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  1. Article: Identification of the first Zika virus disease case following the detection in Aedes aegypti from Karnataka state, India.

    Munivenkatappa, Ashok / Pattassery, Sakib Akther / Shettar, Annapurna K / Yadav, Pragya D

    Journal of vector borne diseases

    2024  Volume 61, Issue 1, Page(s) 149–150

    MeSH term(s) Aedes/virology ; India ; Animals ; Zika Virus Infection/diagnosis ; Zika Virus Infection/virology ; Zika Virus/isolation & purification ; Zika Virus/genetics ; Humans ; Mosquito Vectors/virology ; Female
    Language English
    Publishing date 2024-03-23
    Publishing country India
    Document type Journal Article ; Case Reports
    ZDB-ID 2161218-3
    ISSN 0972-9062
    ISSN 0972-9062
    DOI 10.4103/0972-9062.392266
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Multi-epitope vaccine design using in silico analysis of glycoprotein and nucleocapsid of NIPAH virus.

    Kumar, Anoop / Misra, Gauri / Mohandas, Sreelekshmy / Yadav, Pragya D

    PloS one

    2024  Volume 19, Issue 5, Page(s) e0300507

    Abstract: According to the 2018 WHO R&D Blueprint, Nipah virus (NiV) is a priority disease, and the development of a vaccine against NiV is strongly encouraged. According to criteria used to categorize zoonotic diseases, NiV is a stage III disease that can spread ... ...

    Abstract According to the 2018 WHO R&D Blueprint, Nipah virus (NiV) is a priority disease, and the development of a vaccine against NiV is strongly encouraged. According to criteria used to categorize zoonotic diseases, NiV is a stage III disease that can spread to people and cause unpredictable outbreaks. Since 2001, the NiV virus has caused annual outbreaks in Bangladesh, while in India it has caused occasional outbreaks. According to estimates, the mortality rate for infected individuals ranges from 70 to 91%. Using immunoinformatic approaches to anticipate the epitopes of the MHC-I, MHC-II, and B-cells, they were predicted using the NiV glycoprotein and nucleocapsid protein. The selected epitopes were used to develop a multi-epitope vaccine construct connected with linkers and adjuvants in order to improve immune responses to the vaccine construct. The 3D structure of the engineered vaccine was anticipated, optimized, and confirmed using a variety of computer simulation techniques so that its stability could be assessed. According to the immunological simulation tests, it was found that the vaccination elicits a targeted immune response against the NiV. Docking with TLR-3, 7, and 8 revealed that vaccine candidates had high binding affinities and low binding energies. Finally, molecular dynamic analysis confirms the stability of the new vaccine. Codon optimization and in silico cloning showed that the proposed vaccine was expressed to a high degree in Escherichia coli. The study will help in identifying a potential epitope for a vaccine candidate against NiV. The developed multi-epitope vaccine construct has a lot of potential, but they still need to be verified by in vitro & in vivo studies.
    MeSH term(s) Nipah Virus/immunology ; Viral Vaccines/immunology ; Glycoproteins/immunology ; Glycoproteins/chemistry ; Humans ; Henipavirus Infections/prevention & control ; Henipavirus Infections/immunology ; Computer Simulation ; Epitopes/immunology ; Epitopes/chemistry ; Molecular Dynamics Simulation ; Nucleocapsid/immunology ; Molecular Docking Simulation
    Chemical Substances Viral Vaccines ; Glycoproteins ; Epitopes
    Language English
    Publishing date 2024-05-10
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0300507
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Global emergence of SARS-CoV-2 variants: new foresight needed for improved vaccine efficacy.

    Yadav, Pragya D / Kumar, Sanjay

    The Lancet. Infectious diseases

    2021  Volume 22, Issue 3, Page(s) 298–299

    MeSH term(s) COVID-19/epidemiology ; COVID-19/prevention & control ; COVID-19 Vaccines ; Humans ; SARS-CoV-2/genetics ; Vaccine Efficacy
    Chemical Substances COVID-19 Vaccines
    Language English
    Publishing date 2021-11-23
    Publishing country United States
    Document type Journal Article ; Comment
    ZDB-ID 2061641-7
    ISSN 1474-4457 ; 1473-3099
    ISSN (online) 1474-4457
    ISSN 1473-3099
    DOI 10.1016/S1473-3099(21)00687-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Emergence of Recombinant Subclade D3/Y in Coxsackievirus A6 Strains in Hand-Foot-and-Mouth Disease (HFMD) Outbreak in India, 2022.

