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Article: Controllable physicochemical properties of WO

Mandal, Rupam / Mandal, Aparajita / Dutta, Alapan / Sivakumar, Rengasamy / Srivastava, Sanjeev Kumar / Som, Tapobrata

2024 Volume 15, Page(s) 350–359

Abstract: In this work, various physicochemical properties are investigated in nanostructured ... ...

Abstract	In this work, various physicochemical properties are investigated in nanostructured WO
Language	English
Publishing date	2024-04-02
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2583584-1
ISSN	2190-4286
ISSN	2190-4286
DOI	10.3762/bjnano.15.31
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Article ; Online: Red to NIR-emissive anthracene-conjugated PMI dyes with dual functions: singlet-oxygen response and lipid-droplet imaging.

Roy, Rupam / Khan, Aasif / Dutta, Tanoy / Koner, Apurba Lal

Journal of materials chemistry. B

2022 Volume 10, Issue 28, Page(s) 5352–5363

Abstract: The rich chemistry of solution-processable red and near-infrared (NIR) organic emitters has emerged as an attractive and progressive research field because of their particular applications in organic optoelectronics and bioimaging. Also, one can see that ...

Abstract	The rich chemistry of solution-processable red and near-infrared (NIR) organic emitters has emerged as an attractive and progressive research field because of their particular applications in organic optoelectronics and bioimaging. Also, one can see that the research area of perylene monoimide-based red and NIR-emissive fluorophores is underexplored, which prompted us to design and synthesize three anthracene-conjugated PMI dyes exhibiting strong emission in the red and NIR window in solution. Three PMI-based fluorophores were synthesized
MeSH term(s)	Anthracenes ; Fluorescent Dyes/chemistry ; Lipids ; Oxygen ; Singlet Oxygen
Chemical Substances	Anthracenes ; Fluorescent Dyes ; Lipids ; Singlet Oxygen (17778-80-2) ; Oxygen (S88TT14065)
Language	English
Publishing date	2022-07-20
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2702241-9
ISSN	2050-7518 ; 2050-750X
ISSN (online)	2050-7518
ISSN	2050-750X
DOI	10.1039/d2tb00349j
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Article ; Online: QT Changes of Unforeseen Implications and Bedaquiline

Samya Dutta / Chitrita Ghosh / Sandip Mukhopadhyay / Ta Rupam Kumar

Journal of Clinical and Diagnostic Research, Vol 16, Iss 2, Pp OC24-OC

An Observational Study

2022 Volume 28

Abstract: Introduction: Bedaquiline (BDQ), a diarylquinoline class of antimicrobial, is one of the latest anti-mycobacterial agents to be developed in several decades. Despite the drug being a great hope for the Drug Resistant Tuberculosis (DR-TB) patients, ... ...

Abstract	Introduction: Bedaquiline (BDQ), a diarylquinoline class of antimicrobial, is one of the latest anti-mycobacterial agents to be developed in several decades. Despite the drug being a great hope for the Drug Resistant Tuberculosis (DR-TB) patients, previous studies have raised alarm about BDQ-induced QT prolongations of serious clinical implication. Unfortunately, knowledge about adverse drug reaction of BDQ on Indian patients remains limited. Therefore, dedicated research focused on safety of BDQ in Indian population can provide valuable insight. Aim: To assess the short-term safety of BDQ on Indian DR-TB patients. Materials and Methods: This prospective observational study was conducted over a period of one year on 49 DR-TB patients under BDQ therapy. Data of all the DR-TB patients from the first 14 days of BDQ therapy were enrolled in the study. All adverse events during this period were closely observed and recorded. Electrocardiography (ECG) were recorded daily during this period. From the observed QT value, a ‘corrected QT’ (QTc) value was calculated using Fridericia’s formula (QTcF). Values above 440 ms were noted as prolonged QTcF and values >500 ms were given a special consideration. Results: Total 49 patients were recruited in the present study, with mean age of 38.63±1.63 years. A total of 124 reports of adverse events or symptoms were recorded during the 14 days in-hospital period. Nausea was the most commonly reported complaint (n=33) followed by headache (n=30) and arthralgia (n=28). A total of 278 observations of prolonged QTcF values (>440 ms) was noted out of 686 ECG recordings. The mean QTcF values among day 1, day 7 and day 14 showed statistically significant difference {p=0.01, 95% CI (Confidence Interval)}. Moreover, a mean increase of 14.2% was observed in the QTcF values between day 1 and day 14. There were a total of 69 observations of QTcF value more than 500 ms. The incidence of such value was maximum on day 14 (n=9). The QTcF values were found to follow three distinct trends: a) ...
Keywords	drug-resistant tuberculosis ; qt prolongation ; qt reduction ; Medicine ; R
Subject code	610
Language	English
Publishing date	2022-02-01T00:00:00Z
Publisher	JCDR Research and Publications Private Limited
Document type	Article ; Online
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Article ; Online: Development of recombinant subunit vaccine targeting InvH protein of Salmonella Typhimurium and evaluation of its immunoprotective efficacy against salmonellosis.

