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  1. Article ; Online: Molecular assessment of proteins encoded by the mitochondrial genome of

    Chand, Gyanendra Bahadur / Kumar, Sushant / Azad, Gajendra Kumar

    Biochemistry and biophysics reports

    2021  Volume 26, Page(s) 100985

    Abstract: The population of catfish, ...

    Abstract The population of catfish,
    Language English
    Publishing date 2021-03-25
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2831046-9
    ISSN 2405-5808 ; 2405-5808
    ISSN (online) 2405-5808
    ISSN 2405-5808
    DOI 10.1016/j.bbrep.2021.100985
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Molecular assessment of proteins encoded by the mitochondrial genome of Clarias batrachus and Clarias gariepinus

    Gyanendra Bahadur Chand / Sushant Kumar / Gajendra Kumar Azad

    Biochemistry and Biophysics Reports, Vol 26, Iss , Pp 100985- (2021)

    2021  

    Abstract: The population of catfish, Clarias batrachus has substantially diminished in various countries and studies show that another related species Clarias gariepinus is replacing it. The better adaptability and survivability of C. gariepinus over C. batrachus ... ...

    Abstract The population of catfish, Clarias batrachus has substantially diminished in various countries and studies show that another related species Clarias gariepinus is replacing it. The better adaptability and survivability of C. gariepinus over C. batrachus could be attributed to the metabolic differences between these two species, which is primarily regulated by mitochondrial activities. To understand the reasons behind this phenomenon, we performed in silico analyses to decipher the differences between the proteins encoded by the mitochondrial genome of these two related species. Our analysis revealed that out of thirteen, twelve proteins encoded by the mitochondrial genome of these two species have substantial variations between them. We characterised these variations by analysing their effect on secondary structure, intrinsic disorder predisposition, and functional impact on protein and stability parameters. Our data show that most of the parameters are changing between these two closely related species. Altogether, we demonstrate the molecular insights into the mitochondrial genome-encoded proteins of these two species and predict their effect on protein function and stability that might be helping C. gariepinus to gain survivability better than the C. batrachus.
    Keywords Clarias batrachus ; Clarias gariepinus ; Mitochondrial genome ; Variations ; Protein stability ; Biology (General) ; QH301-705.5 ; Biochemistry ; QD415-436
    Subject code 580 ; 612
    Language English
    Publishing date 2021-07-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article: Identification of twenty-five mutations in surface glycoprotein (Spike) of SARS-CoV-2 among Indian isolates and their impact on protein dynamics.

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    Gene reports

    2020  Volume 21, Page(s) 100891

    Abstract: SARS-CoV-2, the causative agent of the COVID-19 pandemic, is an RNA virus that has inherent high rate of mutation. Due to the mutations, the virus evolves at a rapid pace that helps them to survive better inside the host. One of the hotspots of ... ...

    Abstract SARS-CoV-2, the causative agent of the COVID-19 pandemic, is an RNA virus that has inherent high rate of mutation. Due to the mutations, the virus evolves at a rapid pace that helps them to survive better inside the host. One of the hotspots of pharmacological interventions is to inhibit binding of virus with the host cells, which is mediated by Spike glycoprotein of SARS-CoV-2 and ACE2 receptors present on the human cells. This study was conducted with an aim to identify and characterise the mutation (s) present in the Spike glycoprotein of the SARS-CoV-2. Towards this, an
    Keywords covid19
    Language English
    Publishing date 2020-09-28
    Publishing country United States
    Document type Journal Article
    ISSN 2452-0144
    ISSN 2452-0144
    DOI 10.1016/j.genrep.2020.100891
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Identification of novel mutations in RNA-dependent RNA polymerases of SARS-CoV-2 and their implications on its protein structure.

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    PeerJ

    2020  Volume 8, Page(s) e9492

    Abstract: The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These ... ...

