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Article ; Online: Preparation and Characterization of Collagen-Hyaluronic Acid (Col-HA) Matrices: In Vitro Mimics of the Tumor Microenvironment.

Dutta, Sarbajeet / Sen, Shamik

Methods in molecular biology (Clifton, N.J.)

2023 Volume 2747, Page(s) 131–139

Abstract: Collagen-I (Col) and hyaluronic acid (HA) are two of the most important extracellular matrix (ECM) components. While collagen serves as the main structural feature of the ECM and is an important ligand for integrin-based adhesions, HA acts as a ligand ... ...

Abstract	Collagen-I (Col) and hyaluronic acid (HA) are two of the most important extracellular matrix (ECM) components. While collagen serves as the main structural feature of the ECM and is an important ligand for integrin-based adhesions, HA acts as a ligand for the transmembrane glycoprotein CD44. However, most studies on cancer invasion utilize 3D collagen matrices, thereby ignoring the importance of HA-CD44 interactions. Here, we describe the process of fabricating Col-HA gels with varying Col/HA ratios, which can be used to suitably mimic the tumor microenvironment.
MeSH term(s)	Hyaluronic Acid/chemistry ; Tumor Microenvironment ; Ligands ; Collagen/chemistry ; Collagen Type I/chemistry ; Hydrogels/chemistry ; Extracellular Matrix
Chemical Substances	Hyaluronic Acid (9004-61-9) ; Ligands ; Collagen (9007-34-5) ; Collagen Type I ; Hydrogels
Language	English
Publishing date	2023-12-01
Publishing country	United States
Document type	Journal Article
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-0716-3589-6_11
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Bulky glycocalyx shields cancer cells from invasion-associated stresses.

Piplani, Niyati / Roy, Tanusri / Saxena, Neha / Sen, Shamik

Translational oncology

2023 Volume 39, Page(s) 101822

Abstract: The glycocalyx-that forms a protective barrier around cells-has been implicated in cancer cell proliferation, survival, and metastasis. However, its role in maintaining the integrity of DNA/nucleus during migration through dense matrices remains ... ...

Abstract	The glycocalyx-that forms a protective barrier around cells-has been implicated in cancer cell proliferation, survival, and metastasis. However, its role in maintaining the integrity of DNA/nucleus during migration through dense matrices remains unexplored. In this study, we address this question by first documenting heterogeneity in glycocalyx expression in highly invasive MDA-MB-231 breast cancer cells, and establishing a negative correlation between cell size and glycocalyx levels. Next, we set-up transwell migration through 3 µm pores, to isolate two distinct sub-populations and to show that the early migrating cell sub-population possesses a bulkier glycocalyx and undergoes less DNA damage and nuclear rupture, assessed using γH2AX foci formation and nuclear/cytoplasmic distribution of Ku70/80. Interestingly, enzymatic removal of glycocalyx led to disintegration of the nuclear membrane indicated by increased cytoplasmic localisation of Ku70/80, increased nuclear blebbing and reduction in nuclear area. Together, these results illustrate an inverse association between bulkiness of the glycocalyx and nuclear stresses, and highlights the mechanical role of the glycocalyx in shielding migration associated stresses.
Language	English
Publishing date	2023-11-04
Publishing country	United States
Document type	Journal Article
ZDB-ID	2443840-6
ISSN	1936-5233
ISSN	1936-5233
DOI	10.1016/j.tranon.2023.101822
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Article ; Online: Amoebal Tubulin Cleavage Late during Infection Is a Characteristic Feature of

Goyal, Nisha / Barai, Amlan / Sen, Shamik / Kondabagil, Kiran

Microbiology spectrum

2022 Volume 10, Issue 6, Page(s) e0275322

Abstract: ... ...

Abstract	Mimivirus
MeSH term(s)	Animals ; Swine ; Mimiviridae/genetics ; Amoeba ; Tubulin/metabolism ; Acanthamoeba castellanii ; Giant Viruses
Chemical Substances	Tubulin
Language	English
Publishing date	2022-12-01
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2807133-5
ISSN	2165-0497 ; 2165-0497
ISSN (online)	2165-0497
ISSN	2165-0497
DOI	10.1128/spectrum.02753-22
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Article ; Online: Progress and perspectives on carbon-based materials for adsorptive removal and photocatalytic degradation of perfluoroalkyl and polyfluoroalkyl substances (PFAS).

