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Bhattacharya A, Chakraborty M, Chanda A, Alqahtani T, Kumer A, Dhara B, Chattopadhyay M. Neuroendocrine and cellular mechanisms in stress resilience: From hormonal influence in the CNS to mitochondrial dysfunction and oxidative stress. J Cell Mol Med 2024; 28:e18220. [PMID: 38509751 PMCID: PMC10955164 DOI: 10.1111/jcmm.18220] [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] [Received: 12/17/2023] [Revised: 02/12/2024] [Accepted: 02/22/2024] [Indexed: 03/22/2024] Open
Abstract
Recent advancements in neuroendocrinology challenge the long-held belief that hormonal effects are confined to perivascular tissues and do not extend to the central nervous system (CNS). This paradigm shift, propelled by groundbreaking research, reveals that synthetic hormones, notably in anti-inflammatory medications, significantly influence steroid psychosis, behavioural, and cognitive impairments, as well as neuropeptide functions. A seminal development in this field occurred in 1968 with McEven's proposal that rodent brains are responsive to glucocorticoids, fundamentally altering the understanding of how anxiety impacts CNS functionality and leading to the identification of glucocorticosteroids and mineralocorticoids as distinct corticotropic receptors. This paper focuses on the intricate roles of the neuroendocrine, immunological, and CNS in fostering stress resilience, underscored by recent animal model studies. These studies highlight active, compensatory, and passive strategies for resilience, supporting the concept that anxiety and depression are systemic disorders involving dysregulation across both peripheral and central systems. Resilience is conceptualized as a multifaceted process that enhances psychological adaptability to stress through adaptive mechanisms within the immunological system, brain, hypothalamo-pituitary-adrenal axis, and ANS Axis. Furthermore, the paper explores oxidative stress, particularly its origin from the production of reactive oxygen species (ROS) in mitochondria. The mitochondria's role extends beyond ATP production, encompassing lipid, heme, purine, and steroidogenesis synthesis. ROS-induced damage to biomolecules can lead to significant mitochondrial dysfunction and cell apoptosis, emphasizing the critical nature of mitochondrial health in overall cellular function and stress resilience. This comprehensive synthesis of neuroendocrinological and cellular biological research offers new insights into the systemic complexity of stress-related disorders and the imperative for multidisciplinary approaches in their study and treatment.
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Affiliation(s)
- Arghya Bhattacharya
- Department of PharmacologyCalcutta Institute of Pharmaceutical Technology and AHSUluberiaWest BengalIndia
| | - Manas Chakraborty
- Department of Pharmaceutical BiotechnologyCalcutta institute of pharmaceutical technology and AHSUluberiaWest BengalIndia
| | - Ananya Chanda
- Department of Pharmaceutical ScienceAdamas UniversityBarasatWest BengalIndia
| | - Taha Alqahtani
- Department of Pharmacology, College of PharmacyKing Khalid UniversityAbhaSaudi Arabia
| | - Ajoy Kumer
- Department of ChemistryCollege of Arts and Sciences, IUBAT‐International University of Business Agriculture and TechnologyDhakaBangladesh
| | - Bikram Dhara
- Center for Global Health ResearchSaveetha Medical College and Hospital, Saveetha Institute of Medical and Technical SciencesChennaiIndia
- Department of Health SciencesNovel Global Community and Educational FoundationHebershamNew South WalesAustralia
| | - Moitreyee Chattopadhyay
- Department of Pharmaceutical TechnologyMaulana Abul Kalam Azad University of TechnologyKolkataWest BengalIndia
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2
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Varsi F, Ahmad S, Chakraborty M, Chandra A, Dugad SR, Goswami UD, Gupta SK, Hariharan B, Hayashi Y, Jagadeesan P, Jain A, Jain P, Kawakami S, Kojima H, Lipari P, Mahapatra S, Mohanty PK, Moharana R, Muraki Y, Nayak PK, Nonaka T, Oshima A, Pant BP, Pattanaik D, Paul S, Pradhan GS, Rameez M, Ramesh K, Reddy LV, Saha S, Sahoo R, Scaria R, Shibata S, Zuberi M. Evidence of a Hardening in the Cosmic Ray Proton Spectrum at around 166 TeV Observed by the GRAPES-3 Experiment. Phys Rev Lett 2024; 132:051002. [PMID: 38364164 DOI: 10.1103/physrevlett.132.051002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Revised: 10/16/2023] [Accepted: 01/04/2024] [Indexed: 02/18/2024]
Abstract
We present the measurement of the cosmic ray proton spectrum from 50 TeV to 1.3 PeV using 7.81×10^{6} extensive air shower events recorded by the ground-based GRAPES-3 experiment between 1 January 2014 and 26 October 2015 with a live time of 460 day. Our measurements provide an overlap with direct observations by satellite and balloon-based experiments. The electromagnetic and muon components in the shower were measured by a dense array of plastic scintillator detectors and a tracking muon telescope, respectively. The relative composition of the proton primary from the air shower data containing all primary particles was extracted using the multiplicity distribution of muons which is a sensitive observable for mass composition. The observed proton spectrum suggests a spectral hardening at ∼166 TeV and disfavors a single power law description of the spectrum up to the Knee energy (∼3 PeV).
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Affiliation(s)
- F Varsi
- Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - S Ahmad
- Aligarh Muslim University, Aligarh 202002, India
| | - M Chakraborty
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - A Chandra
- Aligarh Muslim University, Aligarh 202002, India
| | - S R Dugad
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - U D Goswami
- Dibrugarh University, Dibrugarh 786004, India
| | - S K Gupta
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - B Hariharan
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - Y Hayashi
- Graduate School of Science, Osaka Metropolitan University, Sugimoto, Sumiyoshi, Osaka 558-8585, Japan
| | - P Jagadeesan
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - A Jain
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - P Jain
- Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - S Kawakami
- Graduate School of Science, Osaka Metropolitan University, Sugimoto, Sumiyoshi, Osaka 558-8585, Japan
| | - H Kojima
- College of Engineering, Chubu University, Kasugai, Aichi 487-8501, Japan
| | - P Lipari
- INFN, Sezione Roma "Sapienza", Piazzale Aldo Moro 2, 00185 Roma, Italy
| | | | - P K Mohanty
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - R Moharana
- Indian Institute of Technology Jodhpur, Jodhpur 342037, India
| | - Y Muraki
- Institute for Space-Earth Environmental Research, Nagoya University, Nagoya 464-8601, Japan
| | - P K Nayak
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - T Nonaka
- Institute for Cosmic Ray Research, Tokyo University, Kashiwa, Chiba 277-8582, Japan
| | - A Oshima
- College of Engineering, Chubu University, Kasugai, Aichi 487-8501, Japan
| | - B P Pant
- Indian Institute of Technology Jodhpur, Jodhpur 342037, India
| | - D Pattanaik
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
- Utkal University, Bhubaneswar 751004, India
| | - S Paul
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - G S Pradhan
- Indian Institute of Technology Indore, Indore 453552, India
| | - M Rameez
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - K Ramesh
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - L V Reddy
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
| | - S Saha
- Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - R Sahoo
- Indian Institute of Technology Indore, Indore 453552, India
| | - R Scaria
- Indian Institute of Technology Indore, Indore 453552, India
| | - S Shibata
- College of Engineering, Chubu University, Kasugai, Aichi 487-8501, Japan
| | - M Zuberi
- Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai 400005, India
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Smith KP, Chakravarthy S, Rahi A, Chakraborty M, Vosberg KM, Tonelli M, Plach MG, Grigorescu AA, Curtis JE, Varma D. SAXS/MC studies of the mixed-folded protein Cdt1 reveal monomeric, folded over conformations. bioRxiv 2024:2024.01.03.573975. [PMID: 38260441 PMCID: PMC10802334 DOI: 10.1101/2024.01.03.573975] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/24/2024]
Abstract
Cdt1 is a protein critical for DNA replication licensing and is well-established to be a binding partner of the minichromosome maintenance (MCM) complex. Cdt1 has also been demonstrated to have an emerging, "moonlighting" role at the kinetochore via direct binding to microtubules and to the Ndc80 complex. However, it is not known how the structure and conformations of Cdt1 could allow for these multiple, completely unique sets of protein complexes. And while there exist multiple robust methods to study entirely folded or entirely unfolded proteins, structure-function studies of combined, mixed folded/disordered proteins remain challenging. It this work, we employ multiple orthogonal biophysical and computational techniques to provide a detailed structural characterization of human Cdt1 92-546. DSF and DSCD show both folded winged helix (WH) domains of Cdt1 are relatively unstable. CD and NMR show the N-terminal and the linker regions are intrinsically disordered. Using DLS and SEC-MALS, we show that Cdt1 is polydisperse, monomeric at high concentrations, and without any apparent inter-molecular self-association. SEC-SAXS of the monomer in solution enabled computational modeling of the protein in silico. Using the program SASSIE, we performed rigid body Monte Carlo simulations to generate a conformational ensemble. Using experimental SAXS data, we filtered for conformations which did and did not fit our data. We observe that neither fully extended nor extremely compact Cdt1 conformations are consistent with our SAXS data. The best fit models have the N-terminal and linker regions extended into solution and the two folded domains close to each other in apparent "folded over" conformations. The best fit Cdt1 conformations are consistent with a function as a scaffold protein which may be sterically blocked without the presence of binding partners. Our studies also provide a template for combining experimental and computational biophysical techniques to study mixed-folded proteins.