Choudhury, Mridusmita / Borah, Probodh / Sarma, Hridip Kumar / Deka, Dipak / Dutta, Rupam / Hazarika, Girin / Deka, Naba Kumar

Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology

2023 Volume 54, Issue 4, Page(s) 3257–3264

Abstract: Salmonella Typhimurium is the most prevalent non-host specific Salmonella serovars and a major concern for both human and animal health systems worldwide contributing to significant economic loss. Type 3 secretion system (T3SS) of Salmonella plays an ... ...

Abstract	Salmonella Typhimurium is the most prevalent non-host specific Salmonella serovars and a major concern for both human and animal health systems worldwide contributing to significant economic loss. Type 3 secretion system (T3SS) of Salmonella plays an important role in bacterial adherence and entry into the host epithelial cells. The product of invH gene of Salmonella is an important component of the needle complex of the type 3 secretion system. Hence, the present study was undertaken to clone and express the 15 kDa InvH surface protein of Salmonella Typhimurium in an E. coli host and to evaluate its immune potency in mice. The purified recombinant InvH (r-InvH) protein provoked a significant (p < 0.01) rise in IgG in the inoculated mice. The immunized mice were completely (100%) protected against the challenge dose of 107.5 LD50, while protection against challenge with the same dose of heterologous serovars was 90%. The bacterin-vaccinated group showed homologous protection of 60% against all three serovars. Findings in this study suggest the potential of the r-InvH protein of S. Typhimurium as an effective vaccine candidate against Salmonella infections.
MeSH term(s)	Animals ; Mice ; Humans ; Salmonella typhimurium/genetics ; Salmonella typhimurium/metabolism ; Type III Secretion Systems/metabolism ; Escherichia coli/genetics ; Bacterial Proteins/metabolism ; Salmonella Infections/prevention & control ; Salmonella Food Poisoning ; Recombinant Proteins/genetics ; Recombinant Proteins/metabolism ; Vaccines, Subunit/genetics ; Vaccines, Subunit/metabolism ; Salmonella Infections, Animal/microbiology ; Vaccines, Attenuated
Chemical Substances	Type III Secretion Systems ; Bacterial Proteins ; Recombinant Proteins ; Vaccines, Subunit ; Vaccines, Attenuated
Language	English
Publishing date	2023-10-04
Publishing country	Brazil
Document type	Journal Article
ZDB-ID	2017175-4
ISSN	1678-4405 ; 1517-8382
ISSN (online)	1678-4405
ISSN	1517-8382
DOI	10.1007/s42770-023-01136-6
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Article ; Online: Novel Mutations Reduce Expression of Meiotic Regulators SYCE1 and BOLL in Testis of Azoospermic Men from West Bengal, India.

Pal, Samudra / Paladhi, Pranab / Dutta, Saurav / Mullick, Rupam Basu / Bose, Gunja / Ghosh, Papiya / Chattopadhyay, Ratna / Ghosh, Sujay

Reproductive sciences (Thousand Oaks, Calif.)

2023 Volume 31, Issue 4, Page(s) 1069–1088

Abstract: We investigated the polymorphisms/mutations in synaptonemal complex central element protein 1 (SYCE1) and CDC25A mRNA-binding protein (BOLL) to test whether they increase the risk of azoospermia among Bengali-speaking men from West Bengal, India. Sanger' ... ...