Dey, Debanjali / Shafi, Tajamul / Chowdhury, Shamik / Dubey, Brajesh Kumar / Sen, Ramkrishna

Chemosphere

2024 Volume 351, Page(s) 141164

Abstract: Per- and polyfluoroalkyl substances (PFAS) (also known as 'forever chemicals') have emerged as trace pollutants of global concern, attributing to their persistent and bio-accumulative nature, pervasive distribution, and adverse public health and ... ...

Abstract	Per- and polyfluoroalkyl substances (PFAS) (also known as 'forever chemicals') have emerged as trace pollutants of global concern, attributing to their persistent and bio-accumulative nature, pervasive distribution, and adverse public health and environmental impacts. The unregulated discharge of PFAS into aquatic environments represents a prominent threat to the wellbeing of humans and marine biota, thereby exhorting unprecedented action to tackle PFAS contamination. Indeed, several noteworthy technologies intending to remove PFAS from environmental compartments have been intensively evaluated in recent years. Amongst them, adsorption and photocatalysis demonstrate remarkable ability to eliminate PFAS from different water matrices. In particular, carbon-based materials, because of their diverse structures and many exciting properties, offer bountiful opportunities as both adsorbent and photocatalyst, for the efficient abatement of PFAS. This review, therefore, presents a comprehensive summary of the diverse array of carbonaceous materials, including biochar, activated carbon, carbon nanotubes, and graphene, that can serve as ideal candidates in adsorptive and photocatalytic treatment of PFAS contaminated water. Specifically, the efficacy of carbon-mediated PFAS removal via adsorption and photocatalysis is summarised, together with a cognizance of the factors influencing the treatment efficiency. The review further highlights the neoteric development on the novel innovative approach 'concentrate and degrade' that integrates selective adsorption of trace concentrations of PFAS onto photoactive surface sites, with enhanced catalytic activity. This technique is way more energy efficient than conventional energy-intensive photocatalysis. Finally, the review speculates the cardinal challenges associated with the practical utility of carbon-based materials, including their scalability and economic feasibility, for eliminating exceptionally stable PFAS from water matrices.
MeSH term(s)	Humans ; Adsorption ; Nanotubes, Carbon ; Bioaccumulation ; Water ; Fluorocarbons ; Water Pollutants, Chemical
Chemical Substances	Nanotubes, Carbon ; Water (059QF0KO0R) ; Fluorocarbons ; Water Pollutants, Chemical
Language	English
Publishing date	2024-01-10
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	120089-6
ISSN	1879-1298 ; 0045-6535 ; 0366-7111
ISSN (online)	1879-1298
ISSN	0045-6535 ; 0366-7111
DOI	10.1016/j.chemosphere.2024.141164
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Article ; Online: Adhesivity-tuned bioactive gelatin/gellan hybrid gels drive efficient wound healing.

Jahan, Iffat / Ganesan, Vignesh / Sahu, Megha / Nandave, Mukesh / Sen, Shamik

International journal of biological macromolecules

2023 Volume 254, Issue Pt 2, Page(s) 127735

Abstract: Gelatin-based hydrogels have been widely used for wound healing applications. However, increase in ligand density and reduction in pore size with increasing gelatin concentration may delay wound healing by limiting cell infiltration. In this study, we ... ...

