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Article ; Online: Global transcriptome analysis reveals Salmonella Typhimurium employs nitrate metabolism to combat bile stress.

Singh, Madhulika / Chandra, Deepti / Jagdish, Sirisha / Nandi, Dipankar

2024

Abstract: Salmonella Typhimurium is an enteric pathogen that is highly tolerant to bile. Next-generation mRNA sequencing was performed to analyze the adaptive responses to bile in two S. Typhimurium strains: wild type (WT) and a mutant lacking cold shock protein E ...

Abstract	Salmonella Typhimurium is an enteric pathogen that is highly tolerant to bile. Next-generation mRNA sequencing was performed to analyze the adaptive responses to bile in two S. Typhimurium strains: wild type (WT) and a mutant lacking cold shock protein E (ΔcspE). CspE is an RNA chaperone which is crucial for survival of S. Typhimurium during bile stress. This study identifies transcriptional responses in bile-tolerant WT and bile-sensitive ΔcspE. Upregulation of several genes involved in nitrate metabolism was observed, including fnr, a global regulator of nitrate metabolism. Notably, Δfnr was susceptible to bile stress. Also, complementation with fnr lowered reactive oxygen species and enhanced the survival of bile-sensitive ΔcspE. Importantly, intracellular nitrite amounts were highly induced in bile-treated WT compared to ΔcspE. Also, the WT strain pre-treated with nitrate displayed better growth with bile. These results demonstrate that nitrate-dependent metabolism promotes adaptation of S. Typhimurium to bile.
Language	English
Publishing date	2024-03-19
Publishing country	England
Document type	Journal Article
ZDB-ID	212746-5
ISSN	1873-3468 ; 0014-5793
ISSN (online)	1873-3468
ISSN	0014-5793
DOI	10.1002/1873-3468.14853
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Article ; Online: Functional Characterization of Salmonella Typhimurium Encoded YciF, a Domain of Unknown Function (DUF892) Family Protein, and Its Role in Protection during Bile and Oxidative Stress.

Singh, Madhulika / Penmatsa, Aravind / Nandi, Dipankar

Journal of bacteriology

2023 Volume 205, Issue 7, Page(s) e0005923

Abstract: YciF (STM14_2092) is a member of the domain of unknown function (DUF892) family. It is an uncharacterized protein involved in stress responses in Salmonella Typhimurium. In this study, we investigated the significance of YciF and its DUF892 domain during ...

Abstract	YciF (STM14_2092) is a member of the domain of unknown function (DUF892) family. It is an uncharacterized protein involved in stress responses in Salmonella Typhimurium. In this study, we investigated the significance of YciF and its DUF892 domain during bile and oxidative stress responses of
MeSH term(s)	Salmonella typhimurium/metabolism ; Reactive Oxygen Species/metabolism ; Bile/metabolism ; Ceruloplasmin/metabolism ; Bacterial Proteins/metabolism ; Oxidative Stress ; Iron/metabolism
Chemical Substances	Reactive Oxygen Species ; Ceruloplasmin (EC 1.16.3.1) ; Bacterial Proteins ; Iron (E1UOL152H7)
Language	English
Publishing date	2023-06-27
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2968-3
ISSN	1098-5530 ; 0021-9193
ISSN (online)	1098-5530
ISSN	0021-9193
DOI	10.1128/jb.00059-23
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Article ; Online: Mechanical Properties Affect Primary T Cell Activation in 3D Bioprinted Hydrogels.

Joseph, Joel P / Gugulothu, Sriram Bharath / Nandi, Dipankar / Chatterjee, Kaushik

ACS macro letters

2023 Volume 12, Issue 8, Page(s) 1085–1093

Abstract: T cells play a critical role in the adaptive immune response of the body, especially against intracellular pathogens and cancer. ...

Abstract	T cells play a critical role in the adaptive immune response of the body, especially against intracellular pathogens and cancer.
MeSH term(s)	Mice ; Animals ; Hydrogels/pharmacology ; Ionomycin/metabolism ; Cell Line ; Cells, Cultured ; Extracellular Matrix/metabolism
Chemical Substances	Hydrogels ; Ionomycin (56092-81-0)
Language	English
Publishing date	2023-07-19
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2161-1653
ISSN (online)	2161-1653
DOI	10.1021/acsmacrolett.3c00271
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Article ; Online: Herbicides 2,4-Dichlorophenoxy Acetic Acid and Glyphosate Induce Distinct Biochemical Changes in

Singh, Saumya / Verma, Taru / Nandi, Dipankar / Umapathy, Siva

The journal of physical chemistry. B

2022 Volume 126, Issue 41, Page(s) 8140–8154

Abstract: Antibiotic resistance is a major global health concern. The increased use of herbicides may lead to multiple antibiotic resistance in bacteria. Conventional techniques for diagnosing antibiotic resistance are laborious, time-intensive, expensive, and ... ...

