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  1. Article ; Online: Factors determining preventive practices of the healthcare workers regarding COVID-19 in Bangladesh.

    Shah, Sm Tanjil / Akter, Kulsuma / Hasan, Md Shazid / Chakrovarty, Tanay / Sakib, Najmuj / Islam, Md Tanvir

    Health science reports

    2022  Volume 5, Issue 1, Page(s) e484

    Abstract: Purpose: Identifying the factors influencing the preventive practices of the healthcare workers (HCWs) is crucial during the ongoing coronavirus disease 2019 (COVID-19) because the HCWs are exposed to unparalleled levels of risks. Such concern is ... ...

    Abstract Purpose: Identifying the factors influencing the preventive practices of the healthcare workers (HCWs) is crucial during the ongoing coronavirus disease 2019 (COVID-19) because the HCWs are exposed to unparalleled levels of risks. Such concern is starting to be explored worldwide although there is only a single study available in Bangladesh with a limited scope of explorations of the domain. Therefore, this study aimed to identify the factors determining better preventive practices of HCWs toward COVID-19.
    Materials and methods: A cross-sectional one-to-one survey was carried out using a validated questionnaire from December 15, 2020 to March 15, 2021 among a sample of 640 HCWs from Khulna, a southwestern division of Bangladesh, consisting of ten districts. The measures included socio-demographics, knowledge, attitude, and preventive practices related information. A binary logistic regression analysis was conducted to identify factors determining preventive practices of HCWs toward COVID-19.
    Results: More than half of the respondents (62%) were following better preventive practices. Besides, around 70% of them had better knowledge and attitudes toward the disease. Regression analysis showed a number of major determining factors of the HCWs' better preventive practices including being a nurse or other professionals (ie, radiologists and pathologists), being graduates, working in coronavirus isolation units, managing COVID-19 patients, having previous training, and having better attitudes toward COVID-19.
    Conclusion: The findings confirmed that the HCWs were generally practicing preventive manners although these trends followed were not at the standard level. So, providing guidance and information from authentic sources and organizing proper training could possibly enhance the preventive behavior in managing COVID-19 patients.
    Language English
    Publishing date 2022-01-07
    Publishing country United States
    Document type Journal Article
    ISSN 2398-8835
    ISSN (online) 2398-8835
    DOI 10.1002/hsr2.484
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: A rapid and cost-effective multiplex ARMS-PCR method for the simultaneous genotyping of the circulating SARS-CoV-2 phylogenetic clades.

    Islam, Mohammad Tanvir / Alam, Asm Rubayet Ul / Sakib, Najmuj / Hasan, Mohammad Shazid / Chakrovarty, Tanay / Tawyabur, Mohammad / Islam, Ovinu Kibria / Al-Emran, Hassan M / Jahid, Mohammad Iqbal Kabir / Anwar Hossain, Mohammad

    Journal of medical virology

    2021  Volume 93, Issue 5, Page(s) 2962–2970

    Abstract: Tracing the globally circulating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) phylogenetic clades by high-throughput sequencing is costly, time-consuming, and labor-intensive. We here propose a rapid, simple, and cost-effective ... ...

