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  1. Article ; Online: Jammed microgel growth medium prepared by flash-solidification of agarose for 3D cell culture and 3D bioprinting.

    Sreepadmanabh, M / Ganesh, Meenakshi / Bhat, Ramray / Bhattacharjee, Tapomoy

    Biomedical materials (Bristol, England)

    2023  Volume 18, Issue 4

    Abstract: Although cells cultured in three-dimensional (3D) platforms are proven to be beneficial for studying cellular behavior in settings similar to their physiological state, due to the ease, convenience, and accessibility, traditional 2D culturing approaches ... ...

    Abstract Although cells cultured in three-dimensional (3D) platforms are proven to be beneficial for studying cellular behavior in settings similar to their physiological state, due to the ease, convenience, and accessibility, traditional 2D culturing approaches are widely adopted. Jammed microgels are a promising class of biomaterials extensively suited for 3D cell culture, tissue bioengineering, and 3D bioprinting. However, existing protocols for fabricating such microgels either involve complex synthesis steps, long preparation times, or polyelectrolyte hydrogel formulations that sequester ionic elements from the cell growth media. Hence, there is an unmet need for a broadly biocompatible, high-throughput, and easily accessible manufacturing process. We address these demands by introducing a rapid, high-throughput, and remarkably straightforward method to synthesize jammed microgels composed of flash-solidified agarose granules directly prepared in a culture medium of choice. Our jammed growth media are optically transparent, porous, yield stress materials with tunable stiffness and self-healing properties, which makes them ideal for 3D cell culture as well as 3D bioprinting. The charge-neutral and inert nature of agarose make them suitable for culturing various cell types and species, the specific growth media for which do not alter the chemistry of the manufacturing process. Unlike several existing 3D platforms, these microgels are readily compatible with standard techniques such as absorbance-based growth assays, antibiotic selection, RNA extraction, and live cell encapsulation. In effect, we present a versatile, highly accessible, inexpensive, and easily adoptable biomaterial for 3D cell culture and 3D bioprinting. We envision their widespread application not just in routine laboratory settings but also in designing multicellular tissue mimics and dynamic co-culture models of physiological niches.
    MeSH term(s) Microgels ; Sepharose ; Bioprinting/methods ; Hydrogels/chemistry ; Biocompatible Materials/chemistry ; Culture Media ; Cell Culture Techniques, Three Dimensional ; Printing, Three-Dimensional ; Tissue Engineering/methods ; Tissue Scaffolds/chemistry
    Chemical Substances Microgels ; Sepharose (9012-36-6) ; Hydrogels ; Biocompatible Materials ; Culture Media
    Language English
    Publishing date 2023-05-18
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2265222-X
    ISSN 1748-605X ; 1748-6041
    ISSN (online) 1748-605X
    ISSN 1748-6041
    DOI 10.1088/1748-605X/acd315
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: COVID-19: Advances in diagnostic tools, treatment strategies, and vaccine development.

    Sreepadmanabh, M / Sahu, Amit Kumar / Chande, Ajit

    Journal of biosciences

    2021  Volume 45

    Abstract: An unprecedented worldwide spread of the SARS-CoV-2 has imposed severe challenges on healthcare facilities and medical infrastructure. The global research community faces urgent calls for the development of rapid diagnostic tools, effective treatment ... ...