Abstract	Antibiotic resistance is a major global health concern. The increased use of herbicides may lead to multiple antibiotic resistance in bacteria. Conventional techniques for diagnosing antibiotic resistance are laborious, time-intensive, expensive, and lack information about antibiotic susceptibility. On the other hand, Raman spectroscopy is a rapid, label-free, noninvasive alternative to traditional techniques to detect antibiotic resistance. In this study, two popular herbicides 2,4-dichlorophenoxy acetic acid (2,4-D) and
MeSH term(s)	Escherichia coli ; Herbicides/pharmacology ; Spectrum Analysis, Raman ; Acetic Acid ; Anti-Bacterial Agents/pharmacology ; Drug Resistance, Microbial ; 2,4-Dichlorophenoxyacetic Acid/pharmacology ; Cytochromes ; Glyphosate
Chemical Substances	Herbicides ; Acetic Acid (Q40Q9N063P) ; Anti-Bacterial Agents ; 2,4-Dichlorophenoxyacetic Acid (2577AQ9262) ; Cytochromes
Language	English
Publishing date	2022-10-07
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1520-5207
ISSN (online)	1520-5207
DOI	10.1021/acs.jpcb.2c04151
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Article: Determinants of treatment interruption and outcome among smear-positive pulmonary tuberculosis patients in a tuberculosis unit of Purba Bardhaman district of West Bengal.

Nandi, Chinmay / Mitra, Kaushik / Bhaumik, Dipankar

Journal of family medicine and primary care

2022 Volume 11, Issue 3, Page(s) 1134–1139

Abstract: Context: The adoption of directly observed treatment short course (DOTS) in Revised National Tuberculosis Control Programme has given impressive results with higher treatment success. But interruption of treatment has been one of the major obstacles to ... ...

Abstract	Context: The adoption of directly observed treatment short course (DOTS) in Revised National Tuberculosis Control Programme has given impressive results with higher treatment success. But interruption of treatment has been one of the major obstacles to treatment of tuberculosis. Aims: The aim of the study was to evaluate the determinants of treatment interruption and outcome. It also evaluated the impact of treatment interruption on treatment outcomes. Settings and design: The study was carried out in the area covered under Bhatar tuberculosis unit (TU) of Burdwan district of West Bengal. The study was a descriptive cross-sectional study. Methods and material: Smear-positive pulmonary tuberculosis patients were taken as study subjects in both the components of study. Complete enumeration technique, rather than sampling, was followed in this study. Data were collected in a predesigned and pretested schedule. Statistical analysis used: Data were analyzed by percentages and proportion. Chi-square test was used to find the association between variables. Results: Gender, religion, and substance abuse were found to be statistically significant factors with interruption. It was also observed that treatment outcome was not statistically significant with age, gender, religion, and category of treatment. In the study, 84.6% of the study subjects with interruption less than 1 week had favorable outcome. But in study subjects with longer duration of interruption (≥2 weeks), only 12.5% had favorable outcome. Not only interruption, duration of interruption was found to be adversely affecting the treatment outcome. Conclusions: Interruption had an impact on the treatment outcome in the present study. Unfavorable outcomes were significantly more frequent among patients with interruption as compared to those without any interruption.
Language	English
Publishing date	2022-03-10
Publishing country	India
Document type	Journal Article
ZDB-ID	2735275-4
ISSN	2278-7135 ; 2249-4863
ISSN (online)	2278-7135
ISSN	2249-4863
DOI	10.4103/jfmpc.jfmpc_1105_21
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Article ; Online: Determinants of treatment interruption and outcome among smear-positive pulmonary tuberculosis patients in a tuberculosis unit of Purba Bardhaman district of West Bengal

