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  1. Article ; Online: Correction to "Thiolate DNAzymes on Gold Nanoparticles for Isothermal Amplification and Detection of Mesothelioma-derived Exosomal PD-L1 mRNA".

    Zhand, Sareh / Zhu, Ying / Nazari, Hojjatollah / Sadraeian, Mohammad / Warkiani, Majid Ebrahimi / Jin, Dayong

    Analytical chemistry

    2023  Volume 95, Issue 32, Page(s) 12193

    Language English
    Publishing date 2023-08-03
    Publishing country United States
    Document type Published Erratum
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.3c03312
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Modular DNAzymes-Hydrogel Membrane Carriers for Highly Sensitive Isothermal Cross-Cascade Detection of Pathogenic Bacteria Nucleic Acids.

    Lin, Gungun / Khan, Jawairia Umar / Zhand, Sareh / Liu, Yuan / Jin, Dayong

    Analytical chemistry

    2023  Volume 95, Issue 35, Page(s) 13353–13360

    Abstract: The increasing prevalence of antimicrobial resistance has called for improved diagnostic testing of pathogenic bacteria. However, the development of rapid, cost-effective, and easy-to-use tests for bacterial infections remains a constant challenge. Here, ...

    Abstract The increasing prevalence of antimicrobial resistance has called for improved diagnostic testing of pathogenic bacteria. However, the development of rapid, cost-effective, and easy-to-use tests for bacterial infections remains a constant challenge. Here, we report a class of modular hydrogel membrane carriers incorporated with composite DNAzymes, which enable rapid and highly sensitive detection of pathogenic bacteria gene target analytes. We apply free radical polymerization to incorporate composite DNAzymes, consisting of an RNA substrate component and a DNAzyme component (e.g., 10-23 or 8-17 DNAzymes), into polyethylene glycol diacrylate polymer networks. Initiated by a nucleic acid target acting as an assembly facilitator, multicomponent DNAzymes are combined to cleave the RNA substrate component in the hydrogel carriers, which releases the DNAzyme component to cleave RNA reporter probes to generate fluorescence. We modulate the morphology, composition, and microporous structures of the DNAzyme carriers to achieve quantitative assay performance. We demonstrate a rapid and high-sensitivity detection of
    MeSH term(s) DNA, Catalytic ; Hydrogels ; RNA ; Membranes ; Biological Assay
    Chemical Substances DNA, Catalytic ; Hydrogels ; RNA (63231-63-0)
    Language English
    Publishing date 2023-08-24
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.3c02725
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Thiolate DNAzymes on Gold Nanoparticles for Isothermal Amplification and Detection of Mesothelioma-derived Exosomal PD-L1 mRNA

    Zhand, Sareh / Zhu, Ying / Nazari, Hojjatollah / Sadraeian, Mohammad / Warkiani, Majid Ebrahimi / Jin, Dayong

    Analytical Chemistry. 2023 Jan. 09, v. 95, no. 6 p.3228-3237

    2023  

    Abstract: Catalytic DNAzymes have been used for isothermal amplification and rapid detection of nucleic acids, holding the potential for point-of-care testing applications. However, when Subzymes (universal substrate and DNAzyme) are tethered to the polystyrene ... ...

    Abstract Catalytic DNAzymes have been used for isothermal amplification and rapid detection of nucleic acids, holding the potential for point-of-care testing applications. However, when Subzymes (universal substrate and DNAzyme) are tethered to the polystyrene magnetic microparticles via biotin–streptavidin bonds, the residual free Subzymes are often detached from the microparticle surface, which causes a significant degree of false positives. Here, we attached dithiol-modified Subzyme to gold nanoparticle and improved the limit of detection (LoD) by 200 times compared to that using magnetic microparticles. As a proof of concept, we applied our new method for the detection of exosomal programed cell-death ligand 1 (PD-L1) RNA. As the classical immune checkpoint, molecule PD-L1, found in small extracellular vesicles (sEVs, traditionally called exosomes), can reflect the antitumor immune response for predicting immunotherapy response. We achieved the LoD as low as 50 fM in detecting both the RNA homologous to the PD-L1 gene and exosomal PD-L1 RNAs extracted from epithelioid and nonepithelioid subtypes of mesothelioma cell lines, which only takes 8 min of reaction time. As the first application of isothermal DNAzymes for detecting exosomal PD-L1 RNA, this work suggests new point-of-care testing potentials toward clinical translations.
    Keywords RNA ; analytical chemistry ; cell death ; detection limit ; exosomes ; genes ; immune response ; immunotherapy ; ligands ; magnetism ; mesothelioma ; microparticles ; nanogold ; point-of-care systems ; polystyrenes ; rapid methods
    Language English
    Dates of publication 2023-0109
    Size p. 3228-3237.
    Publishing place American Chemical Society
    Document type Article ; Online
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.2c04046
    Database NAL-Catalogue (AGRICOLA)

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  4. Article ; Online: A hybridized mechano-electroporation technique for efficient immune cell engineering.

