology were evaluated by metabolomics. The results demonstrated that variations in lifetime were dependent on both probe and cell type. Interestingly, distinct differences in lifetime values were observed between cell lines, while no overall change in cell health was measured. These findings underscore the importance of probe selection and cellular environment when employing Riboglow-FLIM for RNA detection, serving as a foundation for future tool development and applications across diverse fields and biological systems.

8.
Nat Prod Res ; : 1-5, 2024 Jun 25.
Artigo em Inglês | MEDLINE | ID: mdl-38919044

RESUMO

Cymbopogon distans (Nees ex Steud.) Will. Watson (Poaceae) is a promising aromatic plant distributed in the Himalayas. In this study, five acyclic monoterpenoids, namely geranyl acetate (RS1), neral (RS2), geranial (RS3), citral (RS4) and geraniol (RS5) were isolated from the essential oil of C. distans. The isolated compounds were tested for in-vitro neuroinflammation inhibitory potential in LPS-stimulated BV2 microglial cells. RS1-RS4 exhibited significant neuroinflammation inhibition without any cytotoxic effect at the dose of 10 µM. RS4, the most active anti-neuroinflammatory compound (TNF-α 31.48 ± 1.00%; IL-6 24.02 ± 0.63%; IL-1ß 42.15 ± 1.76%) was also able to inhibit acetylcholinesterase (AChE) in a dose-dependent manner. The results showed that RS4 (an isomeric mixture of neral and geranial) has the potential to inhibit neuroinflammation and AChE, which are the biomarkers of neurodegenerative disorders.

9.
ACS Appl Bio Mater ; 6(5): 1943-1952, 2023 05 15.
Artigo em Inglês | MEDLINE | ID: mdl-37126316

RESUMO

Theranostic nanoparticulate systems (TNPs) have shown potential in addressing problems related to spatial localization and temporally controlled release of drugs with the capabilities of real-time imaging to evaluate the progress of therapy. The current study reports the ultrasonic atomization-led synthesis of in vitro and in vivo evaluations of ultrasmall chitosan-based theranostic nanohybrid formulations with encapsulated doxorubicin (DOX) and iron-oxide magnetic nanoparticles. The nanohybrid particles are characterized using transmission electron microscopy, powder X-ray diffraction, FTIR, DOX encapsulation efficiency, in vitro release, cellular uptake, and toxicity. These formulations were also tested for the capability of invivo tumor reduction and simultaneous magnetic resonance imaging using Swiss albino mice. Ultrasonic atomizer-led synthesis resulted in chitosan-magnetic nanohybrids (CMNPs) having sizes of 15 ± 3 nm which comprise MNP of 10 ± 3 nm. The encapsulation of DOX in CMNP was around 25%, resulting in an 80% sustained release over 10 days at pH 5 and 7. CMNP was also found to be an efficient DOX delivery vehicle tested on cancer cells (HeLa). The CMNPs were able to reduce the tumor volume by 60% in 15 days. The inherent magnetic property and nanoscale size of CMNPs also provided for enhanced contrast efficiency in magnetic resonance imaging of tumors. Thus, such multifunctional theranostic nanoparticles can be an efficient tool for targeted diagnostic and therapeutic success.


Assuntos
Quitosana , Medicina de Precisão , Animais , Camundongos , Quitosana/química , Ultrassom , Sistemas de Liberação de Medicamentos , Doxorrubicina/química , Imageamento por Ressonância Magnética
10.
Risk Anal ; 32(2): 237-49, 2012 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-21801192

RESUMO

Demand for air travel is projected to increase in the upcoming years, with a corresponding influence on emissions, air quality, and public health. The trajectory of health impacts would be influenced by not just emissions growth, but also changes in nonaviation ambient concentrations that influence secondary fine particulate matter (PM(2.5) ) formation, population growth and aging, and potential shifts in PM(2.5) concentration-response functions (CRFs). However, studies to date have not systematically evaluated the individual and joint contributions of these factors to health risk trajectories. In this study, we simulated emissions during landing and takeoff from aircraft at 99 airports across the United States for 2005 and for a 2025 flight activity projection scenario. We applied the Community Multiscale Air Quality (CMAQ) model with the Speciated Modeled Attainment Test (SMAT) to determine the contributions of these emissions to ambient concentrations, including scenarios with 2025 aircraft emissions and 2005 nonaviation air quality. We combined CMAQ outputs with PM(2.5) mortality CRFs and population projections, and evaluated the influence of changing emissions, nonaviation concentrations, and population factors. Given these scenarios, aviation-related health impacts would increase by a factor of 6.1 from 2005 to 2025, with a factor of 2.1 attributable to emissions, a factor of 1.3 attributable to population factors, and a factor of 2.3 attributable to changing nonaviation concentrations which enhance secondary PM(2.5) formation. Our study emphasizes that the public health burden of aviation emissions would be significantly influenced by the joint effects of flight activity increases, nonaviation concentration changes, and population growth and aging.