Abstract	Gelatin-based hydrogels have been widely used for wound healing applications. However, increase in ligand density and reduction in pore size with increasing gelatin concentration may delay wound healing by limiting cell infiltration. In this study, we address this shortcoming by combining gelatin with gellan-which is super hydrophilic and non-adhesive to cells. We show that UV crosslinked hybrid gels composed of methacrylated gelatin (GelMA) and methacrylated gellan gum (mGG), possess considerably larger pores and improved mechanical properties compared to GelMA gels. Reduced spreading and reduced formation of focal adhesions on hybrid gels combined with lower contractility and faster detachment upon trypsin-induced de-adhesion suggests that hybrid gels are less adhesive than GelMA gels. Gradual release of fibroblast growth factor (FGF) and silver nanoparticles (AgNPs) incorporated in hybrid gels not only boosts cell migration, but also confers anti-bacterial activity against gram-positive and gram-negative bacteria at concentrations nontoxic to cells. Full thickness wound healing in Wistar rats revealed increased granulation tissue formation in hybrid gels, fastest epithelialization and highest collagen deposition in rats treated with FGF entrapped hybrid gels. Together, our results demonstrate how adhesive tuning and incorporation of bioactive factors can be synergistically combined for achieving complete wound healing.
MeSH term(s)	Rats ; Animals ; Gelatin/pharmacology ; Anti-Bacterial Agents/pharmacology ; Adhesives/pharmacology ; Metal Nanoparticles ; Rats, Wistar ; Gram-Negative Bacteria ; Gram-Positive Bacteria ; Silver/pharmacology ; Wound Healing ; Hydrogels/pharmacology
Chemical Substances	Gelatin (9000-70-8) ; gellan gum (7593U09I4D) ; Anti-Bacterial Agents ; Adhesives ; Silver (3M4G523W1G) ; Hydrogels
Language	English
Publishing date	2023-11-02
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	282732-3
ISSN	1879-0003 ; 0141-8130
ISSN (online)	1879-0003
ISSN	0141-8130
DOI	10.1016/j.ijbiomac.2023.127735
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Zs.B 2374: Show issues

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Article ; Online: Migration and Spreading of Droplets across a Fluid-Fluid Interface in Microfluidic Coflow.

Hazra, Shamik / Mitra, Sushanta / Sen, Ashis Kumar

Langmuir : the ACS journal of surfaces and colloids

2022 Volume 38, Issue 31, Page(s) 9660–9668

Abstract: Interfacial migration of droplets in microfluidic confinements has significant relevance in cell biology and biochemical assays. So far, studies on passive interfacial migration of droplets are limited to co-flow interfaces having small interfacial ... ...

Abstract	Interfacial migration of droplets in microfluidic confinements has significant relevance in cell biology and biochemical assays. So far, studies on passive interfacial migration of droplets are limited to co-flow interfaces having small interfacial tension (IFT ∼ 1 mN/m). Here, we elucidate the migration and spreading of droplets (SiO-1000, SiO-100, FC40, and castor oil as phase 3, P3) across the interface between a pair of coflowing streams (PEG as P1, SiO-100, SiO-20, FC40, and olive oil as P2) having large IFT (∼10 mN/m), with the three different phases immiscible. Interfacial migration involving interfaces of large IFT is facilitated by confining droplets between the channel wall and coflow interface. We find that contact between droplets and the coflow interface is governed by the confinement ratio (i.e., the ratio of drop size to stream width) and the ratio of the capillary numbers of the coflowing streams. Depending on the sign of the spreading parameter (
MeSH term(s)	Microfluidics/methods ; Surface Tension
Language	English
Publishing date	2022-07-25
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2005937-1
ISSN	1520-5827 ; 0743-7463
ISSN (online)	1520-5827
ISSN	0743-7463
DOI	10.1021/acs.langmuir.2c01260
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Article ; Online: Fabrication of a microfluidic device for studying the combinatorial effect of physical and chemical cues on cell migration.

Saxena, Neha / Jadhav, Sameer / Sen, Shamik

STAR protocols

2021 Volume 2, Issue 1, Page(s) 100310

Abstract: ... In ... ...

Abstract	In vivo
MeSH term(s)	Cell Movement/physiology ; Chemokines ; Chemotaxis ; Cues ; Humans ; Lab-On-A-Chip Devices ; Mesenchymal Stem Cells ; Microfluidic Analytical Techniques/instrumentation ; Microfluidic Analytical Techniques/methods ; Microfluidics/instrumentation
Chemical Substances	Chemokines
Language	English
Publishing date	2021-02-02
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2666-1667
ISSN (online)	2666-1667
DOI	10.1016/j.xpro.2021.100310
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Article ; Online: Stiffness-dependent MSC homing and differentiation into CAFs - implications for breast cancer invasion.

Saxena, Neha / Chakraborty, Soura / Dutta, Sarbajeet / Bhardwaj, Garvit / Karnik, Nupur / Shetty, Omshree / Jadhav, Sameer / Zafar, Hamim / Sen, Shamik

Journal of cell science

2024 Volume 137, Issue 1

Abstract: Cellular heterogeneity and extracellular matrix (ECM) stiffening have been shown to be drivers of breast cancer invasiveness. Here, we examine how stiffness-dependent crosstalk between cancer cells and mesenchymal stem cells (MSCs) within an evolving ... ...