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Affiliation(s)
- Kyle P Smith
- Department of Cell & Developmental Biology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA
- Present Address, Xylia Therapeutics, Waltham, MA, 02451, USA
| | - Srinivas Chakravarthy
- Biophysics Collaborative Access Team, Argonne National Laboratory, Argonne, IL, 60439, USA
| | - Amit Rahi
- Department of Cell & Developmental Biology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA
| | - Manas Chakraborty
- Department of Cell & Developmental Biology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA
| | - Kristen M Vosberg
- Department of Cell & Developmental Biology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA
| | - Marco Tonelli
- National Magnetic Resonance Facility at Madison, Department of Biochemistry, University of Wisconsin, Madison, WI, 53706, USA
| | | | - Arabela A Grigorescu
- Keck Biophysics Facility, Department of Molecular Biosciences, Northwestern University, Evanston, IL, 60201, USA
| | - Joseph E Curtis
- NIST Center for Neutron Research, National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 6102, Gaithersburg, MD, 20899, United States
| | - Dileep Varma
- Department of Cell & Developmental Biology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA
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Landeros A, Wallace DA, Rahi A, Magdongon CB, Suraneni P, Amin MA, Chakraborty M, Adam SA, Foltz DR, Varma D. Nuclear lamin A-associated proteins are required for centromere assembly. bioRxiv 2023:2023.09.25.559341. [PMID: 37808683 PMCID: PMC10557622 DOI: 10.1101/2023.09.25.559341] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/10/2023]
Abstract
Many Lamin A-associated proteins (LAAP's) that are key constituents of the nuclear envelope (NE), assemble at the "core" domains of chromosomes during NE reformation and mitotic exit. However, the identity and function of the chromosomal core domains remain ill-defined. Here, we show that a distinct section of the core domain overlaps with the centromeres/kinetochores of chromosomes during mitotic telophase. The core domain can thus be demarcated into a kinetochore proximal core (KPC) on one side of the segregated chromosomes and the kinetochore distal core (KDC) on the opposite side, close to the central spindle. We next tested if centromere assembly is connected to NE re-formation. We find that centromere assembly is markedly perturbed after inhibiting the function of LMNA and the core-localized LAAPs, BANF1 and Emerin. We also find that the LAAPs exhibit multiple biochemical interactions with the centromere and inner kinetochore proteins. Consistent with this, normal mitotic progression and chromosome segregation was severely impeded after inhibiting LAAP function. Intriguingly, the inhibition of centromere function also interferes with the assembly of LAAP components at the core domain, suggesting a mutual dependence of LAAP and centromeres for their assembly at the core domains. Finally, we find that the localization of key proteins involved in the centromeric loading of CENP-A, including the Mis18 complex and HJURP were markedly affected in LAAP-inhibited cells. Our evidence points to a model where LAAP assembly at the core domain serves a key function in loading new copies of centromeric proteins during or immediately after mitotic exit.
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Affiliation(s)
- Adriana Landeros
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Destiny A. Wallace
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Amit Rahi
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Christine B. Magdongon
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Praveen Suraneni
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Mohammed A. Amin
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Manas Chakraborty
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Stephen A. Adam
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Daniel R. Foltz
- Dept. of Biochemistry and Molecular Genetics, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
| | - Dileep Varma
- Dept. of Cell and Developmental Biology, Northwestern University Feinberg School of Medicine, 303 E. Chicago Ave Chicago, IL 60611
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5
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Rahi A, Chakraborty M, Agarwal S, Vosberg KM, Agarwal S, Wang AY, McKenney RJ, Varma D. The Ndc80-Cdt1-Ska1 complex is a central processive kinetochore-microtubule coupling unit. J Cell Biol 2023; 222:e202208018. [PMID: 37265445 PMCID: PMC10238862 DOI: 10.1083/jcb.202208018] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Revised: 02/17/2023] [Accepted: 04/24/2023] [Indexed: 06/03/2023] Open
Abstract
It is known that microtubule-binding proteins including the Ska1 complex and the DNA replication licensing factor, Cdt1, enable the kinetochore-localized Ndc80 complex to form robust kinetochore-microtubule attachments. However, it is not clear how the Ndc80 complex is stably coupled to dynamic spindle microtubule plus-ends. Here, we have developed a conditional auxin-inducible degron approach to reveal a function for Cdt1 in chromosome segregation and kinetochore-microtubule interactions that is separable from its role in DNA replication licensing. Further, we demonstrate that a direct interaction between Cdt1 and Ska1 is required for recruiting Cdt1 to kinetochores and spindle microtubules. Cdt1 phosphorylation by Cdk1 kinase is critical for Ska1 binding, kinetochore-microtubule attachments, and mitotic progression. Furthermore, we show that Cdt1 synergizes with Ndc80 and Ska1 for microtubule binding, including forming a diffusive, tripartite Ndc80-Cdt1-Ska1 complex that can processively track dynamic microtubule plus-ends in vitro. Taken together, our data identify the Ndc80-Cdt1-Ska1 complex as a central molecular unit that can promote processive bidirectional tip-tracking of microtubules by kinetochores.
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Affiliation(s)
- Amit Rahi
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Manas Chakraborty
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | | | - Kristen M. Vosberg
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | | | - Annie Y. Wang
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Richard J. McKenney
- Department of Molecular and Cellular Biology, College of Biological Sciences, University of California Davis, Davis, CA, USA
| | - Dileep Varma
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
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Amin MA, Chakraborty M, Wallace DA, Varma D. Coordination between the Ndc80 complex and dynein is essential for microtubule plus-end capture by kinetochores during early mitosis. J Biol Chem 2023; 299:104711. [PMID: 37060995 PMCID: PMC10206188 DOI: 10.1016/j.jbc.2023.104711] [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] [Received: 10/27/2022] [Revised: 03/22/2023] [Accepted: 04/02/2023] [Indexed: 04/17/2023] Open
Abstract
Mitotic kinetochores are initially captured by dynamic microtubules via a "search-and-capture" mechanism. The microtubule motor, dynein, is critical for kinetochore capture as it has been shown to transport microtubule-attached chromosomes toward the spindle pole during prometaphase. The microtubule-binding nuclear division cycle 80 (Ndc80) complex that is recruited to kinetochores in prophase is known to play a central role in forming kinetochore-microtubule (kMT) attachments in metaphase. It is not yet clear, however, how Ndc80 contributes to initial kMT capture during prometaphase. Here, by combining CRISPR/Cas9-mediated knockout and RNAi technology with assays specific to study kMT capture, we show that mitotic cells lacking Ndc80 exhibit substantial defects in this function during prometaphase. Rescue experiments show that Ndc80 mutants deficient in microtubule-binding are unable to execute proper kMT capture. While cells inhibited of dynein alone are predominantly able to make initial kMT attachments, cells co-depleted of Ndc80 and dynein show severe defects in kMT capture. Further, we use an in vitro total internal reflection fluorescence microscopy assay to reconstitute microtubule capture events, which suggest that Ndc80 and dynein coordinate with each other for microtubule plus-end capture and that the phosphorylation status of Ndc80 is critical for productive kMT capture. A novel interaction between Ndc80 and dynein that we identify in prometaphase extracts might be critical for efficient plus-end capture. Thus, our studies, for the first time, identify a distinct event in the formation of initial kMT attachments, which is directly mediated by Ndc80 and in coordination with dynein is required for efficient kMT capture and chromosome alignment.
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Affiliation(s)
- Mohammed Abdullahel Amin
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA.
| | - Manas Chakraborty
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA
| | - Destiny Ariel Wallace
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA
| | - Dileep Varma
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA.
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Chakraborty M, Hasan MM, Kenreich JR, Jadwisienczak WM, Rahman F. Design and operation of a hybrid LED/LD-pumped phosphor-converted white-light lamp. Appl Opt 2023; 62:2266-2272. [PMID: 37132864 DOI: 10.1364/ao.484238] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Illumination sources based on phosphors, pumped by laser diodes (LDs), have seen rapid developments over the past decade. Here, we present a new, to the best of our knowledge, design that features both spectral richness and the capability for high brightness. Complete design details and operational characterization have been described. This basic design can be extended in various ways to customize such lamps for different operational requirements. A hybrid arrangement of both LEDs and an LD is used to excite a mixture of two phosphors. The LEDs, in addition, provide a blue fill-in to enrich output radiation and to tune the chromaticity point inside the white region. The LD power, on the other hand, can be scaled up to generate very high brightness levels that are not achievable with pumping from LEDs alone. This capability is gained using a special transparent ceramic disk that carries the remote phosphor film. We also show that the radiation from our lamp is free from speckle-producing coherence.
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Luo W, Demidov V, Shen Q, Girão H, Chakraborty M, Maiorov A, Ataullakhanov FI, Lin C, Maiato H, Grishchuk EL. CLASP2 recognizes tubulins exposed at the microtubule plus-end in a nucleotide state-sensitive manner. Sci Adv 2023; 9:eabq5404. [PMID: 36598991 PMCID: PMC9812398 DOI: 10.1126/sciadv.abq5404] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 11/23/2022] [Indexed: 05/28/2023]
Abstract
CLASPs (cytoplasmic linker-associated proteins) are ubiquitous stabilizers of microtubule dynamics, but their molecular targets at the microtubule plus-end are not understood. Using DNA origami-based reconstructions, we show that clusters of human CLASP2 form a load-bearing bond with terminal non-GTP tubulins at the stabilized microtubule tip. This activity relies on the unconventional TOG2 domain of CLASP2, which releases its high-affinity bond with non-GTP dimers upon their conversion into polymerization-competent GTP-tubulins. The ability of CLASP2 to recognize nucleotide-specific tubulin conformation and stabilize the catastrophe-promoting non-GTP tubulins intertwines with the previously underappreciated exchange between GDP and GTP at terminal tubulins. We propose that TOG2-dependent stabilization of sporadically occurring non-GTP tubulins represents a distinct molecular mechanism to suppress catastrophe at the freely assembling microtubule ends and to promote persistent tubulin assembly at the load-bearing tethered ends, such as at the kinetochores in dividing cells.
