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  1. Article ; Online: Development of an HPLC-PDA Method for the Simultaneous Estimation of Three Antibiotics in Pharmaceutical Formulations and Bovine Milk and Health Risk Assessment.

    Uddin, Mohammad Nasir / Hasnaine, Asif / Haque, Md Sajedul / Das, Suman / Uddin, Monir / Chakraborty, Dipankar / Mostafa, Mohammad

    Journal of food protection

    2024  Volume 87, Issue 6, Page(s) 100279

    Abstract: A simple new, rapid, sensitive, and cost-effective HPLC-PDA method was developed and validated for the determination of tetracycline (TC), oxytetracycline (OTC), and ciprofloxacin (CIP) simultaneously. Chromatographic separations were carried out using a ...

    Abstract A simple new, rapid, sensitive, and cost-effective HPLC-PDA method was developed and validated for the determination of tetracycline (TC), oxytetracycline (OTC), and ciprofloxacin (CIP) simultaneously. Chromatographic separations were carried out using a reversed-phase Shim-pack GIS C18 column (4.60 × 250.00 mm; 5.00 µm) at 30°C. Oxalic acid (0.05 M), acetonitrile, and methanol were used as mobile phase under gradient elution conditions at the flow rate of 1.50 mL min
    MeSH term(s) Milk/chemistry ; Chromatography, High Pressure Liquid ; Animals ; Anti-Bacterial Agents/analysis ; Cattle ; Risk Assessment ; Food Contamination/analysis ; Humans ; Reproducibility of Results ; Oxytetracycline/analysis
    Chemical Substances Anti-Bacterial Agents ; Oxytetracycline (X20I9EN955)
    Language English
    Publishing date 2024-04-15
    Publishing country United States
    Document type Journal Article
    ZDB-ID 243284-5
    ISSN 1944-9097 ; 0362-028X
    ISSN (online) 1944-9097
    ISSN 0362-028X
    DOI 10.1016/j.jfp.2024.100279
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Bonn / Germany

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  2. Article ; Online: Comparative proteomic analysis to annotate the structural and functional association of the hypothetical proteins of S. maltophilia k279a and predict potential T and B cell targets for vaccination.

    Ezaj, Md Muzahid Ahmed / Haque, Md Sajedul / Syed, Shifath Bin / Khan, Md Shakil Ahmed / Ahmed, Kazi Rejvee / Khatun, Mst Tania / Nayeem, S M Abdul / Rizvi, Golam Rosul / Al-Forkan, Mohammad / Khaleda, Laila

    PloS one

    2021  Volume 16, Issue 5, Page(s) e0252295

    Abstract: Stenotrophomonas maltophilia is a multidrug-resistant bacterium with no precise clinical treatment. This bacterium can be a vital cause for death and different organ failures in immune-compromised, immune-competent, and long-time hospitalized patients. ... ...

    Abstract Stenotrophomonas maltophilia is a multidrug-resistant bacterium with no precise clinical treatment. This bacterium can be a vital cause for death and different organ failures in immune-compromised, immune-competent, and long-time hospitalized patients. Extensive quorum sensing capability has become a challenge to develop new drugs against this pathogen. Moreover, the organism possesses about 789 proteins which function, structure, and pathogenesis remain obscured. In this piece of work, we tried to enlighten the aforementioned sectors using highly reliable bioinformatics tools validated by the scientific community. At first, the whole proteome sequence of the organism was retrieved and stored. Then we separated the hypothetical proteins and searched for the conserved domain with a high confidence level and multi-server validation, which resulted in 24 such proteins. Furthermore, all of their physical and chemical characterizations were performed, such as theoretical isoelectric point, molecular weight, GRAVY value, and many more. Besides, the subcellular localization, protein-protein interactions, functional motifs, 3D structures, antigenicity, and virulence factors were also evaluated. As an extension of this work, 'RTFAMSSER' and 'PAAPQPSAS' were predicted as potential T and B cell epitopes, respectively. We hope our findings will help in better understating the pathogenesis and smoothen the way to the cure.
    MeSH term(s) Bacterial Proteins/immunology ; Bacterial Vaccines/immunology ; Epitopes, B-Lymphocyte/immunology ; Epitopes, T-Lymphocyte/immunology ; Gram-Negative Bacterial Infections/immunology ; Gram-Negative Bacterial Infections/microbiology ; Humans ; Proteome/immunology ; Stenotrophomonas maltophilia/immunology ; Virulence Factors/immunology
    Chemical Substances Bacterial Proteins ; Bacterial Vaccines ; Epitopes, B-Lymphocyte ; Epitopes, T-Lymphocyte ; Proteome ; Virulence Factors
    Language English
    Publishing date 2021-05-27
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0252295
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Whole proteome screening and identification of potential epitopes of SARS-CoV-2 for vaccine design-an immunoinformatic, molecular docking and molecular dynamics simulation accelerated robust strategy.

