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  1. Article ; Online: Two novel phages PSPa and APPa inhibit planktonic, sessile and persister populations of Pseudomonas aeruginosa, and mitigate its virulence in Zebrafish model.

    Karthika, Chandrasekar / Malligarjunan, Nambiraman / Jothi, Ravi / Kasthuri, Thirupathi / Alexpandi, Rajaiah / Ravi, Arumugam Veera / Pandian, Shunmugiah Karutha / Gowrishankar, Shanmugaraj

    Scientific reports

    2023  Volume 13, Issue 1, Page(s) 19033

    Abstract: The present study explores the avenue of phage therapy as an alternative antimicrobial therapeutic approach to counter multidrug-resistant (MDR) Pseudomonas aeruginosa infection. Our study investigated two novel virulent phages PSPa and APPa, specific to ...

    Abstract The present study explores the avenue of phage therapy as an alternative antimicrobial therapeutic approach to counter multidrug-resistant (MDR) Pseudomonas aeruginosa infection. Our study investigated two novel virulent phages PSPa and APPa, specific to P. aeruginosa, in which in vitro evaluations were carried out to assess the therapeutic potential of phages. Both the identified phages exhibited host specificity by showing antagonistic activity of about 96.43% (27/28) and 92.85% (26/28) towards the 28 MDR clinical isolates of P. aeruginosa. The PSPa phage was found to have linear dsDNA with a sequence length of 66,368 bp and 92 ORFs, of which 32 were encoded for known functions of the phage life cycle and the remaining 60 were hypothetical functions. The APPa phage was found to have linear dsDNA with 59,591 bp of genome length and 79 ORFs, of which 15 were found to have known phage functions and the remaining 64 were found to be hypothetical proteins. Notably, the genome of both the phages lacks genes coding for tRNA, rRNA, and tmRNA. The phylogenetic analysis revealed that PSPa and APPa share > 95% sequence similarity with previously sequenced Pseudomonas viruses of their respective families. Further, the in vivo efficacy evaluation using the zebrafish model revealed that the treatment with PSPa and APPa has remarkably improved the survival rate of bacterial-infected zebrafish, reinforcing the anti-infective potential of the isolated phages PSPa and APPa against P. aeruginosa infection.
    MeSH term(s) Humans ; Animals ; Bacteriophages ; Pseudomonas aeruginosa/genetics ; Zebrafish ; Virulence ; Phylogeny ; Plankton ; Pseudomonas Phages
    Chemical Substances diadenosine pyrophosphate (14938-28-4)
    Language English
    Publishing date 2023-11-03
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-023-45313-x
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: CRISPR based bacterial genome editing and removal of pathogens.

    Jothi, Ravi / Karthika, Chandrasekar / Kamaladevi, Arumugam / Satish, Lakkakula / Pandian, Shunmugiah Karutha / Gowrishankar, Shanmugaraj

    Progress in molecular biology and translational science

    2021  Volume 179, Page(s) 77–92

    Abstract: Engineering nucleases to achieve targeted genome editing has turned out to be a revolutionary means for manipulating the genetic content in diversified living organisms. For targeted genome editing, till to date, only three engineered nucleases exist viz. ...

    Abstract Engineering nucleases to achieve targeted genome editing has turned out to be a revolutionary means for manipulating the genetic content in diversified living organisms. For targeted genome editing, till to date, only three engineered nucleases exist viz. zinc finger nucleases, transcription activator-like effector nucleases and RNA-mediated nucleases (RGNs) (Cas nucleases) from the clustered regularly interspaced short palindromic repeat (CRISPR). Among, Cas9 nuclease has been considered as a simplest tool for efficient modification of endogenous genes in an extensive stretch of organisms, owing to its amenability to design guide RNA compatible to the sequence of new targets. Moreover, CRISPR/Cas system delivers a multipurpose RNA-guided DNA-targeting platform called as CRISPR interference (CRISPRi), as well as epigenetic modifications and high throughput screening in diverse organism including bacteria, all in a sequence explicit way. With these entire advancements, the present chapter illustrates the deployment of CRISPR/Cas9 in bacterial genome editing and removal of pathogens.
    MeSH term(s) Bacteria/genetics ; CRISPR-Cas Systems/genetics ; Gene Editing ; Genome, Bacterial ; Humans ; RNA, Guide, CRISPR-Cas Systems/genetics
    Chemical Substances RNA, Guide, CRISPR-Cas Systems
    Language English
    Publishing date 2021-01-27
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2471995-X
    ISSN 1878-0814 ; 0079-6603 ; 1877-1173
    ISSN (online) 1878-0814
    ISSN 0079-6603 ; 1877-1173
    DOI 10.1016/bs.pmbts.2020.12.013
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Promising phytochemicals of traditional Indian herbal steam inhalation therapy to combat COVID-19 - An in silico study.

    Gowrishankar, Shanmugaraj / Muthumanickam, Sankar / Kamaladevi, Arumugam / Karthika, Chandrasekar / Jothi, Ravi / Boomi, Pandi / Maniazhagu, Dharuman / Pandian, Shunmugiah Karutha

    Food and chemical toxicology : an international journal published for the British Industrial Biological Research Association

    2021  Volume 148, Page(s) 111966

    Abstract: Background: COVID-19, the presently prevailing global public health emergency has culminated in international instability in economy. This unprecedented pandemic outbreak pressingly necessitated the trans-disciplinary approach in developing novel/new ... ...