    Morshedi Rad, Dorsa / Hansen, William P / Zhand, Sareh / Cranfield, Charles / Ebrahimi Warkiani, Majid

    Journal of advanced research

    2023  

    Abstract: Immune cell engineering, which involves genetic modification of T cells, natural killer cells, and macrophages, is shifting the paradigm in immunotherapy for treating hematologic malignancies. These modified cells can be viewed as living drugs and offer ... ...

    Abstract Immune cell engineering, which involves genetic modification of T cells, natural killer cells, and macrophages, is shifting the paradigm in immunotherapy for treating hematologic malignancies. These modified cells can be viewed as living drugs and offer advantages, including dynamic functionality, active local trafficking, and boosting the immune system while recognizing and eliminating malignant cells. Among the current technologies employed for the modification of immune cell functions, electroporation stands as a predominant approach, but it suffers from heterogeneity arising from the treatment of a bulk population of immune cells during the manufacturing procedures. To address this challenge of the field, here we present a hybrid approach to induce consecutive gentle mechanical and electric shocks. This approach enhances the treatment homogeneity and improves outcomes in difficult-to-load immune cells. The hybrid approach aims to enhance the treatment homogeneity by passing individual immune cells through a microengineered filter membrane with micropores smaller than the cell diameter. This facilitates the creation of transient pores in the cell membrane, followed by efficient delivery of biomolecules through the complementary use of a gentle electric shock. Using this hybrid mechano-electroporation (HMEP) system, we could successfully deliver fluorescein isothiocyanate (FITC) dextran molecules from the smallest (4 kDa) to the largest (2000 kDa) size and EGFP expressing plasmid DNA into different immune cell types. We also provide insight into the delivery performance of the HMEP system in comparison with the benchtop electroporation since both methods hinge on membrane disruption as their permeabilization mechanism. Immune cells treated with the HMEP protocol demonstrated higher delivery efficiencies while maintaining cell viability compared to those experiencing conventional electroporation. Therefore, membrane-based mechanoporation can be a cost-effective and efficient approach to pre-treat the hard-to-deliver immune cells before electroporation, elevating the treatment homogeneity and delivery of exogenous cargoes to a higher level.
    Language English
    Publishing date 2023-11-11
    Publishing country Egypt
    Document type Journal Article
    ZDB-ID 2541849-X
    ISSN 2090-1224 ; 2090-1224
    ISSN (online) 2090-1224
    ISSN 2090-1224
    DOI 10.1016/j.jare.2023.11.009
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Thiolate DNAzymes on Gold Nanoparticles for Isothermal Amplification and Detection of Mesothelioma-derived Exosomal PD-L1 mRNA.

    Zhand, Sareh / Zhu, Ying / Nazari, Hojjatollah / Sadraeian, Mohammad / Warkiani, Majid Ebrahimi / Jin, Dayong

    Analytical chemistry

    2023  Volume 95, Issue 6, Page(s) 3228–3237

    Abstract: Catalytic DNAzymes have been used for isothermal amplification and rapid detection of nucleic acids, holding the potential for point-of-care testing applications. However, when Subzymes (universal substrate and DNAzyme) are tethered to the polystyrene ... ...