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Affiliation(s)
- Wangxi Luo
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
| | - Vladimir Demidov
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
| | - Qi Shen
- Department of Cell Biology, Yale School of Medicine, Yale University, New Haven, CT 06520, USA
- Nanobiology Institute, Yale University, West Haven, CT 06516, USA
| | - Hugo Girão
- Chromosome Instability & Dynamics Group, Instituto de Investigação e Inovação em Saúde (i3S), Universidade do Porto, Rua Alfredo Allen 208, 4200-135 Porto, Portugal
- Instituto de Biologia Molecular e Celular, Universidade do Porto, Rua Alfredo Allen 208, 4200-135 Porto, Portugal
| | - Manas Chakraborty
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
| | - Aleksandr Maiorov
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
| | - Fazly I. Ataullakhanov
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
- Center for Theoretical Problems of Physicochemical Pharmacology, Russian Academy of Sciences, 119991 Moscow, Russian Federation
- Moscow Institute of Physics and Technology, Dolgoprudny, Moscow Region 141701, Russian Federation
| | - Chenxiang Lin
- Department of Cell Biology, Yale School of Medicine, Yale University, New Haven, CT 06520, USA
- Nanobiology Institute, Yale University, West Haven, CT 06516, USA
- Department of Biomedical Engineering, Yale University, New Haven, CT 06511, USA
| | - Helder Maiato
- Chromosome Instability & Dynamics Group, Instituto de Investigação e Inovação em Saúde (i3S), Universidade do Porto, Rua Alfredo Allen 208, 4200-135 Porto, Portugal
- Instituto de Biologia Molecular e Celular, Universidade do Porto, Rua Alfredo Allen 208, 4200-135 Porto, Portugal
- Cell Division Group, Department of Biomedicine, Faculdade de Medicina, Universidade do Porto, Alameda Prof. Hernâni Monteiro, 4200-319 Porto, Portugal
| | - Ekaterina L. Grishchuk
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
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Chakraborty M, Kadir E, Gayen R. GO induced grain-boundary modification in transparent TiO2-GO nanocomposite thin films: Study by DC bias dependent impedance spectroscopy. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.140116] [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: 11/30/2022]
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10
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Chakravarty B, Kalapahar S, Sharma S, Chattopadhyay R, Ghosh S, Chakraborty M, Chakraborty R, Bose U, Chakraborty P. O-031 Activation of NLRP3 inflammasome enhances neutrophil extracellular traps in women with stage III/IV endometriosis: convergence of multiple signaling portray association between genetics and lesion type. Hum Reprod 2022. [DOI: 10.1093/humrep/deac104.031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Study question
Do NOD-like receptor pyrin-containing 3 (NLRP3) signaling affect neutrophil extracellular traps (NET)-osis in women with stage III/IV endometriosis?
Summary answer
Inflammasome activation whether due to pathogen (disease itself) or damage-associated molecular pattern (through NET) might be one mechanism involved in establishing perturbed endometrium in endometriosis.
What is known already
Endometriosis is characterized by number of processes like vascularization, hypernociception, and fibrosis, cardinal cause being inflammation. Recently, expression of inflammasome components, including NLRP3 and apoptosis signal-regulating kinase has been demonstrated in human endometrium cueing involvement in uterine innate immunity. Moreover, a novel extracellular killing mechanism, NET, is documented to reflect an inflammatory status in deep infiltrating endometriosis. Since, endometriosis demonstrates similarities with chronic inflammatory and autoimmune disorders; we postulated inflammatory responses in endometriosis may become modulated through a feed-forward loop of NET-induced specific cytokine production thus providing insights against potentiality of endometriotic cells to limit progression of the disease.
Study design, size, duration
Twenty-two consented women (24-39 years) with endometriosis (Group A) (Stages III–IV) (based on ASRM-2018 guidelines) and age-matched counterpart/s of male sub-fertility (Group B; control), free of uterine abnormalities (n = 18) were recruited between January to December 2021 from Institute of Reproductive Medicine, Kolkata. Eutopic endometrium, were collected from women undergoing diagnostic laparoscopy (Group A) or by curettage from women undergoing endometrial ablation (Group B). Serum was collected during window-of-implantation (LH + 7) for both the group/s.
Participants/materials, setting, methods
Pro-(IFN-g, TNF-a, IL-6, TGF-b) and anti-inflammatory (IL-10, IL-13, IL-4, IL-5) cytokines was evaluated by western blot. Expression level of inflammasome-related proteins (NLRP3, ASC, CASPASE1, PYCARD, IL-1-b) and mRNA expression was estimated by western-blot and quantitative-real-time PCR (qRT-PCR) respectively from tissue biopsies in Group A and B. SYTOX® green assay by flow-cytometry and neutrophil-elastase activity by immunofluorescence was done to quantify and characterize NET production in blood monocytes. P < 0.05 was considered statistically significant.
Main results and the role of chance
The mean (±SD) age of study population was 31.6±5.2 years. Hyperestrogenic milieu possibly stimulated (p < 0.001) pro-inflammatory molecules (IFN-g, TNF-a, IL-6, TGF-b) in endometriosis as observed by western-blot and qRT-PCR. A significant up-regulation (p < 0.001) was observed in relative mRNA expression of NLRP3 and PYCARD gene in Group A. However, caspase 1 expression documented non-significant variation in biopsies from endometriosis patients. Western blot corroborated the finding/s. The outcome of NLRP3 activation was supported by increased (p < 0.002) mRNA expression of IL-1b. NETs were detected significantly higher (p < 0.01) in 54.54% (12/22) patients in group A compared to control (16.66%; (3/18)). Moreover, quantification of NETs showed a significantly higher amount in endometriosis compared to group B (0.097 vs. 0.02, p < 0.03).
Spermann-rank correlation by SPSS version22 revealed positive correlation between IL-1b with NLRP3 (r = 0.56, p< 0.001), PYCARD (r = 0.11, p< 0.01); and caspase1 (r = 0.16, p< 0.01) and IL-1b (r = 0.47, p< 0.01) with NET-positive cell/s in endometriosis. Moreover, posterior cul-de-sac lesions correlated positively with NET-positive cell/s (r = 0.29; p < 0.01) cueing to possible prognostic marker/s. In summary, a coordinated-fashioned action of components of NLRP3 inflammasome machinery may regulate production of NET/s forming a complex network allowing communication between cell-types in order to maintain viability and development of endometrial lesion/s.
Limitations, reasons for caution
Our findings need to be replicated in larger study cohort/s, especially stratified by severity of endometriosis sub-groups and in women of different ethnicities. Another limitation is the missing information about NETs in normal functioning human endometrium throughout the menstrual cycle.
Wider implications of the findings
The proposed study aims to understand potential role of NLRP3 inflammasome complex as a “double-edged sword” in the development and pathophysiology of endometriosis. Therapeutic alternatives that aim to re-balance the pro- to anti-inflammatory milieu in the endometrium should consider the inflammasome as part of the equation.
Trial registration number
Not applicable
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Affiliation(s)
- B Chakravarty
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - S Kalapahar
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - S Sharma
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - R Chattopadhyay
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - S Ghosh
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - M Chakraborty
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
| | - R Chakraborty
- Melaka Manipal Medical College, Department of Microbiology, Manipal , India
| | - U Bose
- Melaka Manipal Medical College, Department of Pharmacology, Manipal , India
| | - P Chakraborty
- Institute of Reproductive Medicine, Department of Assisted Reproduction, Kolkata , India
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11
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Kalapahar S, Chakraborty P, Shama S, Mitra I, Chattopadhyay R, Ghosh S, Chakraborty M, Chakravarty B. P-390 Serum homocysteine and uterine artery Doppler ultrasound in combination has better predictive accuracy in women with preeclampsia: useful tool for early screening in everyday practice. Hum Reprod 2022. [DOI: 10.1093/humrep/deac107.367] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Study question
Is serum homocysteine combined with uterine-artery Doppler were effective in predicting preeclampsia (≥140mmHg/≥90mmHg blood pressure) in singleton pregnancy during 11–15 weeks of gestation?
Summary answer
Combination of serum homocysteine levels with uterine-artery Doppler is superior to individual presence of biochemical/ultrasound marker/s making the duo effective for early screening in preeclampsia.
What is known already
American College of Obstetricians and Gynecologists and National Institute for Care and Health Excellence recommend identifying patients who are at high risk of developing preeclampsia based on medical history. Recently, biochemical and ultrasound markers were investigated for prediction of preeclampsia, but none of them were predictably reliable, valid, and suitable for routine clinical use. Increased levels of homocysteine in 1st-trimester, seems to signal onset of preeclampsia later in pregnancy portraying severity of the disease as well. We aimed to identify predictive value of serum homocysteine combined with uterine-artery Doppler in singleton pregnancy during 11–15 weeks of gestation for preeclampsia.
Study design, size, duration
One hundred forty-two consented singleton pregnant women (28-45 years) at gestational age of 11–15 weeks, recruited between January to December 2021 from Institute of Reproductive Medicine, Kolkata were enrolled in the study. Women who used aspirin as a prophylaxis for preeclampsia or were diagnosed to have fetal, structural or chromosomal abnormalities were excluded from the study (n = 7). Maternal age, weight and height, mean arterial pressure, parity, and obstetric history were documented.