    Abstract An unprecedented worldwide spread of the SARS-CoV-2 has imposed severe challenges on healthcare facilities and medical infrastructure. The global research community faces urgent calls for the development of rapid diagnostic tools, effective treatment protocols, and most importantly, vaccines against the pathogen. Pooling together expertise across broad domains to innovate effective solutions is the need of the hour. With these requirements in mind, in this review, we provide detailed critical accounts on the leading efforts at developing diagnostics tools, therapeutic agents, and vaccine candidates. Importantly, we furnish the reader with a multidisciplinary perspective on how conventional methods like serology and RT-PCR, as well as cutting-edge technologies like CRISPR/Cas and artificial intelligence/machine learning, are being employed to inform and guide such investigations. We expect this narrative to serve a broad audience of both active and aspiring researchers in the field of biomedical sciences and engineering and help inspire radical new approaches towards effective detection, treatment, and prevention of this global pandemic.
    MeSH term(s) Antiviral Agents/chemical synthesis ; Antiviral Agents/therapeutic use ; Artificial Intelligence ; COVID-19/immunology ; COVID-19/prevention & control ; COVID-19/therapy ; COVID-19/virology ; COVID-19 Nucleic Acid Testing/methods ; COVID-19 Vaccines/biosynthesis ; COVID-19 Vaccines/genetics ; CRISPR-Cas Systems ; Disease Management ; Drug Discovery/methods ; Drug Repositioning/methods ; Humans ; Immunization, Passive/methods ; Molecular Diagnostic Techniques ; Molecular Docking Simulation ; Nucleic Acid Amplification Techniques ; Pandemics/prevention & control ; Protein Engineering/methods ; SARS-CoV-2/drug effects ; SARS-CoV-2/immunology ; SARS-CoV-2/pathogenicity ; COVID-19 Serotherapy
    Chemical Substances Antiviral Agents ; COVID-19 Vaccines
    Language English
    Publishing date 2021-01-07
    Publishing country India
    Document type Journal Article ; Review
    ZDB-ID 756157-x
    ISSN 0973-7138 ; 0250-5991
    ISSN (online) 0973-7138
    ISSN 0250-5991
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Investigations into the cancer stem cell niche using in-vitro 3-D tumor models and microfluidics.

    Sreepadmanabh, M / Toley, Bhushan J

    Biotechnology advances

    2018  Volume 36, Issue 4, Page(s) 1094–1110

    Abstract: The concept of Cancer Stem Cells (CSCs) and the CSC Niche/Tumor Microenvironment (TME) as the central driving force behind tumor progression and maintenance has garnered much attention in recent years. Concomitantly, the widespread adoption of 3D tissue ... ...

    Abstract The concept of Cancer Stem Cells (CSCs) and the CSC Niche/Tumor Microenvironment (TME) as the central driving force behind tumor progression and maintenance has garnered much attention in recent years. Concomitantly, the widespread adoption of 3D tissue models, organotypic co-cultures, and the revolutionary microfluidic technology has resulted in a plethora of ground-breaking fundamental discoveries and has enabled investigations which were previously unfeasible. A large number of existing review papers concern themselves with either a broad look at the TME and CSC Niche, or on the studies undertaken on a particular niche component alone. In this article, we attempt to bring out a harmonic, expansive look at the concept of CSCs, the TME, and the various advancements in answering key biological queries enabled by these emerging new technologies. Our primary goal is to present a fundamental understanding of CSCs, as well as the CSC niche, and elucidate note-worthy examples of investigations being carried out with regard to each of the major TME components, along with our insights into the potential for further research. We hope that this serves as an impetus to new, as well as existing researchers in this area, to gain fresh perspectives on the CSC niche, as well as provide them with a glimpse at the kind of progress being made using 3D tumor models and microfluidic devices.
    MeSH term(s) Animals ; Humans ; Mice ; Microfluidic Analytical Techniques ; Models, Biological ; Neoplasms/physiopathology ; Neoplasms/therapy ; Neoplastic Stem Cells ; Tumor Microenvironment
    Language English
    Publishing date 2018-03-17
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 47165-3
    ISSN 1873-1899 ; 0734-9750
    ISSN (online) 1873-1899
    ISSN 0734-9750
    DOI 10.1016/j.biotechadv.2018.03.009
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: SARS-CoV-2: phylogenetic origins, pathogenesis, modes of transmission, and the potential role of nanotechnology.

    Sahu, Amit Kumar / Sreepadmanabh, M / Rai, Mahendra / Chande, Ajit

    Virusdisease

    2021  Volume 32, Issue 1, Page(s) 1–12

    Abstract: The COVID-19 pandemic has elicited a rapid response from the scientific community with significant advances in understanding the causative pathogen (SARS-CoV-2). Mechanisms of viral transmission and pathogenesis, as well as structural and genomic details, ...