Abstract	Cellular heterogeneity and extracellular matrix (ECM) stiffening have been shown to be drivers of breast cancer invasiveness. Here, we examine how stiffness-dependent crosstalk between cancer cells and mesenchymal stem cells (MSCs) within an evolving tumor microenvironment regulates cancer invasion. By analyzing previously published single-cell RNA sequencing datasets, we establish the existence of a subpopulation of cells in primary tumors, secondary sites and circulatory tumor cell clusters of highly aggressive triple-negative breast cancer (TNBC) that co-express MSC and cancer-associated fibroblast (CAF) markers. By using hydrogels with stiffnesses of 0.5, 2 and 5 kPa to mimic different stages of ECM stiffening, we show that conditioned medium from MDA-MB-231 TNBC cells cultured on 2 kPa gels, which mimic the pre-metastatic stroma, drives efficient MSC chemotaxis and induces stable differentiation of MSC-derived CAFs in a TGFβ (TGFB1)- and contractility-dependent manner. In addition to enhancing cancer cell proliferation, MSC-derived CAFs on 2 kPa gels maximally boost local invasion and confer resistance to flow-induced shear stresses. Collectively, our results suggest that homing of MSCs at the pre-metastatic stage and their differentiation into CAFs actively drives breast cancer invasion and metastasis in TNBC.
MeSH term(s)	Humans ; Female ; Breast Neoplasms/genetics ; Breast Neoplasms/pathology ; Cancer-Associated Fibroblasts ; Triple Negative Breast Neoplasms ; Mesenchymal Stem Cells ; Cell Differentiation ; Gels ; Tumor Microenvironment/genetics ; Cell Line, Tumor
Chemical Substances	Gels
Language	English
Publishing date	2024-01-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2993-2
ISSN	1477-9137 ; 0021-9533
ISSN (online)	1477-9137
ISSN	0021-9533
DOI	10.1242/jcs.261145
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Zs.MG 14: Show issues

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Article ; Online: Fabrication of a microfluidic device for studying the combinatorial effect of physical and chemical cues on cell migration

Neha Saxena / Sameer Jadhav / Shamik Sen

STAR Protocols, Vol 2, Iss 1, Pp 100310- (2021)

2021

Abstract: Summary: In vivo cell migration is influenced by soluble factors as well as stiffness. Current in vitro strategies mostly account for one of these two factors to study cell migration. To understand the combinatorial effect of stiffness and chemokines on ... ...

Abstract	Summary: In vivo cell migration is influenced by soluble factors as well as stiffness. Current in vitro strategies mostly account for one of these two factors to study cell migration. To understand the combinatorial effect of stiffness and chemokines on cell behavior, we have developed a microfluidic model to study stiffness-dependent chemotaxis of mesenchymal stem cells (hMSCs). A detailed description of our methodology will help researchers develop microfluidic models that combine these two factors influencing cell behavior.For complete details on the use and execution of this protocol, please refer to Saxena et al. (2018).
Keywords	Biophysics ; Cell biology ; Cancer ; Microscopy ; Science (General) ; Q1-390
Language	English
Publishing date	2021-03-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Measuring microenvironment-tuned nuclear stiffness of cancer cells with atomic force microscopy

Amlan Barai / Alakesh Das / Shamik Sen

STAR Protocols, Vol 2, Iss 1, Pp 100296- (2021)

2021

Abstract: Summary: Quantification of nuclear stiffness is challenging for cells encapsulated within a 3D extracellular matrix (ECM). Here, we describe an experimental setup for measuring microenvironment-dependent tuning of nuclear stiffness using an atomic force ... ...

Abstract	Summary: Quantification of nuclear stiffness is challenging for cells encapsulated within a 3D extracellular matrix (ECM). Here, we describe an experimental setup for measuring microenvironment-dependent tuning of nuclear stiffness using an atomic force microscope (AFM). In our setup, ECM-coated polyacrylamide hydrogels mimic the stiffness of the microenvironment, enabling the measurement of nuclear stiffness using an AFM probe in live cancer cells.For complete details on the use and execution of this protocol, please refer to Das et al. (2019) (https://doi.org/10.1016/j.matbio.2019.01.001).
Keywords	Biophysics ; Atomic force microscopy (AFM) ; Cell biology ; Cancer ; Science (General) ; Q1-390
Language	English
Publishing date	2021-03-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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