Assuntos
Aviação , Poluentes Atmosféricos/análise , Poluentes Atmosféricos/toxicidade , Humanos , Modelos Teóricos , Mortalidade , Tamanho da Partícula , Estados Unidos/epidemiologia
11.
J Contemp Dent Pract ; 13(6): 819-23, 2012 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-23404009

RESUMO

BACKGROUND: Permanent mandibular third molar are most commonly impacted teeth. In planning the surgical removal of mandibular third molar, correct diagnosis requires not only their precise spatial location, but also a thorough and accurate assessment of the intimate relationship with adjacent anatomical structures. Various imaging modalities have been used for localizing the mandibular third molar but not satisfactorily. AIM: This prospective study of 30 patients with 42 impacted mandibular third molars was carried out with the aim of finding evidence for justifying the use of computed tomography and orthopantomography as a diagnostic modality, prior to surgical intervention of impacted mandibular third molar. MATERIALS AND METHODS: Subjective evaluation of the CT and OPG images by two observed had shown that there was significant difference between the CT and OPG for radiographic visibility of mandibular canal in relation to third molar. RESULTS: Data analysis was done with Chi-square test (X(2)) and z-test to find the significant difference between the two radiographic modalities OPG and CT in localizing special relationship of impacted mandibular third molar. The comparison of OPG and CT showed z-value >1.5 in darkening of roots (1.98), deflection of root (2.00) interruption of z-value = 0 in narrowing of canal and dark, bifid apexes. Also it showed p-value <0.05 in all the radiographic signs except narrowing of mandibular canal and and dark and bifid apexes. CONCLUSION: The spiral CT image provides a unique opportunity to determine the exact position of impacted mandibular third molar and their relationship to adjacent structure in all three planes. CLINICAL SIGNIFICANCE: Computed tomography is highly instrumental in depicting the relationship of mandibular third molar with inferior alveolar nerve canal before treatment and accurate appraisal of the several aspects can be made regarding prognosis.


Assuntos
Mandíbula/diagnóstico por imagem , Dente Serotino/diagnóstico por imagem , Radiografia Panorâmica/métodos , Tomografia Computadorizada Espiral/métodos , Dente Impactado/diagnóstico por imagem , Humanos , Processamento de Imagem Assistida por Computador/métodos , Mandíbula/inervação , Nervo Mandibular/diagnóstico por imagem , Tomografia Computadorizada Multidetectores/métodos , Estudos Prospectivos , Intensificação de Imagem Radiográfica/métodos , Ápice Dentário/diagnóstico por imagem , Raiz Dentária/diagnóstico por imagem , Dente Impactado/classificação
12.
J Contemp Dent Pract ; 13(6): 925-9, 2012 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-23404029

RESUMO

Adenoameloblastoma or adenomatoid odontogenic tumor (AOT) is an uncommon, benign, epithelial lesion of odontogenic origin. It is a rare benign odontogenic tumor of the jaw affecting mostly young individuals with predominance in female. It occurs mostly in maxillary anterior region. On the basis of clinical and radiographical picture, it is often misdiagnosed as an odontogenic cyst. We report on a rare case of a 13-year-old male patient with a follicular variety of AOT in mandibular left anterior region which is unusual for the same. Clinically and radiographically, the lesion was mimicking as a dentigerous cyst. Later surgical enucleation was done and specimen was sent for microscopic examination and was diagnosed as AOT along with a dentinoid-like deposits which is a rare finding.


Assuntos
Cisto Dentígero/diagnóstico , Doenças Mandibulares/diagnóstico , Neoplasias Mandibulares/diagnóstico , Tumores Odontogênicos/diagnóstico , Adolescente , Biópsia por Agulha , Dentina/patologia , Diagnóstico Diferencial , Assimetria Facial/diagnóstico , Seguimentos , Humanos , Masculino , Neoplasias Mandibulares/patologia , Tumores Odontogênicos/patologia , Radiografia Panorâmica
13.
J Contemp Dent Pract ; 13(6): 914-7, 2012 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-23404027

RESUMO

Condylar hyperplasia (CH), as the name suggests, affects mandibular condyle producing overgrowth of condyle, which is characterized by a slowly progressive, usually unilateral enlargement of the mandible, facial asymmetry and deviation of chin to the unaffected side. The condition is known to be self-limiting, usually begins around puberty, but may not be recognized until later in life. This paper reports a case of severe facial asymmetry secondary to CH, which was successfully treated by high condylectomy only.