Participants/materials, setting, methods
Uterine-artery Doppler ultrasound and serum homocysteine levels were performed transabdominally and using ELISA respectively. Pregnancy outcomes were recorded. Sensitivity, specificity, positive predictive value (PPV), and negative predictive value (NPV) at optimal cut-off values were determined to predict preeclampsia. Optimal cut-off values for homocysteine levels were calculated using receiver operator characteristic curve (ROC). Chi-square test, Fisher’s exact test, unpaired t test, and Mann–Whitney U test were used when appropriate. P-value <0.05 was considered statistically significant.
Main results and the role of chance
16 cases had preeclampsia (11.26%) of whom 9 had early-onset preeclampsia (6.33%). Baseline characteristics including maternal-age (>35 or<), parity, body-mass- index, and gestational-age at measurement were not significantly different between two groups excepting higher (p < 0.001) mean arterial blood pressure (mmHg) at first trimester (97.2±6.4 vs. 81.1±7.2) in preeclampsia. Preeclamptic women had significantly higher (p < 0.001) serum homocysteine levels (μmol/l) (26.1±3.5 vs 10.2± 5.6) than normotensive pregnant women (n = 119). No difference in mean pulsatility (PI) of uterine-artery was observed (1.78±0.64 vs. 1.72±0.48) excluding significantly high (p > 0.02) in women with early-onset preeclampsia than control (2.11±0.81 vs. 1.39±0.92). However, lower (p < 0.01) gestational age (weeks) (35.4±2.1 vs. 37.6±1.4), and neonatal birth weight (gms) (2937.3±578.2 vs. 3227.6±421.5) with higher (p < 0.001) preterm delivery (25% vs 5.04%), low birth weight (25% vs 5.04%) and neonatal respiratory distress syndrome (12.5% vs. 0.84%) was documented in preeclampsia than control/s. The optimal cut-off value of serum homocysteine with PI levels, from ROC (AUC=0.735, p < 0.001) was superior to individual ROC (AUC=0.451; AUC=0.268). The sensitivity, specificity, PPV, and NPV were 67.7%, 70.5%, 1.7%, and 98.5%, respectively using a combination of abnormal serum homocysteine levels with abnormal uterine artery Doppler PI (above 95th percentile) and used as a predictive value for preeclampsia.
Limitations, reasons for caution
The limitation of this study was that there were small cases of early-onset preeclampsia. Additional studies with a larger sample size of early-onset preeclampsia and other models using serum homocysteine, combined with uterine artery Doppler, and maternal characteristic risk factors should be conducted.
Wider implications of the findings
Early screening of preeclampsia by using combination of serum homocysteine and uterine artery Doppler during first trimester (11–15 weeks) at the same visit may be more effective and allows the timing for using early low-dose aspirin prophylaxis in order to prevent preeclampsia.
Trial registration number
Not applicable
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Affiliation(s)
- S Kalapahar
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - P Chakraborty
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - S Shama
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - I Mitra
- Indian Institute of Technology- Kharagpur, School of Medical Science and Technology , Kharagpur, India
| | - R Chattopadhyay
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - S Ghosh
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - M Chakraborty
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
| | - B Chakravarty
- Institute of Reproductive Medicine, Department of Assisted Reproduction , Kolkata, India
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12
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Mukherjee P, Chakraborty A, Chakraborty M, Mukhopadhyay G. Carbon Dot - An Updated Review. Int J Pharm Investig 2022. [DOI: 10.5530/ijpi.2022.2.25] [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: 11/23/2022] Open
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13
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Affiliation(s)
- S K Paul
- Department of Agronomy, Bangladesh Agricultural University, Mymensingh 2202, Bangladesh
| | - N U Mahmud
- Institute of Biotechnology and Genetic Engineering, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur 1706, Bangladesh
| | - D R Gupta
- Institute of Biotechnology and Genetic Engineering, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur 1706, Bangladesh
| | - M N Alam
- Bangladesh Sugarcrop Research Institute, Ishurdi 6620, Pabna, Bangladesh
| | - M Chakraborty
- Institute of Biotechnology and Genetic Engineering, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur 1706, Bangladesh
| | - M T Islam
- Institute of Biotechnology and Genetic Engineering, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur 1706, Bangladesh
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14
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Agrawal S, Chakraborty P, Sinha A, Maiti A, Chakraborty M. ADRENAL HISTOPLASMOSIS: AN EASTERN INDIAN PERSPECTIVE. Acta Endocrinol (Buchar) 2022; 18:106-114. [PMID: 35975261 PMCID: PMC9365407 DOI: 10.4183/aeb.2022.106] [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] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
CONTEXT The clinical presentation of histoplasmosis is varied. Due to its propensity for adrenal involvement, histoplasmosis is an important differential diagnosis in any patient presenting with adrenal mass, bilateral in particular. OBJECTIVE Data on clinical presentation, pattern of adrenal involvement, radiological appearance and long-term follow-up of adrenal histoplasmosis are relatively sparse; hence we looked at it. DESIGN This record based single-centre retrospective study was conducted in one of the tertiary care hospitals, situated in eastern India catering the Gangetic delta. SUBJECTS AND METHODS Data on demographic characters, presenting manifestations, biochemical & hormonal parameters and radiological appearance of confirmed adrenal histoplasmosis cases (n=9), admitted between 2015-2019 have been retrieved. The treatment outcome and condition of patients after 1-4 years of follow-up has also been discussed. RESULTS Four out of the nine (44.4%) patients had predisposing immunocompromised conditions in the form of diabetes and/or chronic alcoholism while rest were immunocompetent. Seven out of nine patients (77.8 %) had signs and symptoms suggestive of adrenal insufficiency, while two (22.2%) presented with only pyrexia of unknown origin. All of them had bilateral adrenal mass, though the radiologically appearances were different. All patients received anti-fungal agents with/without hydrocortisone and/or fludrocortisone. One patient died (11.1%), while majority responded favourably to treatment. Adrenocortical function did not recover completely. CONCLUSIONS The possibility of adrenal histoplasmosis should always be considered in patients presenting with bilateral adrenal mass, irrespective of adrenal morphology. Treatment is effective, but many of them require supplemental hydrocortisone for quite a long period, if not lifelong. Mineralocorticoid deficiency, however, is not permanent.
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Affiliation(s)
- S.S. Agrawal
- Endocrinology & Metabolism Medical College and Hospital Kolkata, West Bengal, India
| | - P.P. Chakraborty
- Endocrinology & Metabolism Medical College and Hospital Kolkata, West Bengal, India
| | - A. Sinha
- Endocrinology & Metabolism Medical College and Hospital Kolkata, West Bengal, India
| | - A. Maiti
- Endocrinology & Metabolism Medical College and Hospital Kolkata, West Bengal, India
| | - M. Chakraborty
- Microbiology, Medical College and Hospital Kolkata, Kolkata,West Bengal, India
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15
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Afreen S, Rahi A, Landeros AG, Chakraborty M, McKenney RJ, Varma D. In Vitro and In Vivo Approaches to Study Kinetochore-Microtubule Attachments During Mitosis. Methods Mol Biol 2022; 2415:123-138. [PMID: 34972950 DOI: 10.1007/978-1-0716-1904-9_9] [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] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The separation of duplicated chromosomes during mitosis is a pivotal step in the process of cellular division. Therefore, the orchestrated events that take place to ensure proper attachment and stabilization of kMTs are keen areas of interest in the mitosis field. Here we describe the methods used to study kMT attachments via in vitro biochemical methods and in vivo cell biological approaches.
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Affiliation(s)
- Sana Afreen
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Amit Rahi
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Adriana G Landeros
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Manas Chakraborty
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA
| | - Richard J McKenney
- Department of Molecular and Cellular Biology, University of California-Davis, Davis, CA, USA
| | - Dileep Varma
- Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA.
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16
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Mahankar P, Chakraborty M, Bartakke S, Bafna V. Pearson syndrome- A case report. Pediatric Hematology Oncology Journal 2021. [DOI: 10.1016/j.phoj.2022.03.108] [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: 11/15/2022] Open
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17
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Jaggi N, Nirwan P, Chakraborty M. Process improvement to effectively manage and reduce sharps injuries in a Tertiary Hospital in Northern India. J Healthc Qual Res 2020; 35:141-148. [PMID: 32446644 DOI: 10.1016/j.jhqr.2020.03.007] [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: 12/19/2019] [Revised: 02/29/2020] [Accepted: 03/17/2020] [Indexed: 11/26/2022]
Abstract
INTRODUCTION AND OBJECTIVES Needle stick injuries are associated with a 0.3-30% risk of transmission of Human Immunodeficiency virus, Hepatitis C virus, and Hepatitis B virus. Despite causing psychological trauma they also involve a huge financial burden. A robust process improvement (RPI) toolkit was introduced in order to effectively manage and reduce needle stick injuries, as well as an attempt to report prevalence, post-exposure management, and associated economic burden. MATERIALS AND METHODS Prospective Observational Study (2015-2018) has been design in a Corporate Tertiary Care Hospital. The participants included were needle stick injuries exposed staff. RPI toolkit was implemented (2015-2018) focusing on root cause analysis, availability of safety engineered devices, immunization and post-exposure management of needle stick injuries exposed staff. The main outcome measure was needle stick injuries incidence. RESULTS A total of 211 needle stick injuries were reported (mean - 52.72/year, needle stick injury incidence - 13.18/year/100 beds). Yearly trends showed a decrease of 21.3% in injuries from 2015 (61) to 2018 (48). Half (106, 50%) of the total injuries were reported among nurses. Use of hypodermic needles was involved in 116 (55%) injuries, with 114 (54%) occurring due to nonadherence to hospital policies. Overall, 204 staff had protective immunity, and 135 (64%) of these had completed their Hepatitis B immunizations. The source was known in 165 (78%) cases, and 113 of these cases had an injury from a source with negative viral markers. A 6-month follow-up was completed in 90 cases. No seroconversion was reported. Overall costs incurred in post-exposure prophylaxis was approximately €30,000 (mean cost €143.50/needle stick injury). CONCLUSION Nurses are most at risk of needle stick injury in healthcare settings. Implementation of RPI toolkit led to a 21.3% reduction in sharps injury incidences. These injuries incur huge financial burden on the hospital. Appropriate immunization strategies saved about €1360 expenditure on post-exposure prophylaxis.