    Abstract The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These mutations drive viral evolution and genome variability, thereby facilitating viruses to have rapid antigenic shifting to evade host immunity and to develop drug resistance. Viral RNA-dependent RNA polymerases (RdRp) perform viral genome duplication and RNA synthesis. Therefore, we compared the available RdRp sequences of SARS-CoV-2 from Indian isolates and the 'Wuhan wet sea food market virus' sequence to identify, if any, variation between them. Our data revealed the occurrence of seven mutations in Indian isolates of SARS-CoV-2. The secondary structure prediction analysis of these seven mutations shows that three of them cause alteration in the structure of RdRp. Furthermore, we did protein modelling studies to show that these mutations can potentially alter the stability of the RdRp protein. Therefore, we propose that RdRp mutations in Indian SARS-CoV-2 isolates might have functional consequences that can interfere with RdRp targeting pharmacological agents.
    Keywords covid19
    Language English
    Publishing date 2020-07-03
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2703241-3
    ISSN 2167-8359
    ISSN 2167-8359
    DOI 10.7717/peerj.9492
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Identification of novel mutations in RNA-dependent RNA polymerases of SARS-CoV-2 and their implications on its protein structure

    Gyanendra Bahadur Chand / Atanu Banerjee / Gajendra Kumar Azad

    PeerJ, Vol 8, p e

    2020  Volume 9492

    Abstract: The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These ... ...

    Abstract The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These mutations drive viral evolution and genome variability, thereby facilitating viruses to have rapid antigenic shifting to evade host immunity and to develop drug resistance. Viral RNA-dependent RNA polymerases (RdRp) perform viral genome duplication and RNA synthesis. Therefore, we compared the available RdRp sequences of SARS-CoV-2 from Indian isolates and the ‘Wuhan wet sea food market virus’ sequence to identify, if any, variation between them. Our data revealed the occurrence of seven mutations in Indian isolates of SARS-CoV-2. The secondary structure prediction analysis of these seven mutations shows that three of them cause alteration in the structure of RdRp. Furthermore, we did protein modelling studies to show that these mutations can potentially alter the stability of the RdRp protein. Therefore, we propose that RdRp mutations in Indian SARS-CoV-2 isolates might have functional consequences that can interfere with RdRp targeting pharmacological agents.
    Keywords COVID-19 ; SARS-CoV-2 ; RNA-dependent RNA polymerases (RdRp) ; Nsp12 ; Mutation ; Indian geographical area ; Medicine ; R ; Biology (General) ; QH301-705.5 ; covid19
    Language English
    Publishing date 2020-07-01T00:00:00Z
    Publisher PeerJ Inc.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article: Protective efficacy of

    Kumar, Arun / Kumar, Vikas / Akhouri, Vivek / Kumar, Ranjit / Ali, Mohammad / Rashmi, Tuhin / Chand, Gyanendra Bahadur / Singh, Sushil Kumar / Ghosh, Ashok Kumar

    Toxicological research

    2022  Volume 38, Issue 4, Page(s) 437–447

    Abstract: Arsenic poisoning in ground water is one of the most sensitive environmental pollutant causing serious pollution all over the world. Chronic arsenic exposure through drinking water to humans leads to major public health related issues. There have been ... ...

    Abstract Arsenic poisoning in ground water is one of the most sensitive environmental pollutant causing serious pollution all over the world. Chronic arsenic exposure through drinking water to humans leads to major public health related issues. There have been very meagre studies which reported that, the plant constituents proved to exhibit protective effect from arsenicosis. Therefore, the present study aims to evaluate the protective efficacy of
    Language English
    Publishing date 2022-03-16
    Publishing country Singapore
    Document type Journal Article
    ZDB-ID 2727978-9
    ISSN 2234-2753 ; 1976-8257
    ISSN (online) 2234-2753
    ISSN 1976-8257
    DOI 10.1007/s43188-022-00123-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Identification of twenty-five mutations in surface glycoprotein (Spike) of SARS-CoV-2 among Indian isolates and their impact on protein dynamics

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    Gene Reports

    2020  Volume 21, Page(s) 100891

    Keywords covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    ISSN 2452-0144
    DOI 10.1016/j.genrep.2020.100891
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

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    Order via subito

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    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  8. Article ; Online: Identification of novel mutations in RNA-dependent RNA polymerases of SARS-CoV-2 and their implications on its protein structure

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    bioRxiv

    Abstract: The rapid development of SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for the effective antivirals. SARS-CoV-2 is an RNA virus that has an inherent high mutation rate. These ... ...