Assuntos
Assimetria Facial/etiologia , Côndilo Mandibular/patologia , Doenças Mandibulares/etiologia , Adulto , Humanos , Hiperplasia , Masculino , Má Oclusão/etiologia , Côndilo Mandibular/crescimento & desenvolvimento , Côndilo Mandibular/cirurgia , Mordida Aberta/etiologia
14.
J Maxillofac Oral Surg ; 21(4): 1397-1403, 2022 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-36896069

RESUMO

Head, face and neck are three highly separate frame area that behave in a different way in phrases of gunshot injuries. Interpersonal violence, assaults, accidents and suicide attempts being the most common reason in most developed and developing countries. Morbidity and mortality to this area depends on the type of weapon used,entry and exit path and the distance from where it is fired. The complexity of facial skeleton and its close association with important vital structure makes the management of these gunshot wounds challenging in terms of accessibility, visibility and wound management. Here we present a case of access osteotomy in the form of maxillary Lefort I osteotomy for bullet retrieval lodged in nasopharyngeal area following gunshot injury due to interpersonal violence.

15.
ACS Infect Dis ; 8(4): 728-743, 2022 04 08.
Artigo em Inglês | MEDLINE | ID: mdl-35244385

RESUMO

The noncanonical structures, G-quadruplexes (GQs), formed in the guanine-rich region of nucleic acids regulate various biological and molecular functions in prokaryotes and eukaryotes. Neisseria meningitidis is a commensal residing in a human's upper respiratory tract but occasionally becomes virulent, causing life-threatening septicemia and meningitis. The factors causing these changes in phenotypes are not fully understood. At the molecular level, regulatory components help in a clearer understanding of the pathogen's virulence and pathogenesis. Herein, genome analysis followed by biophysical assays and cell-based experiments revealed the presence of conserved GQ motifs in N. meningitidis. These GQs are linked to the essential genes involved in cell adhesion, pathogenesis, virulence, transport, DNA repair, and recombination. Primer extension stop assay, reporter assays, and quantitative real-time polymerase chain reaction (qRT-PCR) further affirmed the formation of stable GQs in vitro and in vivo. These results support the existence of evolutionarily conserved GQ motifs in N. meningitidis and uphold the usage of GQ-specific ligands as novel antimeningococcal therapeutics.


Assuntos
Quadruplex G , Neisseria meningitidis , Expressão Gênica , Neisseria meningitidis/genética , Virulência
16.
Infect Genet Evol ; 101: 105298, 2022 07.
Artigo em Inglês | MEDLINE | ID: mdl-35526824

RESUMO

The genome of a micro-organism contains all the information required for its survival inside its host cells. The guanine rich regions of the genome can form stable G-quadruplex structures that act as the regulators of gene expression. Herein, the completely sequenced genomes of Helicobacter pylori were explored for the identification and characterization of the conserved G-quadruplex motifs in this gastrointestinal pathogen. Initial in silico analysis revealed the presence of ~8241 GQ motifs in the H. pylori genome. Metal binding proteins of H. pylori are significantly enriched in the GQ motifs. Our study emphasizes the identification and characterization of four highly conserved G-quadruplex forming motifs (HPGQs) in the nickel transporter genes (nixA, niuB1, niuB2, and niuD) of the H. pylori. Nickel is a virulence determinant in H. pylori and is required as a co-factor for the urease and [NiFe] hydrogenase enzymes that are crucial for its survival in the stomach lining of humans. The presence of GQ motifs in these nickel transporter genes can affect their expression and may alter the functioning of Urease and [NiFe] hydrogenase. Similar to human and virus G-quadruplexes, targeting these conserved PGQs with bioactive molecules may represent a novel therapeutic avenue for combating infection of H. pylori. The identified HPGQs were characterized in-vitro by using CD spectroscopy, electrophoresis technique, and NMR spectroscopy at both acidic (4.5) and neutral pH (7.0). ITC revealed the specific interaction of these HPGQs with high affinity to the known G-quadruplex binding ligand, TMPyP4. The mTFP based reporter assay showed decrease in the gene expression of mTFP in the TMPyP4 treated cells as compared to the untreated and further affirmed the formation of stable G-quadruplex structures in the HPGQ motifs in vivo. This is the first report for characterizing G-quadruplex motifs in nickel transport-associated genes in the H. pylori bacterium.