Chinmay Nandi / Kaushik Mitra / Dipankar Bhaumik

Journal of Family Medicine and Primary Care, Vol 11, Iss 3, Pp 1134-

2022 Volume 1139

Abstract	Context: The adoption of directly observed treatment short course (DOTS) in Revised National Tuberculosis Control Programme has given impressive results with higher treatment success. But interruption of treatment has been one of the major obstacles to treatment of tuberculosis. Aims: The aim of the study was to evaluate the determinants of treatment interruption and outcome. It also evaluated the impact of treatment interruption on treatment outcomes. Settings and Design: The study was carried out in the area covered under Bhatar tuberculosis unit (TU) of Burdwan district of West Bengal. The study was a descriptive cross-sectional study. Methods and Material: Smear-positive pulmonary tuberculosis patients were taken as study subjects in both the components of study. Complete enumeration technique, rather than sampling, was followed in this study. Data were collected in a predesigned and pretested schedule. Statistical Analysis Used: Data were analyzed by percentages and proportion. Chi-square test was used to find the association between variables. Results: Gender, religion, and substance abuse were found to be statistically significant factors with interruption. It was also observed that treatment outcome was not statistically significant with age, gender, religion, and category of treatment. In the study, 84.6% of the study subjects with interruption less than 1 week had favorable outcome. But in study subjects with longer duration of interruption (≥2 weeks), only 12.5% had favorable outcome. Not only interruption, duration of interruption was found to be adversely affecting the treatment outcome. Conclusions: Interruption had an impact on the treatment outcome in the present study. Unfavorable outcomes were significantly more frequent among patients with interruption as compared to those without any interruption.
Keywords	treatment interruption ; treatment outcome ; tuberculosis ; Medicine ; R
Subject code	150
Language	English
Publishing date	2022-01-01T00:00:00Z
Publisher	Wolters Kluwer Medknow Publications
Document type	Article ; Online
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Article ; Online: Immunotherapy for tuberculous pericarditis.

Nandi, Dipankar

The New England journal of medicine

2014 Volume 371, Issue 26, Page(s) 2531–2532

MeSH term(s)	Female ; Glucocorticoids/therapeutic use ; Humans ; Immunotherapy ; Male ; Mycobacterium ; Pericarditis, Tuberculous/drug therapy ; Prednisolone/therapeutic use
Chemical Substances	Glucocorticoids ; Prednisolone (9PHQ9Y1OLM)
Language	English
Publishing date	2014-12-25
Publishing country	United States
Document type	Comment ; Letter
ZDB-ID	207154-x
ISSN	1533-4406 ; 0028-4793
ISSN (online)	1533-4406
ISSN	0028-4793
DOI	10.1056/NEJMc1413185#SA1
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Article ; Online: Association of Mid-sagittal Anteroposterior Diameter of Lumbar Canal in Patients with Low Back Pain using MRI

Chinmay Nandi / Dipankar Bhaumik / Krishnendu Bhowmik / Kaushik Mitra

Journal of Clinical and Diagnostic Research, Vol 16, Iss 2, Pp AC05-AC

A Cross-sectional Study from West Bengal, India

2022 Volume 08

Abstract: Introduction: Lumbar spinal canal stenosis is the progressive narrowing of spinal canal that causes compression of nerve roots before their exit. The presenting symptoms of spinal canal stenosis includes bilateral lower extremity pain, altered sensation ... ...

Abstract	Introduction: Lumbar spinal canal stenosis is the progressive narrowing of spinal canal that causes compression of nerve roots before their exit. The presenting symptoms of spinal canal stenosis includes bilateral lower extremity pain, altered sensation in both legs and poorly localised weakness and generally associated with low back pain. Determination of normal diameter and its variation with development of low back pain could prove useful in determining the aetiology and outcome of congenital or acquired causes of stenosis like spondylolisthesis, Paget’s disease, fluorosis, etc. Aim: To measure and compare the mid-sagittal anteroposterior diameter of lumbar canal in symptomatic cases with low back pain and asymptomatic subjects using Magnetic Resonance Imaging (MRI). Materials and Methods: The present study was a hospital- based cross-sectional, observational study involving Outpatient Department (OPD) patients of Bangur Institute of Neurosciences, Kolkata, West Bengal, India, was undertaken from May 2012 to July 2012. The study participants were selected by systematic random sampling. Total number of 102 cases were investigated in the present study. Out of these, 52 cases were symptomatic patients of low back pain and rest 50 cases were asymptomatic. Magnetic Resonance Imaging (MRI) was done to estimate the mid-sagittal anteroposterior diameter at different levels of lumbar canal. Unpaired t-test was used as test of significance using Statistical Package for the Social Sciences (SPSS) version 19.0. A p-value <0.05 was considered as statistically significant. Results: In the present study, in the asymptomatic group, the anteroposterior diameter at the intervertebral disc level- between L1-L2=18.364±1.4351 mm, L2-L3=17.470±1.3298 mm, L3-L4=16.670±1.6042 mm, L4-L5=15.200±1.8906 mm, L5-S1=14.196±2.1092 mm. Mean diameter of central lumbar vertebral canal was found to be lower in symptomatic cases with low back pain at different vertebral levels and the difference was found to be statistically significant ...
Keywords	magnetic resonance imaging ; spinal canal ; spinal stenosis ; Medicine ; R
Subject code	150
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: Lysosome directed red light photodynamic therapy using glycosylated iron-(III) conjugates of boron-dipyrromethene.