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Affiliation(s)
- N Jaggi
- Artemis Hospital, Sector 51, Gurugram, Haryana 122001, India
| | - P Nirwan
- Artemis Hospital, Sector 51, Gurugram, Haryana 122001, India.
| | - M Chakraborty
- Artemis Hospital, Sector 51, Gurugram, Haryana 122001, India
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18
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Sah RP, Chakraborty M, Prasad K, Pandit M, Tudu VK, Chakravarty MK, Narayan SC, Rana M, Moharana D. Impact of water deficit stress in maize: Phenology and yield components. Sci Rep 2020; 10:2944. [PMID: 32076012 PMCID: PMC7031221 DOI: 10.1038/s41598-020-59689-7] [Citation(s) in RCA: 59] [Impact Index Per Article: 14.8] [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] [Received: 03/07/2019] [Accepted: 01/27/2020] [Indexed: 11/09/2022] Open
Abstract
Fifteen million farmers in India engaged in Maize cultivation. India would require 45 MMT of Maize by 2022. But, only 15% of cultivated area of maize is under irrigation and water shortage has been a challenge for sustainability of maize production. Water deficit stress (WDS) during pre-flowering and grain filling stages massively affects the plant performance due to imprecise traits function. Thus, the effect of WDS on non-drought tolerant (NDT) and drought tolerant (DT) maize lines were investigated. WDS increased the flowering days, days to maturity, anthesis silk interval, decreased the leaf number, abnormal expression of secondary stress responsive traits, loss of normal root architecture which overall lead to a reduction in GY/ha. WDS at flowering and grain filling stage leads to significant yield penalty especially in NDT lines than DT lines. The yield penalty was ranged from 34.28 to 66.15% in NDT and 38.48 to 55.95% in DT lines due to WDS. Using multiple statistics, traits which improve WDS tolerance in maize were identified viz; number of leaves, number of stomata on lower surface of leaf, leaf angle at ear forming node internodal length between 3rd and 4th leaf from top, flag leaf length, flag leaf width, ear per plants, leaf senescence, pollen stainability, root fresh weight and root length. These traits would help in trait specific breeding in maize for WDS tolerance.
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Affiliation(s)
- R P Sah
- ICAR-National Rice Research Institute, Cuttack, Odisha, India.,Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - M Chakraborty
- Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India.
| | - K Prasad
- Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - M Pandit
- Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - V K Tudu
- Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - M K Chakravarty
- Department of Entomology, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - S C Narayan
- Department of Genetics and Plant Breeding, Birsa Agricultural University, Kanke, Ranchi, Jharkhand, India
| | - M Rana
- Indian Grassland and Fodder Research Institute, Jhansi, Uttar Pradesh, India
| | - D Moharana
- ICAR-National Rice Research Institute, Cuttack, Odisha, India
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19
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Hossaini F, Munshi S, Chakraborty M. Antimicrobial effects of different extracts of medicinally used green leafy vegetables collected from local market of Dhaka, Bangladesh. Food Res 2020. [DOI: 10.26656/fr.2017.4(3).017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
The present study was carried out to determine the antimicrobial efficacy of green leafy
vegetable samples which are traditionally used as medicinal herbs. Therefore, three
samples each of Neem (Azadirachta indica, leaves), Ivy Gourd (Coccinia grandis, leaves),
Water Spinach (Ipomoea aquatica, leaves) and Skunkvine (Paederia foetida, leaves) were
collected and subjected to microbiological analysis, and agar well diffusion and
microdilution assays to check antimicrobial activity. The samples contained total viable
bacteria and fungi up to 107
and 105 CFU/g, respectively. Staphylococcus spp., Klebsiella
spp. and Pseudomonas spp. were recovered in all the samples. All the samples showed
potential antibacterial activity against most of the tested bacteria, especially their ethanolic
and methanolic extracts. Although, crude and hot water extracts almost had no effect on
the bacterial growth. The MIC value of the samples was found in a range of 3 mg/mL to
12 mg/mL and the average MIC value was recorded to be 6 mg/mL. Overall, the findings
of the present study justified the therapeutic potential of the tested green leafy vegetable
samples.
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20
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Chakraborty M, Tarasovetc EV, Zaytsev AV, Godzi M, Figueiredo AC, Ataullakhanov FI, Grishchuk EL. Microtubule end conversion mediated by motors and diffusing proteins with no intrinsic microtubule end-binding activity. Nat Commun 2019; 10:1673. [PMID: 30975984 PMCID: PMC6459870 DOI: 10.1038/s41467-019-09411-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [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] [Received: 11/08/2018] [Accepted: 02/28/2019] [Indexed: 01/31/2023] Open
Abstract
Accurate chromosome segregation relies on microtubule end conversion, the ill-understood ability of kinetochores to transit from lateral microtubule attachment to durable association with dynamic microtubule plus-ends. The molecular requirements for this conversion and the underlying biophysical mechanisms are elusive. We reconstituted end conversion in vitro using two kinetochore components: the plus end-directed kinesin CENP-E and microtubule-binding Ndc80 complex, combined on the surface of a microbead. The primary role of CENP-E is to ensure close proximity between Ndc80 complexes and the microtubule plus-end, whereas Ndc80 complexes provide lasting microtubule association by diffusing on the microtubule wall near its tip. Together, these proteins mediate robust plus-end coupling during several rounds of microtubule dynamics, in the absence of any specialized tip-binding or regulatory proteins. Using a Brownian dynamics model, we show that end conversion is an emergent property of multimolecular ensembles of microtubule wall-binding proteins with finely tuned force-dependent motility characteristics.
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Affiliation(s)
- Manas Chakraborty
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.,Centre for Mechanochemical Cell Biology, Warwick Medical School, Coventry, CV4 7AL, UK
| | - Ekaterina V Tarasovetc
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Anatoly V Zaytsev
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Maxim Godzi
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.,Center for Theoretical Problems of Physicochemical Pharmacology, Russian Academy of Sciences, 119991, Moscow, Russia
| | - Ana C Figueiredo
- Chromosome Instability & Dynamics Laboratory, Instituto de Biologia Molecular e Celular, Universidade do Porto, Rua Alfredo Allen 208, 4200-135, Porto, Portugal.,Instituto de Investigação e Inovação em Saúde - i3S, Universidade do Porto, Rua Alfredo Allen 208, 4200-135, Porto, Portugal
| | - Fazly I Ataullakhanov
- Center for Theoretical Problems of Physicochemical Pharmacology, Russian Academy of Sciences, 119991, Moscow, Russia.,Dmitry Rogachev National Research Center of Pediatric Hematology, Oncology and Immunology, Moscow, 117997, Russia.,Moscow Institute of Physics and Technology, Dolgoprudny, Moscow Region, 141701, Russia
| | - Ekaterina L Grishchuk
- Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA. .,Dmitry Rogachev National Research Center of Pediatric Hematology, Oncology and Immunology, Moscow, 117997, Russia.
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21
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Zhang HN, Xu QQ, Thakur A, Alfred MO, Chakraborty M, Ghosh A, Yu XB. Endothelial dysfunction in diabetes and hypertension: Role of microRNAs and long non-coding RNAs. Life Sci 2018; 213:258-268. [PMID: 30342074 DOI: 10.1016/j.lfs.2018.10.028] [Citation(s) in RCA: 71] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2018] [Revised: 10/13/2018] [Accepted: 10/15/2018] [Indexed: 12/11/2022]
Abstract
The vascular endothelium acts as a barrier between the blood flow and the inner lining of the vessel wall, and it functions as a filtering machinery to filter out any unwanted transfer of materials from both sides (i.e. the blood and the surrounding tissues). It is evident that diseases such as diabetes, obesity, and hypertension disturb the normal endothelial functions in humans and lead to endothelial dysfunction, which may further precede to the development of atherosclerosis. Long non-coding RNAs and micro RNAs both are types of non-coding RNAs which, in the recent years, have increasingly been studied in the pathophysiology of many diseases including diabetes, obesity, cardiovascular diseases, neurological diseases, and others. Recent findings have pointed out important aspects on their relevance to endothelial function as well as dysfunction of the system which may arise from presence of diseases such as diabetes and hypertension. Diabetes or hypertension-mediated endothelial dysfunction show characteristics such as reduced nitric oxide synthesis through suppression of endothelial nitric oxide synthase activity in endothelial cells, reduced sensitivity of nitric oxide in smooth muscle cells, and inflammation - all of which have been either shown to be directly caused by gene regulatory mechanisms of non-coding RNAs or shown to be having a correlation with them. In this review, we aim to discuss such findings on the role of these non-coding RNAs in diabetes or hypertension-associated endothelial dysfunction and the related mechanisms that may pave the way for alleviating endothelial dysfunction and its related complications such as atherosclerosis.