Abstract	We investigated the polymorphisms/mutations in synaptonemal complex central element protein 1 (SYCE1) and CDC25A mRNA-binding protein (BOLL) to test whether they increase the risk of azoospermia among Bengali-speaking men from West Bengal, India. Sanger's dideoxy sequencing was used to genotype 140 azoospermic individuals who tested negative for Y chromosome microdeletion and 120 healthy controls. In both cases and controls, qRT-PCR was used to determine the expression summary of SYCE1 and BOLL. The perceived harmful consequences of identified mutations were inferred using in silico analysis. Suitable statistical approaches were used to conduct the association study. We found SYCE1 177insT (ON245141), 10650T > G (ON257012), 10093insT (ON257013), 10653insG (ON292504), rs10857748A > G, rs10857749G > A, and rs10857750T > A and BOLL 7708T > A (ON245141insT), rs72918816T > C, and rs700655C > T variants with the prevalence of azoospermia. Data from qRT-PCR and in silico studies projected that the variations would either disrupt the transcript's natural splice junctions or cause probable damage to the structure of the genes' proteins. SYCE1 gene variants [177insT (ON245141), 10650T > G (ON257012), 10093insT (ON257013), 10653insG (ON292504), rs10857748A > G, rs10857749G > A, rs10857750T > A] and BOLL gene variants [7708T > A (ON245141insT), rs72918816T > C, rs700655C > T] reduce the expression of respective gene in testicular tissue among azoospermic male as revealed from qRT-PCR result. These genetic variations could be utilized as screening tools for male infertility to determine the best course of treatment in routine ART practise.
MeSH term(s)	Humans ; Male ; Azoospermia/metabolism ; India ; Infertility, Male/metabolism ; Mutation ; Testis/metabolism
Chemical Substances	SYCP1 protein, human ; BOLL protein, human
Language	English
Publishing date	2023-11-13
Publishing country	United States
Document type	Journal Article
ZDB-ID	2276411-2
ISSN	1933-7205 ; 1933-7191
ISSN (online)	1933-7205
ISSN	1933-7191
DOI	10.1007/s43032-023-01393-8
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Article ; Online: Analysis of codon usage of severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) and its adaptability in dog.

Dutta, Rupam / Buragohain, Lukumoni / Borah, Probodh

Virus research

2020 Volume 288, Page(s) 198113

Abstract: Severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is recognized as one of the life-threatening viruses causing the most destructive pandemic in this century. The genesis of this virus is still unknown. To elucidate its molecular evolution and ...

Abstract	Severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is recognized as one of the life-threatening viruses causing the most destructive pandemic in this century. The genesis of this virus is still unknown. To elucidate its molecular evolution and regulation of gene expression, the knowledge of codon usage is a pre-requisite. In this study, an attempt was made to document the genome-wide codon usage profile and the various factors influencing the codon usage patterns of SARS-CoV-2 in human and dog. The SARS-CoV-2 genome showed relative abundance of A and U nucleotides and relative synonymous codon usage analysis revealed that the preferred synonymous codons mostly end with A/U. The analysis of ENc-GC3s, Neutrality and Parity rule 2 plots indicated that natural selection and other undefined factors dominate the overall codon usage bias in SARS-CoV-2 whereas the impact of mutation pressure is comparatively minor. The codon adaptation index and relative codon deoptimization index of SARS-CoV-2 deciphered that human is more favoured host for adaptation compared to dog. These results enhance our understanding of the factors involved in evolution of the novel human SARS-CoV-2 and its adaptability in dog.
MeSH term(s)	Adaptation, Biological/genetics ; Animals ; Betacoronavirus/genetics ; COVID-19 ; Cats ; Cattle ; Chiroptera ; Codon Usage ; Coronavirus Infections/virology ; Dog Diseases/virology ; Dogs ; Evolution, Molecular ; Genome, Viral ; Horses ; Host Specificity ; Humans ; Mutation ; Pandemics ; Pneumonia, Viral/virology ; SARS-CoV-2 ; Selection, Genetic ; Swine
Keywords	covid19
Language	English
Publishing date	2020-08-07
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	605780-9
ISSN	1872-7492 ; 0168-1702
ISSN (online)	1872-7492
ISSN	0168-1702
DOI	10.1016/j.virusres.2020.198113
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Article: Analysis of codon usage of severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) and its adaptability in dog