    Abstract The COVID-19 pandemic has elicited a rapid response from the scientific community with significant advances in understanding the causative pathogen (SARS-CoV-2). Mechanisms of viral transmission and pathogenesis, as well as structural and genomic details, have been reported, which are essential in guiding containment, treatment, and vaccine development efforts. Here, we present a concise review of the recent research in these domains and an exhaustive analysis of the genomic origins of SARS-CoV-2. Particular emphasis has been placed on the pathology and disease progression of COVID-19 as documented by recent clinical studies, in addition to the characteristic immune responses involved therein. Furthermore, we explore the potential of nanomaterials and nanotechnology to develop diagnostic tools, drug delivery systems, and personal protective equipment design within the ongoing pandemic context. We present this as a ready resource for researchers to gain succinct, up-to-date insights on SARS-CoV-2.
    Language English
    Publishing date 2021-02-22
    Publishing country India
    Document type Journal Article ; Review
    ZDB-ID 2846993-8
    ISSN 2347-3517 ; 2347-3584
    ISSN (online) 2347-3517
    ISSN 2347-3584
    DOI 10.1007/s13337-021-00653-y
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Circular RNA as an Additional Player in the Conflicts Between the Host and the Virus.

    Choudhary, Aditi / Madbhagat, Pratibha / Sreepadmanabh, M / Bhardwaj, Vipin / Chande, Ajit

    Frontiers in immunology

    2021  Volume 12, Page(s) 602006

    Abstract: Circular RNA (circRNA), a relatively new member of the non-coding RNA family, has spurred great interest among researchers following its discovery as a ubiquitous class within the RNA world. Rapid progress in circRNA biology has coincided with its ... ...

    Abstract Circular RNA (circRNA), a relatively new member of the non-coding RNA family, has spurred great interest among researchers following its discovery as a ubiquitous class within the RNA world. Rapid progress in circRNA biology has coincided with its identification in a plethora of diverse roles including regulation of gene expression and probable coding potential, as well as competing interactions with proteins and microRNAs in various pathological conditions. Emerging evidence suggests that circRNAs also function in viral infections. The deregulation of circRNAs during viral infection has prompted investigations into the possibilities of circRNA as a competing endogenous RNA (ceRNA) that modulates response to infection. Recently, viruses have been shown to encode circRNAs with proviral functions, providing a strong impetus for focused efforts to elucidate the networks coaxed by circRNAs during infection. This review elaborates on recent insights gained on the roles of circRNAs during virus infection and immunity.
    MeSH term(s) Animals ; Host-Pathogen Interactions/genetics ; Host-Pathogen Interactions/immunology ; Humans ; Immunity, Innate ; Immunomodulation ; RNA, Circular ; Virus Diseases/genetics ; Virus Diseases/virology
    Chemical Substances RNA, Circular
    Language English
    Publishing date 2021-05-28
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2606827-8
    ISSN 1664-3224 ; 1664-3224
    ISSN (online) 1664-3224
    ISSN 1664-3224
    DOI 10.3389/fimmu.2021.602006
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: COVID-19: Advances in diagnostic tools, treatment strategies, and vaccine development

    Sreepadmanabh, M / Sahu, Amit Kumar / Chande, Ajit

    Journal of biosciences. 2020 Dec., v. 45, no. 1

    2020  

    Abstract: An unprecedented worldwide spread of the SARS-CoV-2 has imposed severe challenges on healthcare facilities and medical infrastructure. The global research community faces urgent calls for the development of rapid diagnostic tools, effective treatment ... ...

    Abstract An unprecedented worldwide spread of the SARS-CoV-2 has imposed severe challenges on healthcare facilities and medical infrastructure. The global research community faces urgent calls for the development of rapid diagnostic tools, effective treatment protocols, and most importantly, vaccines against the pathogen. Pooling together expertise across broad domains to innovate effective solutions is the need of the hour. With these requirements in mind, in this review, we provide detailed critical accounts on the leading efforts at developing diagnostics tools, therapeutic agents, and vaccine candidates. Importantly, we furnish the reader with a multidisciplinary perspective on how conventional methods like serology and RT-PCR, as well as cutting-edge technologies like CRISPR/Cas and artificial intelligence/machine learning, are being employed to inform and guide such investigations. We expect this narrative to serve a broad audience of both active and aspiring researchers in the field of biomedical sciences and engineering and help inspire radical new approaches towards effective detection, treatment, and prevention of this global pandemic.
    Keywords Coronavirus infections ; artificial intelligence ; biomedical research ; detection ; diagnostic techniques ; engineering ; health services ; infrastructure ; pandemic ; pathogens ; protocols ; researchers ; serology ; solutions ; therapeutics ; vaccine development ; vaccines
    Language English
    Dates of publication 2020-12
    Size p. 148.
    Publishing place Springer India
    Document type Article
    Note NAL-light ; Review
    ZDB-ID 756157-x
    ISSN 0973-7138 ; 0250-5991
    ISSN (online) 0973-7138
    ISSN 0250-5991
    DOI 10.1007/s12038-020-00114-6
    Database NAL-Catalogue (AGRICOLA)