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Affiliation(s)
- Hai-Na Zhang
- Department of Pharmacy, The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China
| | - Qiao-Qiao Xu
- Department of Pharmacy, The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China
| | - Abhimanyu Thakur
- Department of Pharmaceutical Sciences and Technology, Birla Institute of Technology Mesra, Ranchi, India
| | - Martin Omondi Alfred
- Institute of Primate Research, Nairobi, Kenya; School of Life Science and Technology, China Pharmaceutical University, Nanjing, China
| | - Manas Chakraborty
- Department of Pharmacy, Kaohsiung Medical University, Kaohsiung, Taiwan, ROC
| | - Arunima Ghosh
- Department of Medical Coding Analysis - Emblem Health, Cognizant Technology Solutions India Pvt Ltd., Bangalore, India
| | - Xu-Ben Yu
- Department of Pharmacy, The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China.
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Patel TN, Chakraborty M, Bhattacharya P. Microsatellite Instability in Chronic Myeloid Leukemia using D17S261 and D3S643 markers: A Pilot Study in Gujarat Population. Indian J Cancer 2018; 54:426-429. [PMID: 29469071 DOI: 10.4103/ijc.ijc_275_17] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
CONTEXT Tumor progresses through a series of genetic alterations that involve proto-oncogenes and tumor suppressor genes - the gatekeeper, caretakers, and landscaper genes. Microsatellites are short tandem repeat sequences, present over the span of human genome and are known to be variable at multiple loci due to errors in DNA Mismatch Repair machinery. AIM The present study was aimed to evaluate the association between Microsatellite Instability (MSI) and evolution of Chronic Myeloid Leukemia (CML) - genetically a rare event but profound in this pilot study. SETTINGS AND DESIGNS We explore the possibility of MSI in primary CML patients confirmed by t(9;22) using capillary electrophoresis. Fifteen CML patients and healthy individual samples, respectively, were used to study the markers D17S261 and D3S643. MATERIALS AND METHODS The DNA was amplified using tagged and nontagged primers and further subjected to bioanalysis and fragment analysis. RESULTS While the results from bioanalyzer fluctuated, fragment analysis indicated the presence of microsatellite variability in 80% of the patients' samples as compared to no MSI in normal individuals for both the markers. CONCLUSION These findings suggest that MSI is a genetic event that may have a role in CML progression or evolution. Further studies are warranted to understand the plausible underlying causes.
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Affiliation(s)
- T N Patel
- Departments of Integrative Biology, Vellore Institute of Technology, Vellore, Tamil Nadu, India
| | - M Chakraborty
- Departments of Biomedical Genetics, Vellore Institute of Technology, Vellore, Tamil Nadu, India
| | - P Bhattacharya
- Departments of Integrative Biology, Vellore Institute of Technology, Vellore, Tamil Nadu, India
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Sharma N, Chakraborty M, Neog NK, Bandyopadhyay M. Development and characterization of a helicon plasma source. Rev Sci Instrum 2018; 89:083508. [PMID: 30184689 DOI: 10.1063/1.5030624] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2018] [Accepted: 08/02/2018] [Indexed: 06/08/2023]
Abstract
The Helicon Plasma Source (HeliPS) designed and developed at the Centre of Plasma Physics-Institute for Plasma Research is a versatile helicon plasma device, which operates in a wide range of magnetic field configurations from 50 G to 500 G. This device is dedicated to perform a broad range of research activities. The main objective for development of the HeliPS is to carry out studies on ion-ion plasmas in electronegative gases. In the near future, ion-ion plasmas will be formed in electronegative gases in the downstream of the plasma production region. Although the system is primarily designed to carry out ion-ion plasma experiments, the same system can also be used for experimental studies on some basic helicon plasma properties such as wave propagation, wave coupling, and plasma instability. At present, argon plasma is produced with a RF power supply of 13.56 MHz frequency. External circuit parameters, such as antenna current, plasma resistance (Rp), and internal parameters, such as electron density and temperature, are measured. The details of the experimental setup development, device characteristic, as well as preliminary plasma production and characterization to confirm occurrence of the helicon plasma in the system are presented in this article.
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Affiliation(s)
- N Sharma
- Centre of Plasma Physics-Institute for Plasma Research, Tepesia, Sonapur, Kamrup, Assam 782402, India
| | - M Chakraborty
- Centre of Plasma Physics-Institute for Plasma Research, Tepesia, Sonapur, Kamrup, Assam 782402, India
| | - N K Neog
- Centre of Plasma Physics-Institute for Plasma Research, Tepesia, Sonapur, Kamrup, Assam 782402, India
| | - M Bandyopadhyay
- Institute for Plasma Research, HBNI, Bhat, Gandhinagar 382428, Gujarat, India
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Abstract
During mitosis, kinetochores often bind to the walls of spindle microtubules, but these lateral interactions are then converted into a different binding mode in which microtubule plus-ends are embedded at kinetochores, forming dynamic "end-on" attachments. This remarkable configuration allows continuous addition or loss of tubulin subunits from the kinetochore-bound microtubule ends, concomitant with movement of the chromosomes. Here, we describe novel experimental assays for investigating this phenomenon using a well-defined in vitro reconstitution system visualized by fluorescence microscopy. Our assays take advantage of the kinetochore kinesin CENP-E, which assists in microtubule end conversion in vertebrate cells. In the experimental setup, CENP-E is conjugated to coverslip-immobilized microbeads coated with selected kinetochore components, creating conditions suitable for microtubule gliding and formation of either static or dynamic end-on microtubule attachment. This system makes it possible to analyze, in a systematic and rigorous manner, the molecular friction generated by the microtubule wall-binding proteins during lateral transport, as well as the ability of these proteins to establish and maintain association with microtubule plus-end, providing unique insights into the specific activities of various kinetochore components.
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Affiliation(s)
- Manas Chakraborty
- Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, United States
| | - Ekaterina V Tarasovetc
- Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, United States
| | - Ekaterina L Grishchuk
- Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, United States.
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Chakraborty M, Mukhopadhyay S, Dasgupta A, Patsa S, Anjum N, Ray JG. A new approach of oral cancer detection using bilateral texture features in digital infrared thermal images. Annu Int Conf IEEE Eng Med Biol Soc 2017; 2016:1377-1380. [PMID: 28268582 DOI: 10.1109/embc.2016.7590964] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Oral cancer is one of the most prevalent form of cancer and its severity is aggrandized specially among the socio-economically backward population in developing countries. A major fraction of patient population is unable to avail diagnosis for oral cancer due to scarcity of state-of-the-art infrastructure and experienced oral and maxillofacial pathologist. Contemporary gold standard of oral cancer confirmation relies on biopsy report. But biopsy is invasive and thus patients are usually reluctant to undergo this test. Moreover, biopsy yields considerable false negatives if investigated tissue is not collected precisely from the carcinogenic location. Till date, there is dearth of computer aided pre-screening tool for detection of oral cancer. The paper presents Digital Infrared Thermal Imaging as a viable modality for early screening of oral cancer. This is the pioneering attempt to discriminate normal subjects from patients by leveraging discriminating texture features on oral thermograms. Statistically significant texture features were selected from a) both halves of frontal face and b) right and left profile faces. Due to disparity of distribution of facial temperature between normal subjects and patients, the corresponding texture features form discriminative class specific local clusters. Such local conglomeration was exploited using k-means and fuzzy k-means clustering. We adopt the concept of cluster prototype classifier which assigns label to each cluster according to majority class labels within that cluster. Highest classification accuracy of 86.12% is attained on fusion of features from left and right half of frontal face of precancerous subject followed by fuzzy k-means guided cluster prototype classification. The proposed work outperforms our previously developed pre-screening framework by upto 6.5%. Such promising results boosts the viability of our approach.
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Affiliation(s)
| | - M. Chakraborty
- Metallurgical Engineering Department, Indian Institute of Technology, Kharagpur 721302, India
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Affiliation(s)
- S N Biswas
- Department of General Medicine, Midnapore Medical College and Hospital, Medinipur, West Bengal, India
| | - P P Chakraborty
- Department of General Medicine, Midnapore Medical College and Hospital, Medinipur, West Bengal, India
| | - M Chakraborty
- Department of Microbiology, Calcutta School of Tropical Medicine, Kolkata, West Bengal, India
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Raut AN, Nandanwar SU, Suryawanshi YR, Chakraborty M, Jauhari S, Mukhopadhyay S, Shenoy KT, Bajaj HC. Liquid phase selective hydrogenation of phenol to cyclohexanone over Ru/Al2O3 nanocatalyst under mild conditions. Kinet Catal 2016. [DOI: 10.1134/s0023158416010110] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Chakraborty M, Reddy PS, Mustafa G, Rajesh G, Narasu VML, Udayasuriyan V, Rana D. Transgenic rice expressing the cry2AX1 gene confers resistance to multiple lepidopteran pests. Transgenic Res 2016; 25:665-78. [DOI: 10.1007/s11248-016-9954-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2015] [Accepted: 03/23/2016] [Indexed: 10/22/2022]
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Chakraborty M, Sairam Reddy P, Laxmi Narasu M, Krishna G, Rana D. Agrobacterium-mediated genetic transformation of commercially elite rice restorer line using nptII gene as a plant selection marker. Physiol Mol Biol Plants 2016; 22:51-60. [PMID: 27186018 PMCID: PMC4840146 DOI: 10.1007/s12298-015-0334-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2015] [Revised: 11/15/2015] [Accepted: 12/06/2015] [Indexed: 05/29/2023]
Abstract
Transformation of commercially important indica cultivars remains challenging for the scientific community even though Agrobacterium-mediated transformation protocols for a few indica rice lines have been well established. We report successful transformation of a commercially important restorer line JK1044R of indica rice hybrid JKRH 401. While following existing protocol, we optimized several parameters for callusing, regeneration and genetic transformation of JK1044R. Calli generated from the rice scutellum tissue were used for transformation by Agrobacterium harboring pCAMBIA2201. A novel two tire selection scheme comprising of Geneticin (G418) and Paramomycin were deployed for selection of transgenic calli as well as regenerated plantlets that expressed neomycin phosphotransferase-II gene encoded by the vector. One specific combination of G418 (30 mg l(-1)) and Paramomycin (70 mg l(-1)) was very effective for calli selection. Transformed and selected calli were detected by monitoring the expression of the reporter gene uidA (GUS). Regenerated plantlets were confirmed through PCR analysis of nptII and gus genes specific primers as well as dot blot using gus gene specific as probe.