Dutta, Rupam / Buragohain, Lukumoni / Borah, Probodh

Virus research. 2020 Oct. 15, v. 288

2020

Abstract	Severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is recognized as one of the life-threatening viruses causing the most destructive pandemic in this century. The genesis of this virus is still unknown. To elucidate its molecular evolution and regulation of gene expression, the knowledge of codon usage is a pre-requisite. In this study, an attempt was made to document the genome-wide codon usage profile and the various factors influencing the codon usage patterns of SARS-CoV-2 in human and dog. The SARS-CoV-2 genome showed relative abundance of A and U nucleotides and relative synonymous codon usage analysis revealed that the preferred synonymous codons mostly end with A/U. The analysis of ENc-GC3s, Neutrality and Parity rule 2 plots indicated that natural selection and other undefined factors dominate the overall codon usage bias in SARS-CoV-2 whereas the impact of mutation pressure is comparatively minor. The codon adaptation index and relative codon deoptimization index of SARS-CoV-2 deciphered that human is more favoured host for adaptation compared to dog. These results enhance our understanding of the factors involved in evolution of the novel human SARS-CoV-2 and its adaptability in dog.
Keywords	Severe acute respiratory syndrome coronavirus 2 ; codon usage ; dogs ; gene expression regulation ; humans ; mutation ; natural selection ; nucleotides ; pandemic ; viruses
Language	English
Dates of publication	2020-1015
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	605780-9
ISSN	1872-7492 ; 0168-1702
ISSN (online)	1872-7492
ISSN	0168-1702
DOI	10.1016/j.virusres.2020.198113
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Article ; Online: Calcium phosphate nanoparticles conjugated with outer membrane vesicle of Riemerella anatipestifer for vaccine development in ducklings.

Deka, Naba Jyoti / Kalita, Dhruba Jyoti / Tamuly, Shantanu / Sharma, Rajeev Kumar / Bora, Durlav Prasad / Dutta, Rupam / Hazorika, Mousumi / Chabukdhara, Prasanta / George, Shiney

Microbial pathogenesis

2023 Volume 185, Page(s) 106446

Abstract: Biodegradable calcium phosphate nanoparticles offer a viable substitute for traditional adjuvants such as aluminum in vaccine production. Calcium phosphate nanoparticle adjuvanted with outer membrane vesicle (OMV) of gram negative bacteria may induce ... ...

Abstract	Biodegradable calcium phosphate nanoparticles offer a viable substitute for traditional adjuvants such as aluminum in vaccine production. Calcium phosphate nanoparticle adjuvanted with outer membrane vesicle (OMV) of gram negative bacteria may induce efficient immune response in the host. The present study was carried out to evaluate the potential of a mucosal vaccine formulation of calcium phosphate (CAP) nanoparticle using OMV of Riemerella anatipestifer (RA) as antigen against New Duck disease in ducks. The work was initiated with isolation, identification of RA, followed by OMV production and extraction. The CAP-OMV nanoparticle was prepared and characterized. The efficacy of the vaccine formulation and toxicity were studied in ducks. The average OMV yield in terms of protein concentration was found to be 122.33 ± 3.48 mg per liter of BHI broth. In SDS-PAGE, isolated OMVs exhibited presence of 16 distinct protein bands with molecular weight ranging from 142.1 to 12.1 kDa. Seven protein bands of 74.1, 69.3, 55.5, 50.6, 45.6, 25.1 and 13.1 kDa were detected relatively more distinct. The major bands detected in our findings were 42 kDa, 37 kDa and 16 kDa that corresponds to OmpA, OmpH, P6 respectively. The mean zeta size (±SD) and potential of the nanoparticle were 246.20 ± 0.53 nm and -25.60 ± 5.97 respectively. In transmission electron microscopy (TEM), the nanoparticles exhibited an average diameter of 129.80 ± 11.10 nm and displayed spherical morphology. The median protective dose (PD50) of CAP-OMV nanoparticle was 1881.10 μg of protein. Group I ducks received 3762 μg of protein (entrapped protein in CAP-OMV nanoparticle) via intra nasal route and it showed the highest serum IgG and secretory IgA level than other immunized groups. All experimental ducks were challenged with 10 × LD50 on 35 days of post primary immunization. Group I showed 100 % survivability in the challenge study. No gross and biochemical indication of acute or chronic toxicity were recorded. In conclusion, our results suggest that CAP-OMV nanoparticle can be a safe and efficient mucosal vaccine delivery system for RA, eliciting strong immune response in the host.
MeSH term(s)	Animals ; Ducks/microbiology ; Poultry Diseases/microbiology ; Flavobacteriaceae Infections/prevention & control ; Flavobacteriaceae Infections/veterinary ; Riemerella ; Adjuvants, Immunologic ; Vaccine Development ; Bacterial Vaccines ; Calcium Phosphates
Chemical Substances	Adjuvants, Immunologic ; Bacterial Vaccines ; Calcium Phosphates
Language	English
Publishing date	2023-11-10
Publishing country	England
Document type	Journal Article
ZDB-ID	632772-2
ISSN	1096-1208 ; 0882-4010
ISSN (online)	1096-1208
ISSN	0882-4010
DOI	10.1016/j.micpath.2023.106446
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Article: Red to NIR-emissive anthracene-conjugated PMI dyes with dual functions: singlet-oxygen response and lipid-droplet imaging