    Ezaj, Md Muzahid Ahmed / Junaid, Md / Akter, Yeasmin / Nahrin, Afsana / Siddika, Aysha / Afrose, Syeda Samira / Nayeem, S M Abdul / Haque, Md Sajedul / Moni, Mohammad Ali / Hosen, S M Zahid

    Journal of biomolecular structure & dynamics

    2021  Volume 40, Issue 14, Page(s) 6477–6502

    Abstract: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the most cryptic pandemic outbreak of the 21st century, has gripped more than 1.8 million people to death and infected almost eighty six million. As it is a new variant of SARS, there is no ... ...

    Abstract Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the most cryptic pandemic outbreak of the 21st century, has gripped more than 1.8 million people to death and infected almost eighty six million. As it is a new variant of SARS, there is no approved drug or vaccine available against this virus. This study aims to predict some promising cytotoxic T lymphocyte epitopes in the SARS-CoV-2 proteome utilizing immunoinformatic approaches. Firstly, we identified 21 epitopes from 7 different proteins of SARS-CoV-2 inducing immune response and checked for allergenicity and conservancy. Based on these factors, we selected the top three epitopes, namely KAYNVTQAF, ATSRTLSYY, and LTALRLCAY showing functional interactions with the maximum number of MHC alleles and no allergenicity. Secondly, the 3D model of selected epitopes and HLA-A*29:02 were built and Molecular Docking simulation was performed. Most interestingly, the best two epitopes predicted by docking are part of two different structural proteins of SARS-CoV-2, namely Membrane Glycoprotein (ATSRTLSYY) and Nucleocapsid Phosphoprotein (KAYNVTQAF), which are generally target of choice for vaccine designing. Upon Molecular Docking, interactions between selected epitopes and HLA-A*29:02 were further validated by 50 ns Molecular Dynamics (MD) simulation. Analysis of RMSD, Rg, SASA, number of hydrogen bonds, RMSF, MM-PBSA, PCA, and DCCM from MD suggested that ATSRTLSYY is the most stable and promising epitope than KAYNVTQAF epitope. Moreover, we also identified B-cell epitopes for each of the antigenic proteins of SARS CoV-2. Findings of our work will be a good resource for wet lab experiments and will lessen the timeline for vaccine construction.Communicated by Ramaswamy H. Sarma.
    MeSH term(s) COVID-19/prevention & control ; COVID-19 Vaccines ; Epitopes, B-Lymphocyte ; Epitopes, T-Lymphocyte ; Humans ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Proteome ; SARS-CoV-2 ; Spike Glycoprotein, Coronavirus/chemistry ; Vaccines, Subunit ; Viral Vaccines/chemistry
    Chemical Substances COVID-19 Vaccines ; Epitopes, B-Lymphocyte ; Epitopes, T-Lymphocyte ; Proteome ; Spike Glycoprotein, Coronavirus ; Vaccines, Subunit ; Viral Vaccines ; spike protein, SARS-CoV-2
    Language English
    Publishing date 2021-02-15
    Publishing country England
    Document type Journal Article
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2021.1886171
    Database MEDical Literature Analysis and Retrieval System OnLINE

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