    Abstract Tracing the globally circulating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) phylogenetic clades by high-throughput sequencing is costly, time-consuming, and labor-intensive. We here propose a rapid, simple, and cost-effective amplification refractory mutation system (ARMS)-based multiplex reverse-transcription polymerase chain reaction (PCR) assay to identify six distinct phylogenetic clades: S, L, V, G, GH, and GR. Our multiplex PCR is designed in a mutually exclusive way to identify V-S and G-GH-GR clade variants separately. The pentaplex assay included all five variants and the quadruplex comprised of the triplex variants alongside either V or S clade mutations that created two separate subsets. The procedure was optimized with 0.2-0.6 µM primer concentration, 56-60°C annealing temperature, and 3-5 ng/µl complementary DNA to validate on 24 COVID-19-positive samples. Targeted Sanger sequencing further confirmed the presence of the clade-featured mutations with another set of primers. This multiplex ARMS-PCR assay is a fast, low-cost alternative and convenient to discriminate the circulating phylogenetic clades of SARS-CoV-2.
    MeSH term(s) COVID-19/diagnosis ; COVID-19/virology ; COVID-19 Nucleic Acid Testing/economics ; COVID-19 Nucleic Acid Testing/methods ; Cost-Benefit Analysis ; Genotype ; Humans ; Multiplex Polymerase Chain Reaction ; Mutation ; Phylogeny ; Reproducibility of Results ; SARS-CoV-2/classification ; SARS-CoV-2/genetics ; SARS-CoV-2/isolation & purification
    Language English
    Publishing date 2021-02-01
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 752392-0
    ISSN 1096-9071 ; 0146-6615
    ISSN (online) 1096-9071
    ISSN 0146-6615
    DOI 10.1002/jmv.26818
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Initial reports of the SARS-CoV-2 Delta variant (B.1.617.2 lineage) in Bangladeshi patients: Risks of cross-border transmission from India.

    Hasan, Md Shazid / Islam, Md Tanvir / Alam, A S M Rubayet Ul / Sarkar, Shovon Lal / Rahman, M Shaminur / Islam, Ovinu Kibria / Setu, Md Ali Ahsan / Chakrovarty, Tanay / Al-Emran, Hassan M / Jahid, Iqbal Kabir / Hossain, M Anwar

    Health science reports

    2021  Volume 4, Issue 3, Page(s) e366

    Language English
    Publishing date 2021-09-08
    Publishing country United States
    Document type Journal Article
    ISSN 2398-8835
    ISSN (online) 2398-8835
    DOI 10.1002/hsr2.366
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: A rapid and cost-effective multiplex ARMS-PCR method for the simultaneous genotyping of the circulating SARS-CoV-2 phylogenetic clades

    Islam, Md. Tanvir / Alam, A. S. M. Rubayet Ul / Sakib, Najmuj / Hasan, Md. Shazid / Chakrovarty, Tanay / Tawyabur, Md. / Islam, Ovinu Kibria / Al-Emran, Hassan M. / Jahid, Iqbal Kabir / Hossain, M. Anwar

    medRxiv

    Abstract: Tracing the globally circulating SARS-CoV-2 mutants is essential for the outbreak alerts and far-reaching epidemiological surveillance. The available technique to identify the phylogenetic clades through high-throughput sequencing is costly, time- ... ...

    Abstract Tracing the globally circulating SARS-CoV-2 mutants is essential for the outbreak alerts and far-reaching epidemiological surveillance. The available technique to identify the phylogenetic clades through high-throughput sequencing is costly, time-consuming, and labor-intensive that hinders the viral genotyping in low-income countries. Here, we propose a rapid, simple and cost-effective amplification-refractory mutation system (ARMS)-based multiplex reverse-transcriptase PCR assay to identify six distinct phylogenetic clades: S, L, V, G, GH, and GR. This approach is applied on 24 COVID-19 positive samples as confirmed by CDC approved real-time PCR assay for SARS-CoV-2. Our multiplex PCR is designed in a mutually exclusive way to identify V-S and G-GH-GR clade variants separately. The pentaplex assay included all five variants and the quadruplex comprised of the triplex variants alongside either V or S clade mutations that created two separate subsets. The procedure was optimized in the primer concentration (0.2-0.6 μM) and annealing temperature (56-60°C) of PCR using 3-5 ng/μl cDNA template synthesized upon random- and oligo(dT)-primer based reverse transcription. The different primer concentration for the triplex and quadruplex adjusted to different strengths ensured an even amplification with a maximum resolution of all targeted amplicons. The targeted Sanger sequencing further confirmed the presence of the clade-featured mutations with another set of our designed primers. This multiplex ARMS-PCR assay is sample, cost-effective, and convenient that can successfully discriminate the circulating phylogenetic clades of SARS-CoV-2.
    Keywords covid19
    Language English
    Publishing date 2020-10-13
    Publisher Cold Spring Harbor Laboratory Press
    Document type Article ; Online
    DOI 10.1101/2020.10.08.20209692
    Database COVID19

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