Assuntos
Quadruplex G , Helicobacter pylori , Proteínas de Membrana Transportadoras , Níquel , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Regulação Bacteriana da Expressão Gênica , Helicobacter pylori/genética , Helicobacter pylori/metabolismo , Humanos , Hidrogenase/genética , Proteínas de Membrana Transportadoras/genética , Proteínas de Membrana Transportadoras/metabolismo , Níquel/química , Níquel/metabolismo , Urease/genética , Urease/metabolismo
17.
J Biomol Struct Dyn ; 40(11): 4815-4831, 2022 07.
Artigo em Inglês | MEDLINE | ID: mdl-33463407

RESUMO

Ebola virus is the primary causative agent of viral hemorrhagic fever that is an epidemic disease and responsible for the massive premature deaths in humans. Despite knowing the molecular mechanism of its pathogenesis, to date, no commercial or FDA approved multiepitope vaccine is available against Ebola infection. The current study focuses on designing a multi-epitope subunit vaccine for Ebola using a novel immunoinformatic approach. The best predicted antigenic epitopes of Cytotoxic-T cell (CTL), Helper-T cells (HTL), and B-cell epitopes (BCL) joined by various linkers were selected for the multi-epitope vaccine designing. For the enhanced immune response, two adjuvants were also added to the construct. Further analysis showed the vaccine to be immunogenic and non-allergenic, forming a stable and energetically favorable structure. The stability of the unbound vaccine construct and vaccine/TLR4 was elucidated via atomistic molecular dynamics simulations. The binding free energy analysis (ΔGBind = -194.2 ± 0.5 kcal/mol) via the molecular mechanics Poisson-Boltzmann docking scheme revealed a strong association and thus can initiate the maximal immune response. Next, for the optimal expression of the vaccine construct, its gene construct was cloned in the pET28a + vector system. In summary, the Ebola viral proteome was screened to identify the most potential HTLs, CTLs, and BCL epitopes. Along with various linkers and adjuvants, a multi-epitope vaccine is constructed that showed a high binding affinity with the immune receptor, TLR4. Thus, the current study provides a highly immunogenic multi-epitope subunit vaccine construct that may induce humoral and cellular immune responses against the Ebola infection.Communicated by Ramaswamy H. Sarma.


Assuntos
Ebolavirus , Doença pelo Vírus Ebola , Biologia Computacional , Ebolavirus/genética , Epitopos de Linfócito B , Epitopos de Linfócito T , Genoma Viral , Doença pelo Vírus Ebola/genética , Doença pelo Vírus Ebola/prevenção & controle , Humanos , Simulação de Acoplamento Molecular , Vacinas de Subunidades Antigênicas
18.
ACS Infect Dis ; 8(12): 2540-2551, 2022 12 09.
Artigo em Inglês | MEDLINE | ID: mdl-36332135

RESUMO

Tuberculosis is recognized as one of the major public health threats worldwide. The DevR-DevS (DosR/DosS) two-component system is considered a novel drug target in Mycobacterium tuberculosis (Mtb), the etiological agent of tuberculosis, owing to its central role in bacterial adaptation and long-term persistence. An increase in DevR levels and the decreased permeability of the mycobacterial cell wall during hypoxia-associated dormancy pose formidable challenges to the development of anti-DevR compounds. Using an in vitro evolution approach of Systematic Evolution of Ligands by EXponential enrichment (SELEX), we developed a panel of single-stranded DNA aptamers that interacted with Mtb DevR protein in solid-phase binding assays. The best-performing aptamer, APT-6, forms a G-quadruplex structure and inhibits DevR-dependent transcription in Mycobacterium smegmatis. Mechanistic studies indicate that APT-6 functions by inhibiting the dimerization and DNA binding activity of DevR protein. In silico studies reveal that APT-6 interacts majorly with C-terminal domain residues that participate in DNA binding and formation of active dimer species of DevR. To the best of our knowledge, this is the first report of a DNA aptamer that inhibits the function of a cytosolic bacterial response regulator. By inhibiting the dimerization of DevR, APT-6 targets an essential step in the DevR activation mechanism, and therefore, it has the potential to universally block the expression of DevR-regulated genes for intercepting dormancy pathways in mycobacteria. These findings also pave the way for exploring aptamer-based approaches to design and develop potent inhibitors against intracellular proteins of various bacterial pathogens of global concern.