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  7. Article: Investigations into the cancer stem cell niche using in-vitro 3-D tumor models and microfluidics

    Sreepadmanabh, M / Toley, Bhushan J

    Biotechnology advances. 2018 July, Aug., v. 36, no. 4

    2018  

    Abstract: The concept of Cancer Stem Cells (CSCs) and the CSC Niche/Tumor Microenvironment (TME) as the central driving force behind tumor progression and maintenance has garnered much attention in recent years. Concomitantly, the widespread adoption of 3D tissue ... ...

    Abstract The concept of Cancer Stem Cells (CSCs) and the CSC Niche/Tumor Microenvironment (TME) as the central driving force behind tumor progression and maintenance has garnered much attention in recent years. Concomitantly, the widespread adoption of 3D tissue models, organotypic co-cultures, and the revolutionary microfluidic technology has resulted in a plethora of ground-breaking fundamental discoveries and has enabled investigations which were previously unfeasible. A large number of existing review papers concern themselves with either a broad look at the TME and CSC Niche, or on the studies undertaken on a particular niche component alone. In this article, we attempt to bring out a harmonic, expansive look at the concept of CSCs, the TME, and the various advancements in answering key biological queries enabled by these emerging new technologies. Our primary goal is to present a fundamental understanding of CSCs, as well as the CSC niche, and elucidate note-worthy examples of investigations being carried out with regard to each of the major TME components, along with our insights into the potential for further research. We hope that this serves as an impetus to new, as well as existing researchers in this area, to gain fresh perspectives on the CSC niche, as well as provide them with a glimpse at the kind of progress being made using 3D tumor models and microfluidic devices.
    Keywords coculture ; microfluidic technology ; models ; neoplasm progression ; neoplasms ; stem cells
    Language English
    Dates of publication 2018-07
    Size p. 1094-1110.
    Publishing place Elsevier Inc.
    Document type Article
    ZDB-ID 47165-3
    ISSN 0734-9750
    ISSN 0734-9750
    DOI 10.1016/j.biotechadv.2018.03.009
    Database NAL-Catalogue (AGRICOLA)

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  8. Article ; Online: SARS CoV-2 Nucleoprotein Enhances the Infectivity of Lentiviral Spike Particles.

    Mishra, Tarun / Sreepadmanabh, M / Ramdas, Pavitra / Sahu, Amit Kumar / Kumar, Atul / Chande, Ajit

    Frontiers in cellular and infection microbiology

    2021  Volume 11, Page(s) 663688

    Abstract: The establishment of SARS CoV-2 spike-pseudotyped lentiviral (LV) systems has enabled the rapid identification of entry inhibitors and neutralizing agents, alongside allowing for the study of this emerging pathogen in BSL-2 level facilities. While such ... ...

    Abstract The establishment of SARS CoV-2 spike-pseudotyped lentiviral (LV) systems has enabled the rapid identification of entry inhibitors and neutralizing agents, alongside allowing for the study of this emerging pathogen in BSL-2 level facilities. While such frameworks recapitulate the cellular entry process in ACE2+ cells, they are largely unable to factor in supplemental contributions by other SARS CoV-2 genes. To address this, we performed an unbiased ORF screen and identified the nucleoprotein (N) as a potent enhancer of spike-pseudotyped LV particle infectivity. We further demonstrate that the spike protein is better enriched in virions when the particles are produced in the presence of N protein. This enrichment of spike renders LV particles more infectious as well as less vulnerable to the neutralizing effects of a human IgG-Fc fused ACE2 microbody. Importantly, this improvement in infectivity is observed with both wild-type spike protein as well as the D614G mutant. Our results hold important implications for the design and interpretation of similar LV pseudotyping-based studies.
    MeSH term(s) COVID-19 ; Humans ; Nucleoproteins/genetics ; SARS Virus/genetics ; SARS-CoV-2 ; Spike Glycoprotein, Coronavirus/genetics
    Chemical Substances Nucleoproteins ; Spike Glycoprotein, Coronavirus
    Language English
    Publishing date 2021-04-23
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2619676-1
    ISSN 2235-2988 ; 2235-2988
    ISSN (online) 2235-2988
    ISSN 2235-2988
    DOI 10.3389/fcimb.2021.663688
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: SARS-CoV-2: phylogenetic origins, pathogenesis, modes of transmission, and the potential role of nanotechnology