    Abstract The rapid development of SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for the effective antivirals. SARS-CoV-2 is an RNA virus that has an inherent high mutation rate. These mutations drive viral evolution and genome variability, thereby, facilitating viruses to have rapid antigenic shifting to evade host immunity and to develop drug resistance. Viral RNA-dependent RNA polymerases (RdRp) perform viral genome duplication and RNA synthesis. Therefore, we compared the available RdRp sequences of SARS-CoV-2 from Indian isolates and ‘Wuhan wet sea food market virus’ sequence to identify, if any, variation between them. We report seven mutations observed in Indian SARS-CoV-2 isolates and three unique mutations that showed changes in the secondary structure of the RdRp protein at region of mutation. We also studied molecular dynamics using normal mode analyses and found that these mutations alter the stability of RdRp protein. Therefore, we propose that RdRp mutations in Indian SARS-CoV-2 isolates might have functional consequences that can interfere with RdRp targeting pharmacological agents.
    Keywords covid19
    Publisher BioRxiv; WHO
    Document type Article ; Online
    DOI 10.1101/2020.05.05.079939
    Database COVID19

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  9. Article ; Online: Identification of novel mutations in RNA-dependent RNA polymerases of SARS-CoV-2 and their implications on its protein structure

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    PeerJ

    2020  Volume 8, Page(s) e9492

    Abstract: The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These ... ...

    Abstract The rapid development of the SARS-CoV-2 mediated COVID-19 pandemic has been the cause of significant health concern, highlighting the immediate need for effective antivirals. SARS-CoV-2 is an RNA virus that has an inherently high mutation rate. These mutations drive viral evolution and genome variability, thereby facilitating viruses to have rapid antigenic shifting to evade host immunity and to develop drug resistance. Viral RNA-dependent RNA polymerases (RdRp) perform viral genome duplication and RNA synthesis. Therefore, we compared the available RdRp sequences of SARS-CoV-2 from Indian isolates and the ‘Wuhan wet sea food market virus’ sequence to identify, if any, variation between them. Our data revealed the occurrence of seven mutations in Indian isolates of SARS-CoV-2. The secondary structure prediction analysis of these seven mutations shows that three of them cause alteration in the structure of RdRp. Furthermore, we did protein modelling studies to show that these mutations can potentially alter the stability of the RdRp protein. Therefore, we propose that RdRp mutations in Indian SARS-CoV-2 isolates might have functional consequences that can interfere with RdRp targeting pharmacological agents.
    Keywords General Biochemistry, Genetics and Molecular Biology ; General Neuroscience ; General Agricultural and Biological Sciences ; General Medicine ; covid19
    Language English
    Publisher PeerJ
    Publishing country us
    Document type Article ; Online
    ZDB-ID 2703241-3
    ISSN 2167-8359
    ISSN 2167-8359
    DOI 10.7717/peerj.9492
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

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  10. Article: Identification of twenty-five mutations in surface glycoprotein (Spike) of SARS-CoV-2 among Indian isolates and their impact on protein dynamics

    Chand, Gyanendra Bahadur / Banerjee, Atanu / Azad, Gajendra Kumar

    Gene Reports

    Abstract: SARS-CoV-2, the causative agent of the COVID-19 pandemic, is an RNA virus that has inherent high rate of mutation Due to the mutations, the virus evolves at a rapid pace that helps them to survive better inside the host One of the hotspots of ... ...

    Abstract SARS-CoV-2, the causative agent of the COVID-19 pandemic, is an RNA virus that has inherent high rate of mutation Due to the mutations, the virus evolves at a rapid pace that helps them to survive better inside the host One of the hotspots of pharmacological interventions is to inhibit binding of virus with the host cells, which is mediated by Spike glycoprotein of SARS-CoV-2 and ACE2 receptors present on the human cells This study was conducted with an aim to identify and characterise the mutation (s) present in the Spike glycoprotein of the SARS-CoV-2 Towards this, an in silico methodology was used, and the mutations on Spike glycoprotein were identified by comparing the Spike glycoprotein of first reported sequence from Wuhan wet seafood market virus with the available sequences of SARS-CoV-2 from Indian isolates Our analysis revealed the presence of twenty-five mutations in Spike glycoprotein among Indian SARS-CoV-2 isolates These mutations spread all over the protein and can be clustered at least into four distinct positions Further, mutations at eleven positions exhibited alterations in the secondary structure of the polypeptide chain We also investigated the influence of these mutations on overall protein dynamics and have shown that they affect the dynamic stability of the Spike glycoprotein
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #799069
    Database COVID19

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