Assuntos
Aptâmeros de Nucleotídeos , Mycobacterium tuberculosis , Tuberculose , Humanos , Mycobacterium tuberculosis/genética , Aptâmeros de Nucleotídeos/farmacologia , DNA
19.
Infect Genet Evol ; 87: 104648, 2021 01.
Artigo em Inglês | MEDLINE | ID: mdl-33264668

RESUMO

Novel SARS coronavirus (SARS-CoV-2) has caused a pandemic condition worldwide. It has been declared as a public health emergency of international concern by WHO in a very short span of time. The community transmission of this highly infectious virus has severely affected various parts of China, Italy, Spain, India, and USA, among others. The prophylactic solution against SARS-CoV-2 infection is challenging due to the high mutation rate of its RNA genome. Herein, we exploited a next-generation vaccinology approach to construct a multi-epitope vaccine candidate against SARS-CoV-2 that is predicted to have high antigenicity, safety, and efficacy to combat this deadly infectious agent. The whole proteome was scrutinized for the screening of highly conserved, antigenic, non-allergen, and non-toxic epitopes having high population coverage that can elicit both humoral and cellular mediated immune response against COVID-19 infection. These epitopes along with four different adjuvants, were utilized to construct a multi-epitope-vaccine candidate that can generate strong immunological memory response having high efficacy in humans. Various physiochemical analyses revealed the formation of a stable vaccine product having a high propensity to form a protective solution against the detrimental SARS-CoV-2 strain with high efficacy. The vaccine candidate interacted with immunological receptor TLR3 with a high affinity depicting the generation of innate immunity. Further, the codon optimization and in silico expression show the plausibility of the high expression and easy purification of the vaccine product. Thus, this present study provides an initial platform for the rapid generation of an efficacious protective vaccine for combating COVID-19.


Assuntos
Vacinas contra COVID-19 , COVID-19/prevenção & controle , Epitopos de Linfócito B/imunologia , Epitopos de Linfócito T/imunologia , SARS-CoV-2/metabolismo , Glicoproteína da Espícula de Coronavírus/metabolismo , COVID-19/imunologia , Vacinas contra COVID-19/química , Vacinas contra COVID-19/imunologia , Humanos , Simulação de Acoplamento Molecular , Glicoproteína da Espícula de Coronavírus/isolamento & purificação
20.
Curr Drug Metab ; 22(7): 572-580, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-33618642

RESUMO

Aim & Background: Ornidazole is an antimicrobial drug used to treat certain types of vaginal, urinary tract, and interstitial infections. The study aims to formulate and evaluate the dental inserts by using a drug candidate to sustained drug release to improve patient compliance, reduce dosing frequency, reduce the risk of dose dumping, and avoid the first-pass metabolism. They have better therapeutic efficacy and fewer side effects. METHODS: The dental inserts were prepared using various polymers alone and in combination with the different ratios of polymers. The evaluation parameters like thickness, drug content, content uniformity, moisture reuptake, weight variation, swelling studies, and erosion studies of the optimized inserts were studied. The in-vivo studies were conducted to determine the reduction of pocket depth in human volunteers. RESULTS: The system containing ethylcellulose and hydroxyl methyl propyl cellulose K100M (4:1) formulation F6 was optimized because drug release was sustained up to 120 hrs concerning other formulations. Optimized formulation followed first-order kinetics and Peppas release kinetics via fickian diffusion. There was no swelling, itching, irritation, and no reduction in the pocket depth in in-vivo studies. CONCLUSION: The study concluded that dental inserts could extend the release of Ornidazole for many hours and also enhance bioavailability. Furthermore, they also help in avoiding the first-pass effect. In vivo studies' observations showed no itching, irritation, swelling, and pocket-depth reduction.


Assuntos
Anti-Infecciosos/administração & dosagem , Implantes Dentários , Ornidazol/administração & dosagem , Anti-Infecciosos/efeitos adversos , Anti-Infecciosos/farmacocinética , Anti-Infecciosos/uso terapêutico , Disponibilidade Biológica , Celulose/análogos & derivados , Preparações de Ação Retardada , Composição de Medicamentos , Humanos , Derivados da Hipromelose , Ornidazol/efeitos adversos , Ornidazol/farmacocinética , Ornidazol/uso terapêutico
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