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Affiliation(s)
- M. Chakraborty
- />Department of Biotechnology, Jawaharlal Nehru Technological University (JNTU), Hyderabad, Telangana 500072 India
- />Biotechnology Division, J.K Agri. Genetics Pvt. Ltd., Hyderabad, Telangana 500016 India
| | - P. Sairam Reddy
- />Biotechnology Division, J.K Agri. Genetics Pvt. Ltd., Hyderabad, Telangana 500016 India
| | - M. Laxmi Narasu
- />Department of Biotechnology, Jawaharlal Nehru Technological University (JNTU), Hyderabad, Telangana 500072 India
| | - Gaurav Krishna
- />Biotechnology Division, J.K Agri. Genetics Pvt. Ltd., Hyderabad, Telangana 500016 India
- />Jacob School of Biotechnology & Bioengineering, Sam Higginbottom Institute of Agriculture, Technology & Sciences (Formerly Allahabad Agricultural Institute), Deemed University, Allahabad, 211007 Uttar Pradesh India
| | - Debashis Rana
- />Biotechnology Division, J.K Agri. Genetics Pvt. Ltd., Hyderabad, Telangana 500016 India
- />Bayer CropScience-Seeds, Bayer (South East Asia) Pte Ltd, Singapore, Singapore
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Singh SK, Rajawat AS, Rathore BP, Bahuguna IM, Chakraborty M. Detection of Glacier Lakes Buried under Snow by RISAT-1 SAR in the Himalayan Terrain. CURR SCI INDIA 2015. [DOI: 10.18520/cs/v109/i9/1735-1739] [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: 11/15/2022]
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Singh SK, Rajawat AS, Rathore BP, Bahuguna IM, Chakraborty M. Detection of Glacier Lakes Buried under Snow by RISAT-1 SAR in the Himalayan Terrain. CURR SCI INDIA 2015. [DOI: 10.18520/v109/i9/1735-1739] [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: 11/15/2022]
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Nandanwar SU, Dabbawala AA, Chakraborty M, Bajaj HC, Mukhopadhyay S, Shenoy KT. Partial hydrogenation of benzene to cyclohexene over Ru/γ-Al2O3 nanocatalyst via w/o microemulsion using boric acid and ethanolamine additives. Res Chem Intermed 2015. [DOI: 10.1007/s11164-015-2102-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Patel RR, Barad JM, Nandanwar SU, Dabbawala AA, Chakraborty M, Parikh PA, Baja HC. Cellulose supported ruthenium nanoclusters as an efficient and recyclable catalytic system for benzene hydrogenation under mild conditions. Kinet Catal 2015. [DOI: 10.1134/s002315841502007x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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35
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Bala N, Saha S, Chakraborty M, Maiti M, Das S, Basu R, Nandy P. Green synthesis of zinc oxide nanoparticles using Hibiscus subdariffa leaf extract: effect of temperature on synthesis, anti-bacterial activity and anti-diabetic activity. RSC Adv 2015. [DOI: 10.1039/c4ra12784f] [Citation(s) in RCA: 324] [Impact Index Per Article: 36.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
Particle size dependent anti-bacterial and anti-diabetic activities of green synthesized ZnO nanoparticles.
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Affiliation(s)
- Niranjan Bala
- Department of Physics
- Jadavpur University
- Kolkata 700032
- India
| | - S. Saha
- Department of Physics
- Jadavpur University
- Kolkata 700032
- India
| | - M. Chakraborty
- Department of Physics
- Jadavpur University
- Kolkata 700032
- India
| | - M. Maiti
- Department of Physics
- Jadavpur University
- Kolkata 700032
- India
| | - S. Das
- Department of Physics
- Jadavpur University
- Kolkata 700032
- India
| | - R. Basu
- Department of Physics
- Jogamaya Devi College
- Kolkata 700 026
- India
| | - P. Nandy
- Centre for Interdisciplinary Research and Education
- Kolkata 700 068
- India
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Kuriata AM, Chakraborty M, Henderson JN, Hazra S, Serban AJ, Pham TVT, Levitus M, Wachter RM. ATP and magnesium promote cotton short-form ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) activase hexamer formation at low micromolar concentrations. Biochemistry 2014; 53:7232-46. [PMID: 25357088 DOI: 10.1021/bi500968h] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
We report a fluorescence correlation spectroscopy (FCS) study of the assembly pathway of the AAA+ protein ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) activase (Rca), a ring-forming ATPase responsible for activation of inhibited Rubisco complexes for biological carbon fixation. A thermodynamic characterization of simultaneously populated oligomeric states appears critical in understanding Rca structure and function. Using cotton β-Rca, we demonstrate that apparent diffusion coefficients vary as a function of concentration, nucleotide, and cation. Using manual fitting procedures, we provide estimates for the equilibrium constants for the stepwise assembly and find that in the presence of ATPγS, the Kd for hexamerization is 10-fold lower than with ADP (∼0.1 vs ∼1 μM). Hexamer fractions peak at 30 μM and dominate at 8-70 μM Rca, where they comprise 60-80% of subunits with ATPγS, compared with just 30-40% with ADP. Dimer fractions peak at 1-4 μM Rca, where they comprise 15-18% with ATPγS and 26-28% with ADP. At 30 μM Rca, large aggregates begin to form that comprise ∼10% of total protein with ATPγS and ∼25% with ADP. FCS data collected on the catalytically impaired WalkerB-D173N variant in the presence of ATP provided strong support for these results. Titration with free magnesium ions lead to the disaggregation of larger complexes in favor of hexameric forms, suggesting that a second magnesium binding site with a Kd value of 1-3 mM mediates critical subunit contacts. We propose that closed-ring toroidal hexameric forms are stabilized by binding of Mg·ATP plus Mg2+, whereas Mg·ADP promotes continuous assembly to supramolecular aggregates such as spirals.
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Affiliation(s)
- Agnieszka M Kuriata
- Department of Chemistry and Biochemistry and Center for Bioenergy and Photosynthesis, Arizona State University , Tempe, Arizona 85287, United States
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Majumdar P, Singh SB, Dhara S, Chakraborty M. Influence of boron addition to Ti-13Zr-13Nb alloy on MG63 osteoblast cell viability and protein adsorption. Mater Sci Eng C Mater Biol Appl 2014; 46:62-8. [PMID: 25491960 DOI: 10.1016/j.msec.2014.10.012] [Citation(s) in RCA: 15] [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] [Subscribe] [Scholar Register] [Received: 08/05/2013] [Revised: 09/02/2014] [Accepted: 10/02/2014] [Indexed: 10/24/2022]
Abstract
Cell proliferation, cell morphology and protein adsorption on near β-type Ti-13Zr-13Nb (TZN) alloy and Ti-13Zr-13Nb-0.5B (TZNB) composite have been investigated and compared to evaluate the effect of boron addition which has been added to the Ti alloy to improve their poor tribological properties by forming in situ TiB precipitates. MG63 cell proliferation on substrates with different chemistry but the same topography was compared. The MTT assay test showed that the cell viability on the TZN alloy was higher than the boron containing TZNB composite after 36 h of incubation and the difference was pronounced after 7 days. However, both the materials showed substantially higher cell attachment than the control (polystyrene). For the same period of incubation in fetal bovine serum (FBS), the amount of protein adsorbed on the surface of boron free TZN samples was higher than that in the case of boron containing TZNB composite. The presence of boron in the TZN alloy influenced protein adsorption and cell response and they are lower in TZNB than in TZN as a result of the associated difference in chemical characteristics.
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Affiliation(s)
- P Majumdar
- School of Mechanical Science, Indian Institute of Technology, Bhubaneswar, India.
| | - S B Singh
- Department of Metallurgical and Materials Engineering, Indian Institute of Technology, Kharagpur, India
| | - S Dhara
- School Medical Science and Technology, Indian Institute of Technology, Kharagpur, India
| | - M Chakraborty
- School of Mechanical Science, Indian Institute of Technology, Bhubaneswar, India
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Astorga A, Death R, Death F, Paavola R, Chakraborty M, Muotka T. Habitat heterogeneity drives the geographical distribution of beta diversity: the case of New Zealand stream invertebrates. Ecol Evol 2014; 4:2693-702. [PMID: 25077020 PMCID: PMC4113293 DOI: 10.1002/ece3.1124] [Citation(s) in RCA: 97] [Impact Index Per Article: 9.7] [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: 02/06/2014] [Revised: 04/24/2014] [Accepted: 04/30/2014] [Indexed: 11/07/2022] Open
Abstract
To define whether the beta diversity of stream invertebrate communities in New Zealand exhibits geographical variation unexplained by variation in gamma diversity and, if so, what mechanisms (productivity, habitat heterogeneity, dispersal limitation, disturbance) best explain the observed broad-scale beta diversity patterns. We sampled 120 streams across eight regions (stream catchments), spanning a north-south gradient of 12° of latitude, and calculated beta diversity (with both species richness and abundance data) for each region. We explored through a null model if beta diversity deviates from the expectation of stochastic assembly processes and whether the magnitude of the deviation varies geographically. We then performed multimodel inference analysis on the key environmental drivers of beta diversity, using Akaike's information criterion and model and predictor weights to select the best model(s) explaining beta diversity. Beta diversity was, unexpectedly, highest in the South Island. The null model analysis revealed that beta diversity was greater than expected by chance in all eight regions, but the magnitude of beta deviation was higher in the South Island, suggesting differences in environmental filtering and/or dispersal limitation between North and South Island. Habitat heterogeneity was the predominant driver of beta diversity of stream macroinvertebrates, with productivity having a secondary, and negative, contribution. This is one of the first studies accounting for stochastic effects while examining the ecological drivers of beta diversity. Our results suggest that local environmental heterogeneity may be the strongest determinant of beta diversity of stream invertebrates, more so than regional- or landscape-scale variables.