Roy, Rupam / Khan, Aasif / Dutta, Tanoy / Koner, Apurba Lal

Journal of materials chemistry B. 2022 July 20, v. 10, no. 28

2022

Abstract	The rich chemistry of solution-processable red and near-infrared (NIR) organic emitters has emerged as an attractive and progressive research field because of their particular applications in organic optoelectronics and bioimaging. Also, one can see that the research area of perylene monoimide-based red and NIR-emissive fluorophores is underexplored, which prompted us to design and synthesize three anthracene-conjugated PMI dyes exhibiting strong emission in the red and NIR window in solution. Three PMI-based fluorophores were synthesized via conjoining anthracene and donor moieties (-Ph, -N,N-PhNMe₂) with a PMI core via an acetylene linkage at the peri-position, which helped to attain extensive electronic conjugation, which was reflected in red and NIR-emission in solution. The key molecular features to be highlighted here are: all three dyes are strongly emissive in solution, as unveiled by the excellent absolute fluorescence QYs; and they possess tuneable emission properties, guided by the donor strength and a profound Stokes shift (100–200 nm). The three fluorescent dyes demonstrated appreciable singlet-oxygen (¹O₂) sensitivity when photoirradiated with methylene blue (MB) in solution, showing a substantial blue-shift in emission in a ratiometric manner. Further, the treatment of dye–MB solution with α-tocopherol (¹O₂ scavenger) validated the presence of ¹O₂ as the only oxidizing species generated by MB in solution. Computational investigations gave insight into the twisting of donor moieties in their ground-state optimized geometries, the modulation of the FMO energy gap, and the thermodynamic feasibility of the ¹O₂ reaction. Finally, via taking advantage of the red and NIR-emission, we successfully utilized one of the fluorophores as a lipid-droplet marker for bioimaging in HepG2 cells.
Keywords	acetylene ; alpha-tocopherol ; anthracenes ; bioimaging ; energy ; fluorescence ; fluorescent dyes ; methylene blue ; photoirradiation ; singlet oxygen ; thermodynamics
Language	English
Dates of publication	2022-0720
Size	p. 5352-5363.
Publishing place	The Royal Society of Chemistry
Document type	Article
ZDB-ID	2702241-9
ISSN	2050-7518 ; 2050-750X
ISSN (online)	2050-7518
ISSN	2050-750X
DOI	10.1039/d2tb00349j
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Article ; Online: Corrigendum: The molecular basis of differential host responses to avian influenza viruses in avian species with differing susceptibility.

Morris, Katrina M / Mishra, Anamika / Raut, Ashwin A / Gaunt, Eleanor R / Borowska, Dominika / Kuo, Richard I / Wang, Bo / Vijayakumar, Periyasamy / Chingtham, Santhalembi / Dutta, Rupam / Baillie, Kenneth / Digard, Paul / Vervelde, Lonneke / Burt, David W / Smith, Jacqueline

Frontiers in cellular and infection microbiology

2023 Volume 13, Page(s) 1194878

Abstract: This corrects the article DOI: 10.3389/fcimb.2023.1067993.]. ...

Abstract	[This corrects the article DOI: 10.3389/fcimb.2023.1067993.].
Language	English
Publishing date	2023-04-04
Publishing country	Switzerland
Document type	Published Erratum
ZDB-ID	2619676-1
ISSN	2235-2988 ; 2235-2988
ISSN (online)	2235-2988
ISSN	2235-2988
DOI	10.3389/fcimb.2023.1194878
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