    Abstract Catalytic DNAzymes have been used for isothermal amplification and rapid detection of nucleic acids, holding the potential for point-of-care testing applications. However, when Subzymes (universal substrate and DNAzyme) are tethered to the polystyrene magnetic microparticles via biotin-streptavidin bonds, the residual free Subzymes are often detached from the microparticle surface, which causes a significant degree of false positives. Here, we attached dithiol-modified Subzyme to gold nanoparticle and improved the limit of detection (LoD) by 200 times compared to that using magnetic microparticles. As a proof of concept, we applied our new method for the detection of exosomal programed cell-death ligand 1 (PD-L1) RNA. As the classical immune checkpoint, molecule PD-L1, found in small extracellular vesicles (sEVs, traditionally called exosomes), can reflect the antitumor immune response for predicting immunotherapy response. We achieved the LoD as low as 50 fM in detecting both the RNA homologous to the PD-L1 gene and exosomal PD-L1 RNAs extracted from epithelioid and nonepithelioid subtypes of mesothelioma cell lines, which only takes 8 min of reaction time. As the first application of isothermal DNAzymes for detecting exosomal PD-L1 RNA, this work suggests new point-of-care testing potentials toward clinical translations.
    MeSH term(s) Humans ; DNA, Catalytic/metabolism ; Gold/chemistry ; B7-H1 Antigen/genetics ; RNA, Messenger/analysis ; Metal Nanoparticles/chemistry ; Mesothelioma/diagnosis ; Mesothelioma/genetics ; Mesothelioma, Malignant/metabolism ; RNA/analysis ; Exosomes/chemistry
    Chemical Substances DNA, Catalytic ; Gold (7440-57-5) ; B7-H1 Antigen ; RNA, Messenger ; RNA (63231-63-0)
    Language English
    Publishing date 2023-01-09
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.2c04046
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Modular DNAzymes-Hydrogel Membrane Carriers for Highly Sensitive Isothermal Cross-Cascade Detection of Pathogenic Bacteria Nucleic Acids

    Lin, Gungun / Khan, Jawairia Umar / Zhand, Sareh / Liu, Yuan / Jin, Dayong

    Analytical Chemistry. 2023 Aug. 24, v. 95, no. 35 p.13353-13360

    2023  

    Abstract: The increasing prevalence of antimicrobial resistance has called for improved diagnostic testing of pathogenic bacteria. However, the development of rapid, cost-effective, and easy-to-use tests for bacterial infections remains a constant challenge. Here, ...

    Abstract The increasing prevalence of antimicrobial resistance has called for improved diagnostic testing of pathogenic bacteria. However, the development of rapid, cost-effective, and easy-to-use tests for bacterial infections remains a constant challenge. Here, we report a class of modular hydrogel membrane carriers incorporated with composite DNAzymes, which enable rapid and highly sensitive detection of pathogenic bacteria gene target analytes. We apply free radical polymerization to incorporate composite DNAzymes, consisting of an RNA substrate component and a DNAzyme component (e.g., 10–23 or 8–17 DNAzymes), into polyethylene glycol diacrylate polymer networks. Initiated by a nucleic acid target acting as an assembly facilitator, multicomponent DNAzymes are combined to cleave the RNA substrate component in the hydrogel carriers, which releases the DNAzyme component to cleave RNA reporter probes to generate fluorescence. We modulate the morphology, composition, and microporous structures of the DNAzyme carriers to achieve quantitative assay performance. We demonstrate a rapid and high-sensitivity detection of C. trachomatis gene target analytes as low as 50 fM in a short assay time of 25 min. The work represents a crucial step forward in the development of a generic, isothermal, and protein enzyme-free pathogenic bacteria testing platform technology.
    Keywords RNA ; analytical chemistry ; antibiotic resistance ; chemical species ; cost effectiveness ; fluorescence ; free radicals ; genes ; hydrogels ; polyethylene glycol ; polymerization ; porous media
    Language English
    Dates of publication 2023-0824
    Size p. 13353-13360.
    Publishing place American Chemical Society
    Document type Article ; Online
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.3c02725
    Database NAL-Catalogue (AGRICOLA)

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  7. Article ; Online: Affibody Functionalized Beads for the Highly Sensitive Detection of Cancer Cell-Derived Exosomes.

    Sayyadi, Nima / Zhand, Sareh / Razavi Bazaz, Sajad / Warkiani, Majid Ebrahimi

    International journal of molecular sciences

    2021  Volume 22, Issue 21

    Abstract: Exosomes belong to the class of extracellular vesicles of endocytic origin, which are regarded as a promising source of cancer biomarkers in liquid biopsy. As a result, an accurate, sensitive, and specific quantification of these nano-sized particles is ... ...