Sahoo, Somarupa / Pathak, Sanmoy / Kumar, Arun / Nandi, Dipankar / Chakravarty, Akhil R

Journal of inorganic biochemistry

2023 Volume 244, Page(s) 112226

Abstract: To overcome the drawbacks associated with chemotherapeutic and porphyrin-based photodynamic therapy (PDT) agents, the use of BODIPY (boron-dipyrromethene) scaffold has gained prominence in designing a new generation of photosensitizers-cum-cellular ... ...

Abstract	To overcome the drawbacks associated with chemotherapeutic and porphyrin-based photodynamic therapy (PDT) agents, the use of BODIPY (boron-dipyrromethene) scaffold has gained prominence in designing a new generation of photosensitizers-cum-cellular imaging agents. However, their poor cell permeability and limited solubility in aqueous medium inhibits the in-vitro application of their organic form. This necessitates the development of metal-BODIPY conjugates with improved physiological stability and enhanced therapeutic efficacy. We have designed two iron(III)-BODIPY conjugates, [Fe(L
MeSH term(s)	Humans ; Boron/pharmacology ; Singlet Oxygen ; Reactive Oxygen Species ; Iron ; Light ; Photosensitizing Agents/radiation effects ; Boron Compounds/pharmacology ; Boron Compounds/radiation effects ; Antineoplastic Agents/pharmacology ; Photochemotherapy ; Lysosomes
Chemical Substances	4,4-difluoro-4-bora-3a,4a-diaza-s-indacene ; dipyrromethene ; Boron (N9E3X5056Q) ; Singlet Oxygen (17778-80-2) ; Reactive Oxygen Species ; Iron (E1UOL152H7) ; Photosensitizing Agents ; Boron Compounds ; Antineoplastic Agents
Language	English
Publishing date	2023-04-19
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	162843-4
ISSN	1873-3344 ; 0162-0134
ISSN (online)	1873-3344
ISSN	0162-0134
DOI	10.1016/j.jinorgbio.2023.112226
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Article ; Online: Antimicrobial Resistance Studies Using Raman Spectroscopy on Clinically Relevant Bacterial Strains.

Singh, Saumya / Verma, Taru / Khamari, Balaram / Bulagonda, Eswarappa Pradeep / Nandi, Dipankar / Umapathy, Siva

Analytical chemistry

2023 Volume 95, Issue 30, Page(s) 11342–11351

Abstract: There has been a steep rise in the emergence of antibiotic-resistant bacteria in the past few years. A timely diagnosis can help in initiating appropriate antibiotic therapy. However, conventional techniques for diagnosing antibiotic resistance are time- ... ...

Abstract	There has been a steep rise in the emergence of antibiotic-resistant bacteria in the past few years. A timely diagnosis can help in initiating appropriate antibiotic therapy. However, conventional techniques for diagnosing antibiotic resistance are time-consuming and labor-intensive. Therefore, we investigated the potential of Raman spectroscopy as a rapid surveillance technology for tracking the emergence of antibiotic resistance. In this study, we used Raman spectroscopy to differentiate clinical isolates of antibiotic-resistant and -sensitive bacteria of
MeSH term(s)	Anti-Bacterial Agents/pharmacology ; Meropenem ; Nitrofurantoin ; Spectrum Analysis, Raman/methods ; Drug Resistance, Bacterial ; Bacteria ; Ciprofloxacin/pharmacology ; Gentamicins/pharmacology ; Lipids ; Microbial Sensitivity Tests ; Acinetobacter baumannii
Chemical Substances	Anti-Bacterial Agents ; Meropenem (FV9J3JU8B1) ; Nitrofurantoin (927AH8112L) ; Ciprofloxacin (5E8K9I0O4U) ; Gentamicins ; Lipids
Language	English
Publishing date	2023-07-18
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1508-8
ISSN	1520-6882 ; 0003-2700
ISSN (online)	1520-6882
ISSN	0003-2700
DOI	10.1021/acs.analchem.3c01453
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