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Affiliation(s)
- Anna Astorga
- Department of Biology, University of OuluP.O. Box 3000, FI-90014, Oulu, Finland
- Institute of Agriculture and Environment - Ecology, Massey University, Private Bag11-222, Palmerston North, New Zealand
- Finnish Environment Institute, Natural Environment Centre, University of OuluP.O. Box 413, FI-90014, Oulu, Finland
| | - Russell Death
- Institute of Agriculture and Environment - Ecology, Massey University, Private Bag11-222, Palmerston North, New Zealand
| | - Fiona Death
- Institute of Agriculture and Environment - Ecology, Massey University, Private Bag11-222, Palmerston North, New Zealand
| | - Riku Paavola
- Thule Institute, Oulanka Research StationOulanka, Finland
| | - Manas Chakraborty
- Horizons Regional Council, Private Bag11025, Palmerston North, New Zealand
| | - Timo Muotka
- Department of Biology, University of OuluP.O. Box 3000, FI-90014, Oulu, Finland
- Finnish Environment Institute, Natural Environment Centre, University of OuluP.O. Box 413, FI-90014, Oulu, Finland
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Binder JK, Douma LG, Ranjit S, Kanno DM, Chakraborty M, Bloom LB, Levitus M. Intrinsic stability and oligomerization dynamics of DNA processivity clamps. Nucleic Acids Res 2014; 42:6476-86. [PMID: 24728995 PMCID: PMC4041429 DOI: 10.1093/nar/gku255] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2014] [Revised: 03/14/2014] [Accepted: 03/17/2014] [Indexed: 11/29/2022] Open
Abstract
Sliding clamps are ring-shaped oligomeric proteins that are essential for processive deoxyribonucleic acid replication. Although crystallographic structures of several clamps have been determined, much less is known about clamp structure and dynamics in solution. Here, we characterized the intrinsic solution stability and oligomerization dynamics of the homodimeric Escherichia coli β and the homotrimeric Saccharomyces cerevisiae proliferating cell nuclear antigen (PCNA) clamps using single-molecule approaches. We show that E. coli β is stable in solution as a closed ring at concentrations three orders of magnitude lower than PCNA. The trimeric structure of PCNA results in slow subunit association rates and is largely responsible for the lower solution stability. Despite this large difference, the intrinsic lifetimes of the rings differ by only one order of magnitude. Our results show that the longer lifetime of the E. coli β dimer is due to more prominent electrostatic interactions that stabilize the subunit interfaces.
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Affiliation(s)
- Jennifer K Binder
- Department of Chemistry and Biochemistry and Biodesign Institute, Arizona State University, Tempe, AZ 85287-5601, USA
| | - Lauren G Douma
- Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, FL 32610-0245, USA
| | - Suman Ranjit
- Department of Chemistry and Biochemistry and Biodesign Institute, Arizona State University, Tempe, AZ 85287-5601, USA
| | - David M Kanno
- Department of Chemistry and Biochemistry and Biodesign Institute, Arizona State University, Tempe, AZ 85287-5601, USA
| | - Manas Chakraborty
- Department of Chemistry and Biochemistry and Biodesign Institute, Arizona State University, Tempe, AZ 85287-5601, USA
| | - Linda B Bloom
- Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, FL 32610-0245, USA
| | - Marcia Levitus
- Department of Chemistry and Biochemistry and Biodesign Institute, Arizona State University, Tempe, AZ 85287-5601, USA
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Sellappan B, Chakraborty M, Cherian S. Congenital hypothyroidism presenting as pseudo-obstruction in preterm infants. BMJ Case Rep 2014; 2014:bcr2013201082. [PMID: 24832703 PMCID: PMC4025204 DOI: 10.1136/bcr-2013-201082] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/16/2014] [Indexed: 11/03/2022] Open
Abstract
Congenital hypothyroidism (CH) presenting as acute pseudo-obstruction is uncommon. We report two premature infants presenting with acute bowel obstruction subsequently diagnosed to have CH. Both responded well to medical management with thyroid supplementation.
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Affiliation(s)
- B Sellappan
- Neonatal Unit, University Hospital of Wales, Cardiff, UK
| | - M Chakraborty
- Neonatal Unit, University Hospital of Wales, Cardiff, UK
| | - S Cherian
- Neonatal Unit, University Hospital of Wales, Cardiff, UK
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Kumar A, Koch A, Borthakur R, Chakraborty M, De A, Phukan A, Bez G, Lal R. Synthesis and spectroscopic characterization of monometallic molybdenum (VI) complexes derived from bis(2-hydroxy-1-naphthaldehyde)succinoyldihydrazone. J Mol Struct 2014. [DOI: 10.1016/j.molstruc.2014.01.048] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Vadakkekara R, Chakraborty M, Parikh PA. Synthesis, characterization, and application of monodisperse gelatin-stabilized silver nanospheres in reduction of aromatic nitro compounds. Colloid J 2014. [DOI: 10.1134/s1061933x14010153] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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43
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Ghosh S, Majumder S, Pal R, Chakraborty M, Biswas A, Gupta B. Formulation and evaluation of hydroxyzine hydrochloride sustained release microspheres by ionotropic gelation technique using Carbopol 934P. Asian J Pharm 2014. [DOI: 10.4103/0973-8398.143934] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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44
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De D, Chakraborty M, Majumdar S, Giri S. Bandgap engineering through nanocrystalline magnetic alloy grafting on reduced graphene oxide. Phys Chem Chem Phys 2014; 16:19661-7. [DOI: 10.1039/c4cp02259a] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [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]
Abstract
Grafting of nanocrystalline Co80Ni20on reduced graphene oxide causes a significantly large moment (1.2μB), ∼10 times localization of conductivity and significant magnetoconductance of hybrid-materials, which is promising toward spintronic applications.
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Affiliation(s)
- D. De
- Department of Solid State Physics
- Indian Association for the Cultivation of Science
- Kolkata 700 032, India
- Department of Physics
- NITMAS
| | - M. Chakraborty
- Department of Solid State Physics
- Indian Association for the Cultivation of Science
- Kolkata 700 032, India
- Department of Physics
- Indian Institute of Technology
| | - S. Majumdar
- Department of Solid State Physics
- Indian Association for the Cultivation of Science
- Kolkata 700 032, India
| | - S. Giri
- Department of Solid State Physics
- Indian Association for the Cultivation of Science
- Kolkata 700 032, India
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Chakraborty M, Kuriata A, Henderson JN, Salvucci ME, Wachter R, Levitus M. ATP-Mg+2 Mediated Assembly of Rubisco Activase Investigated using Fluorescence Correlation Spectroscopy. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.298] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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46
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Wachter RM, Levitus M, Salvucci ME, Henderson JN, Hazra S, Kuriata AM, Chakraborty M. Structure, function and assembly of Rubisco activase. FASEB J 2013. [DOI: 10.1096/fasebj.27.1_supplement.580.5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | - Marcia Levitus
- Chemistry and BiochemistryArizona State UniversityTempeAZ
- Biodesign InstituteTempeAZ
| | | | | | - Suratna Hazra
- Chemistry and BiochemistryArizona State UniversityTempeAZ
| | | | - Manas Chakraborty
- Chemistry and BiochemistryArizona State UniversityTempeAZ
- Biodesign InstituteTempeAZ
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Suryawanshi YR, Chakraborty M, Jauhari S, Mukhopadhyay S, Shenoy KT, Shridharkrishna R. Microwave irradiation solvothermal technique: an optimized protocol for size-control synthesis of Ru nanoparticles. Cryst Res Technol 2013. [DOI: 10.1002/crat.201200412] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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48
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Chakraborty M, Kuriata A, Henderson N, Wachter R, Levitus M. Self Assembly of Rubisco Activase Monitored by Fluorescence Fluctuation Spectroscopy. Biophys J 2013. [DOI: 10.1016/j.bpj.2012.11.2913] [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: 11/28/2022] Open
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49
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Nandanwar SU, Chakraborty M, Mukhopadhyay S, Shenoy KT. Benzene hydrogenation over highly active monodisperse Ru/γ-Al2O3 nanocatalyst synthesized by (w/o) reverse microemulsion. Reac Kinet Mech Cat 2012. [DOI: 10.1007/s11144-012-0526-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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50
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Raji V, Chakraborty M, Parikh PA. Synthesis of Starch-Stabilized Silver Nanoparticles and Their Antimicrobial Activity. Particulate Science and Technology 2012. [DOI: 10.1080/02726351.2011.626510] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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