    Abstract Exosomes belong to the class of extracellular vesicles of endocytic origin, which are regarded as a promising source of cancer biomarkers in liquid biopsy. As a result, an accurate, sensitive, and specific quantification of these nano-sized particles is of significant importance. Affinity-based approaches are recognized as the most valuable technique for exosome isolation and characterization. Indeed, Affibody biomolecules are a type of protein scaffold engineered with small size and enjoy the features of high thermal stability, affinity, and specificity. While the utilization of antibodies, aptamers, and other biologically active substances for exosome detection has been reported widely, there are no reports describing Affibody molecules' usage for exosome detection. In this study, for the first time, we have proposed a novel strategy of using Affibody functionalized microbeads (AffiBeads) for exosome detection with a high degree of efficiency. As a proof-of-concept, anti-EGFR-AffiBeads were fabricated and applied to capture and detect human lung A549 cancer cell-derived EGFR-positive exosomes using flow cytometry and fluorescent microscopy. Moreover, the capture efficiency of the AffiBeads were compared with its counterpart antibody. Our results showed that the Affibody probe had a detection limit of 15.6 ng exosomes per mL (~12 exosomes per AffiBead). The approach proposed in the current study can be used for sensitive detection of low expression level markers on tumor-derived exosomes, providing a basis for early-stage cancer diagnosis.
    MeSH term(s) Antibodies, Monoclonal/chemistry ; Biomarkers, Tumor/immunology ; Biomarkers, Tumor/metabolism ; Cell Line, Tumor ; Early Detection of Cancer/methods ; ErbB Receptors/metabolism ; Exosomes/metabolism ; Exosomes/pathology ; Extracellular Vesicles/metabolism ; Humans ; Liquid Biopsy/methods ; Neoplasms/diagnosis ; Neoplasms/metabolism
    Chemical Substances Antibodies, Monoclonal ; Biomarkers, Tumor ; EGFR protein, human (EC 2.7.10.1) ; ErbB Receptors (EC 2.7.10.1)
    Language English
    Publishing date 2021-11-06
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms222112014
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Affibody Functionalized Beads for the Highly Sensitive Detection of Cancer Cell-Derived Exosomes

    Nima Sayyadi / Sareh Zhand / Sajad Razavi Bazaz / Majid Ebrahimi Warkiani

    International Journal of Molecular Sciences, Vol 22, Iss 12014, p

    2021  Volume 12014

    Abstract: Exosomes belong to the class of extracellular vesicles of endocytic origin, which are regarded as a promising source of cancer biomarkers in liquid biopsy. As a result, an accurate, sensitive, and specific quantification of these nano-sized particles is ... ...

    Abstract Exosomes belong to the class of extracellular vesicles of endocytic origin, which are regarded as a promising source of cancer biomarkers in liquid biopsy. As a result, an accurate, sensitive, and specific quantification of these nano-sized particles is of significant importance. Affinity-based approaches are recognized as the most valuable technique for exosome isolation and characterization. Indeed, Affibody biomolecules are a type of protein scaffold engineered with small size and enjoy the features of high thermal stability, affinity, and specificity. While the utilization of antibodies, aptamers, and other biologically active substances for exosome detection has been reported widely, there are no reports describing Affibody molecules’ usage for exosome detection. In this study, for the first time, we have proposed a novel strategy of using Affibody functionalized microbeads (AffiBeads) for exosome detection with a high degree of efficiency. As a proof-of-concept, anti-EGFR-AffiBeads were fabricated and applied to capture and detect human lung A549 cancer cell-derived EGFR-positive exosomes using flow cytometry and fluorescent microscopy. Moreover, the capture efficiency of the AffiBeads were compared with its counterpart antibody. Our results showed that the Affibody probe had a detection limit of 15.6 ng exosomes per mL (~12 exosomes per AffiBead). The approach proposed in the current study can be used for sensitive detection of low expression level markers on tumor-derived exosomes, providing a basis for early-stage cancer diagnosis.
    Keywords Affibody ; cancer-derived exosome ; exosome biomarker ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 616
    Language English
    Publishing date 2021-11-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: Pirfenidone reduces immune-suppressive capacity of cancer-associated fibroblasts through targeting CCL17 and TNF-beta.

    Aboulkheyr Es, Hamidreza / Zhand, Sareh / Thiery, Jean Paul / Warkiani, Majid Ebrahimi

    Integrative biology : quantitative biosciences from nano to macro

    2020  Volume 12, Issue 7, Page(s) 188–197

    Abstract: Various factors in the tumor microenvironment (TME) regulate the expression of PD-L1 in carcinoma cells. The cancer-associated fibroblasts (CAFs) play a crucial role in regulating and rewiring TME to enhance their immune suppressive function and to favor ...