    Tikute, Sanjaykumar / Deshmukh, Pratik / Chavan, Nutan / Shete, Anita / Shinde, Pooja / Yadav, Pragya / Lavania, Mallika

    Microorganisms

    2024  Volume 12, Issue 3

    Abstract: Coxsackievirus-A6 (CV-A6) is responsible for more severe dermatological manifestations compared to other enteroviruses such as CV-A10, CV-A16, and EV-A71, causing HFMD in children and adults. Between 2005 and 2007, the recombinant subclade D3/RF-A ... ...

    Abstract Coxsackievirus-A6 (CV-A6) is responsible for more severe dermatological manifestations compared to other enteroviruses such as CV-A10, CV-A16, and EV-A71, causing HFMD in children and adults. Between 2005 and 2007, the recombinant subclade D3/RF-A started to expand globally, and a CV-A6 pandemic started. The study aimed to conduct whole-genome sequencing (WGS) of an isolated CV-A6 strain from currently circulating HFMD cases from India in 2022. Gene-specific RT-PCR and sequencing were used to perform molecular characterization of the isolated virus. Confirmation of these isolates was also performed by transmission electron microscopy and WGS. Among eleven positive clinical enterovirus specimens, eight CV-A6 strains were successfully isolated in the RD cell line. Isolates confirmed the presence of the CV-A6 strain based on VP1 and VP2 gene-specific RT-PCR. Sequences of isolates were clustered and identified as the novel CV-A6 strain of the D3/Y sub-genotype in India. The studies revealed that the D3/Y sub-genotype is being introduced into Indian circulation. The predicted putative functional loops found in VP1 of CV-A6 showed that the nucleotide sequences of the amino acid were a remarkably conserved loop prediction compatible with neutralizing linear epitopes. Therefore, this strain represents a potential candidate for vaccine development and antiviral studies.
    Language English
    Publishing date 2024-02-28
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2720891-6
    ISSN 2076-2607
    ISSN 2076-2607
    DOI 10.3390/microorganisms12030490
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Enterovirus Coxsackie A16 Detected in Hand, Foot, and Mouth Disease Outbreak Among Children in Western Uttar Pradesh, India, May to June 2022.

    Diwate, Sunil / Yadav, Pragya D / Yadav, Jyoti / Yadav, Arun Kumar

    Asia-Pacific journal of public health

    2023  Volume 36, Issue 1, Page(s) 143–145

    MeSH term(s) Child ; Humans ; Infant ; Enterovirus ; Hand, Foot and Mouth Disease/epidemiology ; Disease Outbreaks ; India/epidemiology
    Language English
    Publishing date 2023-11-13
    Publishing country China
    Document type Journal Article
    ZDB-ID 1025444-4
    ISSN 1941-2479 ; 1010-5395
    ISSN (online) 1941-2479
    ISSN 1010-5395
    DOI 10.1177/10105395231211974
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2802: Show issues Location:
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  6. Article: Corrigendum: Editorial: Emerging SARS-CoV-2 variants: genomic variations, transmission, pathogenesis, clinical impact and interventions.

    Yadav, Pragya D / Kumar, Sanjay / Bergeron, Éric / Flora, Meerjady Sabrina

    Frontiers in medicine

    2023  Volume 10, Page(s) 1260601

    Abstract: This corrects the article DOI: 10.3389/fmed.2023.1178696.]. ...

    Abstract [This corrects the article DOI: 10.3389/fmed.2023.1178696.].
    Language English
    Publishing date 2023-07-27
    Publishing country Switzerland
    Document type Published Erratum
    ZDB-ID 2775999-4
    ISSN 2296-858X
    ISSN 2296-858X
    DOI 10.3389/fmed.2023.1260601
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Editorial: Emerging SARS-CoV-2 variants: Genomic variations, transmission, pathogenesis, clinical impact and interventions.