    Sahu, Amit Kumar / Sreepadmanabh, M / Rai, Mahendra / Chande, Ajit

    Virusdisease. 2021 Mar., v. 32, no. 1

    2021  

    Abstract: The COVID-19 pandemic has elicited a rapid response from the scientific community with significant advances in understanding the causative pathogen (SARS-CoV-2). Mechanisms of viral transmission and pathogenesis, as well as structural and genomic details, ...

    Abstract The COVID-19 pandemic has elicited a rapid response from the scientific community with significant advances in understanding the causative pathogen (SARS-CoV-2). Mechanisms of viral transmission and pathogenesis, as well as structural and genomic details, have been reported, which are essential in guiding containment, treatment, and vaccine development efforts. Here, we present a concise review of the recent research in these domains and an exhaustive analysis of the genomic origins of SARS-CoV-2. Particular emphasis has been placed on the pathology and disease progression of COVID-19 as documented by recent clinical studies, in addition to the characteristic immune responses involved therein. Furthermore, we explore the potential of nanomaterials and nanotechnology to develop diagnostic tools, drug delivery systems, and personal protective equipment design within the ongoing pandemic context. We present this as a ready resource for researchers to gain succinct, up-to-date insights on SARS-CoV-2.
    Keywords COVID-19 infection ; Severe acute respiratory syndrome coronavirus 2 ; disease progression ; drugs ; equipment design ; genomics ; pandemic ; pathogenesis ; pathogens ; phylogeny ; safety equipment ; vaccine development ; virus transmission
    Language English
    Dates of publication 2021-03
    Size p. 1-12.
    Publishing place Springer India
    Document type Article
    Note NAL-AP-2-clean ; Review
    ZDB-ID 2846993-8
    ISSN 2347-3517 ; 2347-3584
    ISSN (online) 2347-3517
    ISSN 2347-3584
    DOI 10.1007/s13337-021-00653-y
    Database NAL-Catalogue (AGRICOLA)

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  10. Article ; Online: SARS CoV-2 nucleoprotein enhances the infectivity of lentiviral spike particles

    Mishra, Tarun / M, Sreepadmanabh / Ramdas, Pavitra / Sahu, Amit Kumar / Kumar, Atul / Chande, Ajit

    bioRxiv

    Abstract: The establishment of SARS CoV-2 spike-pseudotyped lentiviral (LV) systems has enabled the rapid identification of entry inhibitors and neutralizing agents, alongside allowing for the study of this emerging pathogen in BSL-2 level facilities. While such ... ...

    Abstract The establishment of SARS CoV-2 spike-pseudotyped lentiviral (LV) systems has enabled the rapid identification of entry inhibitors and neutralizing agents, alongside allowing for the study of this emerging pathogen in BSL-2 level facilities. While such frameworks recapitulate the cellular entry process in ACE2+ cells, they are largely unable to factor in supplemental contributions by other SARS CoV-2 genes. To address this, we performed an unbiased ORF screen and identified the nucleoprotein (N) as a potent enhancer of spike-pseudotyped LV particle infectivity. We further demonstrate that this augmentation by N renders LV spike particles less vulnerable to the neutralizing effects of a human IgG-Fc fused ACE2 microbody. Biochemical analysis revealed that the spike protein is better enriched in virions when the particles are produced in the presence of SARS CoV-2 nucleoprotein. Importantly, this improvement in infectivity is achieved without a concomitant increase in sensitivity towards RBD binding-based neutralization. Our results hold important implications for the design and interpretation of similar LV pseudotyping-based studies.
    Keywords covid19
    Language English
    Publishing date 2021-02-15
    Publisher Cold Spring Harbor Laboratory
    Document type Article ; Online
    DOI 10.1101/2021.02.11.430757
    Database COVID19

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