    Abstract Various factors in the tumor microenvironment (TME) regulate the expression of PD-L1 in carcinoma cells. The cancer-associated fibroblasts (CAFs) play a crucial role in regulating and rewiring TME to enhance their immune suppressive function and to favor the invasion of the malignant cells. Tumor progression may be retarded by targeting CAFs in the TME. Various studies highlighted the ability of targeting CAF with pirfenidone (PFD), leading to increased efficacy of chemotherapy. However, its potential for the reduction of immune-suppression capacity of CAFs remains to be elusive. Here, we assessed the effect of PFD on the expression of PD-L1 on CAF cells. Besides migration inhibitory effects of PFD on CAFs, the expression level of PD-L1 reduced in CAFs after treatment with PFD. The downstream analysis of released cytokines from CAFs showed that PFD significantly dropped the secretion of CCL17 and TNF-β, where a positive association between PFD-targeted proteins and PD-L1 was observed. These data suggest that the treatment of CAF within TME through the PFD may reduce the acquisition of CAF-mediated invasive and immune-suppressive capacity of breast carcinoma cells.
    MeSH term(s) Antineoplastic Agents/pharmacology ; Antineoplastic Agents/therapeutic use ; B7-H1 Antigen/metabolism ; Breast Neoplasms/drug therapy ; Breast Neoplasms/immunology ; Breast Neoplasms/pathology ; Cancer-Associated Fibroblasts/drug effects ; Cancer-Associated Fibroblasts/immunology ; Cell Line, Tumor ; Cells, Cultured ; Chemokine CCL17/metabolism ; Gene Expression Regulation, Neoplastic ; Humans ; Immunosuppression ; Lymphotoxin-alpha/metabolism ; Neoplasm Invasiveness ; Pyridones/pharmacology ; Pyridones/therapeutic use ; Tumor Microenvironment/drug effects
    Chemical Substances Antineoplastic Agents ; B7-H1 Antigen ; CD274 protein, human ; Chemokine CCL17 ; Lymphotoxin-alpha ; Pyridones ; pirfenidone (D7NLD2JX7U)
    Language English
    Publishing date 2020-07-07
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2480063-6
    ISSN 1757-9708 ; 1757-9694
    ISSN (online) 1757-9708
    ISSN 1757-9694
    DOI 10.1093/intbio/zyaa014
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: A 3D-printed microfluidic platform for simulating the effects of CPAP on the nasal epithelium.

    Shrestha, Jesus / Ryan, Sean Thomas / Mills, Oliver / Zhand, Sareh / Razavi Bazaz, Sajad / Hansbro, Philip Michael / Ghadiri, Maliheh / Ebrahimi Warkiani, Majid

    Biofabrication

    2021  Volume 13, Issue 3

    Abstract: Obstructive sleep apnea (OSA) is a chronic disorder that involves a decrease or complete cessation of airflow during sleep. It occurs when the muscles supporting the soft tissues in the throat relax during sleep, causing narrowing or closure of the upper ...

    Abstract Obstructive sleep apnea (OSA) is a chronic disorder that involves a decrease or complete cessation of airflow during sleep. It occurs when the muscles supporting the soft tissues in the throat relax during sleep, causing narrowing or closure of the upper airway. Sleep apnea is a serious medical condition with an increased risk of cardiovascular complications and impaired quality of life. Continuous positive airway pressure (CPAP) is the most effective treatment for moderate to severe cases of OSA and is effective in mild sleep apnea. However, CPAP therapy is associated with the development of several nasal side effects and is inconvenient for the user, leading to low compliance rates. The effects of CPAP treatment on the upper respiratory system, as well as the pathogenesis of side effects, are incompletely understood and not adequately researched. To better understand the effects of CPAP treatment on the upper respiratory system, we developed an
    MeSH term(s) Continuous Positive Airway Pressure ; Microfluidics ; Nasal Mucosa ; Printing, Three-Dimensional ; Quality of Life
    Language English
    Publishing date 2021-04-08
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2500944-8
    ISSN 1758-5090 ; 1758-5082
    ISSN (online) 1758-5090
    ISSN 1758-5082
    DOI 10.1088/1758-5090/abe4c1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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