    Yadav, Pragya D / Kumar, Sanjay / Bergeron, Éric / Flora, Meerjady Sabrina

    Frontiers in medicine

    2023  Volume 10, Page(s) 1178696

    Language English
    Publishing date 2023-03-29
    Publishing country Switzerland
    Document type Editorial
    ZDB-ID 2775999-4
    ISSN 2296-858X
    ISSN 2296-858X
    DOI 10.3389/fmed.2023.1178696
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: A highly divergent enteric calicivirus in a bovine calf in India.

    Kumar, Naveen / Kaushik, Rahul / Yadav, Pragya / Sircar, Shubhankar / Shete-Aich, Anita / Singh, Ashutosh / Malik, Yashpal Singh

    Archives of virology

    2024  Volume 169, Issue 5, Page(s) 102

    Abstract: A highly divergent bovine calicivirus was identified in an Indian calf with enteritis. The whole genome of this virus was sequenced, revealing distinct amino acid motifs in the polyprotein encoded by open reading frame 1 (ORF1) that are unique to ... ...

    Abstract A highly divergent bovine calicivirus was identified in an Indian calf with enteritis. The whole genome of this virus was sequenced, revealing distinct amino acid motifs in the polyprotein encoded by open reading frame 1 (ORF1) that are unique to caliciviruses. Phylogenetic analysis showed that it was related to members of the genus Nebovirus of the family Caliciviridae. Although it showed only 33.7-34.2% sequence identity in the VP1 protein to the nebovirus prototype strains, it showed 90.6% identity in VP1 to Kirklareli virus, a nebovirus detected in calves with enteritis in Turkey in 2012. An in-house-designed and optimized reverse transcription polymerase chain reaction (RT-PCR) assay was used to screen 120 archived bovine diarrhoeic fecal samples, 40 each from the Indian states of Uttar Pradesh, Haryana, and Himachal Pradesh, revealing frequent circulation of these divergent caliciviruses in the bovine population, with an overall positivity rate of 64.17% (77/120). This underscores the importance of conducting a comprehensive investigation of the prevalence of these divergent caliciviruses and assessing their associations with other pathogens responsible for enteritis in India.
    MeSH term(s) Cattle ; Animals ; Phylogeny ; RNA Viruses ; Caliciviridae/genetics ; India/epidemiology ; Enteritis
    Language English
    Publishing date 2024-04-17
    Publishing country Austria
    Document type Journal Article
    ZDB-ID 7491-3
    ISSN 1432-8798 ; 0304-8608
    ISSN (online) 1432-8798
    ISSN 0304-8608
    DOI 10.1007/s00705-024-06025-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Neutralization assays for SARS-CoV-2: Implications for assessment of protective efficacy of COVID-19 vaccines.

    Mukhopadhyay, Labanya / Gupta, Nivedita / Yadav, Pragya D / Aggarwal, Neeraj

    The Indian journal of medical research

    2022  Volume 155, Issue 1, Page(s) 105–122

    Abstract: The WHO emergency use-listed (EUL) COVID-19 vaccines were developed against early strains of SARS-CoV-2. With the emergence of SARS-CoV-2 variants of concern (VOCs) - Alpha, Beta, Gamma, Delta and Omicron, it is necessary to assess the neutralizing ... ...

    Abstract The WHO emergency use-listed (EUL) COVID-19 vaccines were developed against early strains of SARS-CoV-2. With the emergence of SARS-CoV-2 variants of concern (VOCs) - Alpha, Beta, Gamma, Delta and Omicron, it is necessary to assess the neutralizing activity of these vaccines against the VOCs. PubMed and preprint platforms were searched for literature on neutralizing activity of serum from WHO EUL vaccine recipients, against the VOCs, using appropriate search terms till November 30, 2021. Our search yielded 91 studies meeting the inclusion criteria. The analysis revealed a drop of 0-8.9-fold against Alpha variant, 0.3-42.4-fold against Beta variant, 0-13.8-fold against Gamma variant and 1.35-20-fold against Delta variant in neutralization titres of serum from the WHO EUL COVID-19 vaccine recipients, as compared to early SARS-CoV-2 isolates. The wide range of variability was due to differences in the choice of virus strains selected for neutralization assays (pseudovirus or live virus), timing of serum sample collection after the final dose of vaccine (day 0 to 8 months) and sample size (ranging from 5 to 470 vaccinees). The reasons for this variation have been discussed and the possible way forward to have uniformity across neutralization assays in different laboratories have been described, which will generate reliable data. Though in vitro neutralization studies are a valuable tool to estimate the performance of vaccines against the backdrop of emerging variants, the results must be interpreted with caution and corroborated with field-effectiveness studies.
    MeSH term(s) Antibodies, Neutralizing ; Antibodies, Viral ; COVID-19/prevention & control ; COVID-19 Vaccines ; Humans ; SARS-CoV-2 ; Viral Envelope Proteins ; Viral Vaccines
    Chemical Substances Antibodies, Neutralizing ; Antibodies, Viral ; COVID-19 Vaccines ; Viral Envelope Proteins ; Viral Vaccines
    Language English
    Publishing date 2022-06-08
    Publishing country India
    Document type Journal Article ; Review
    ZDB-ID 390883-5
    ISSN 0971-5916 ; 0019-5340
    ISSN 0971-5916 ; 0019-5340
    DOI 10.4103/ijmr.ijmr_2544_21
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article: The species distribution of ticks & the prevalence of Kyasanur forest disease virus in questing nymphal ticks from Western Ghats of Kerala, South India.

    Balasubramanian, R / Yadav, Pragya D / Sahina, S / Nadh, V Arathy

    The Indian journal of medical research

    2022  Volume 154, Issue 5, Page(s) 743–749

    Abstract: Background & objectives: Kyasanur forest disease (KFD) is a zoonotic tick-borne disease across the Western Ghats of India. With the discovery of a cluster of human KFD cases in the Wayanad district of Kerala, the present study was focused on detecting ... ...

    Abstract Background & objectives: Kyasanur forest disease (KFD) is a zoonotic tick-borne disease across the Western Ghats of India. With the discovery of a cluster of human KFD cases in the Wayanad district of Kerala, the present study was focused on detecting KFD virus (KFDV) in tick populations. To manage this disease, it is necessary to understand the diversity of the tick species and factors influencing the distribution, abundance and prevalence of infected ticks in Wayanad district.
    Methods: Surveys were conducted from November 2016 to May 2018 in four forest ranges of Wayanad district. Ticks were collected by the dragging method and were identified to species level and assayed for virus detection using real-time polymerase chain reaction.
    Results: A total of 25,169 ticks were collected from 64 sites. Of the identified species, Haemaphysalis spinigera was the most abundant (56.64%), followed by H. turturis 9047 (35.94%), H. bispinosa 999 (3.96%), Amblyomma integrum 691 (2.74%), H. kyasanurensis (0.55%), Rhipicephalus sanguineus (0.08%), Hyalomma marginatum (0.02%), H. cuspidata (0.01%), R.microplus (0.01%) and Dermacentor auratus (0.003%). The nymphal stage was predominant from December to February having peak activity in January. A total of 572 pools were screened for the presence of KFDV, of which 21 pools were positive. The infection rates in H. spinigera and H. turturis tick were 2.62 and 1.04 per cent, respectively.
    Interpretation & conclusions: The circulation of KFDV was detected and its correlation with the prevalence in ticks near the fragmented forest and teak plantation areas of Wayanad district. Residents and visitors of these regions may become vulnerable to tick bites and to an increased risk of KFD as the distribution of established, infected tick populations continues to expand.
    MeSH term(s) Animals ; Encephalitis Viruses, Tick-Borne/genetics ; Humans ; India/epidemiology ; Ixodidae ; Kyasanur Forest Disease/epidemiology ; Prevalence ; Ticks
    Language English
    Publishing date 2022-05-09
    Publishing country India
    Document type Journal Article
    ZDB-ID 390883-5
    ISSN 0971-5916 ; 0019-5340
    ISSN 0971-5916 ; 0019-5340
    DOI 10.4103/ijmr.IJMR_234_19
    Database MEDical Literature Analysis and Retrieval System OnLINE

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