    Abstract Background: COVID-19, the presently prevailing global public health emergency has culminated in international instability in economy. This unprecedented pandemic outbreak pressingly necessitated the trans-disciplinary approach in developing novel/new anti-COVID-19 drugs especially, small molecule inhibitors targeting the seminal proteins of viral etiological agent, SARS-CoV-2.
    Methods: Based on the traditional medicinal knowledge, we made an attempt through molecular docking analysis to explore the phytochemical constituents of three most commonly used Indian herbs in 'steam inhalation therapy' against well recognized viral receptor proteins.
    Results: A total of 57 phytochemicals were scrutinized virtually against four structural protein targets of SARS-CoV-2 viz. 3CL
    Conclusion: Overall, the data of the present study exemplifies that the phytochemicals from selected traditional herbs having significance in steam inhalation therapy would be promising in combating COVID-19.
    MeSH term(s) Administration, Inhalation ; COVID-19/therapy ; COVID-19/virology ; Computer Simulation ; Humans ; Molecular Docking Simulation ; Phytochemicals/administration & dosage ; Phytochemicals/pharmacology ; SARS-CoV-2/isolation & purification ; Steam
    Chemical Substances Phytochemicals ; Steam
    Language English
    Publishing date 2021-01-04
    Publishing country England
    Document type Journal Article
    ZDB-ID 782617-5
    ISSN 1873-6351 ; 0278-6915
    ISSN (online) 1873-6351
    ISSN 0278-6915
    DOI 10.1016/j.fct.2020.111966
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Global multi-omics and systems pharmacological strategy unravel the multi-targeted therapeutic potential of natural bioactive molecules against COVID-19: An in silico approach.

    Muthuramalingam, Pandiyan / Jeyasri, Rajendran / Valliammai, Alaguvel / Selvaraj, Anthonymuthu / Karthika, Chandrasekar / Gowrishankar, Shanmugaraj / Pandian, Shunmugiah Karutha / Ramesh, Manikandan / Chen, Jen-Tsung

    Genomics

    2020  Volume 112, Issue 6, Page(s) 4486–4504

    Abstract: Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel ... ...

    Abstract Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel bioactives to combat COVID-19. Immuno-transcriptomic dataset of healthy controls and COVID-19 cases was retrieved from ArrayExpress. Phytocompounds from ethnobotanical plants were collected from PubChem. Differentially expressed 98 immune genes associated with COVID-19 were derived through NetworkAnalyst 3.0. Among 259 plant derived compounds, 154 compounds were targeting 13 COVID-19 immune genes involved in diverse signaling pathways. In addition, pharmacological properties of these phytocompounds were compared with COVID-19 drugs prescribed by WHO, and 25 novel phytocompounds were found to be more efficient with higher bioactive scores. The current study unravels the virogenomic signatures which can serve as therapeutic targets and identified phytocompounds with anti-COVID-19 efficacy. However, further experimental validation is essential to bring out these molecules as commercial drug candidates.
    MeSH term(s) Antiviral Agents/pharmacology ; COVID-19/genetics ; COVID-19/immunology ; Case-Control Studies ; Computer Simulation ; Data Mining ; Gene Ontology ; Gene Regulatory Networks ; Humans ; Phytochemicals/pharmacology ; Transcriptome
    Chemical Substances Antiviral Agents ; Phytochemicals
    Keywords covid19
    Language English
    Publishing date 2020-08-07
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 356334-0
    ISSN 1089-8646 ; 0888-7543
    ISSN (online) 1089-8646
    ISSN 0888-7543
    DOI 10.1016/j.ygeno.2020.08.003
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Global multi-omics and systems pharmacological strategy unravel the multi-targeted therapeutic potential of natural bioactive molecules against COVID-19: An in silico approach

    Muthuramalingam, Pandiyan / Jeyasri, Rajendran / Valliammai, Alaguvel / Selvaraj, Anthonymuthu / Karthika, Chandrasekar / Gowrishankar, Shanmugaraj / Pandian, Shunmugiah Karutha / Ramesh, Manikandan / Chen, Jen-Tsung

    Genomics. 2020 Nov., v. 112, no. 6

    2020  

    Abstract: Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel ... ...

    Abstract Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel bioactives to combat COVID-19. Immuno-transcriptomic dataset of healthy controls and COVID-19 cases was retrieved from ArrayExpress. Phytocompounds from ethnobotanical plants were collected from PubChem. Differentially expressed 98 immune genes associated with COVID-19 were derived through NetworkAnalyst 3.0. Among 259 plant derived compounds, 154 compounds were targeting 13 COVID-19 immune genes involved in diverse signaling pathways. In addition, pharmacological properties of these phytocompounds were compared with COVID-19 drugs prescribed by WHO, and 25 novel phytocompounds were found to be more efficient with higher bioactive scores. The current study unravels the virogenomic signatures which can serve as therapeutic targets and identified phytocompounds with anti-COVID-19 efficacy. However, further experimental validation is essential to bring out these molecules as commercial drug candidates.
    Keywords COVID-19 infection ; bioactive compounds ; computer simulation ; ethnobotany ; gene expression regulation ; genes ; medicinal properties ; multiomics ; signal transduction ; therapeutics
    Language English
    Dates of publication 2020-11
    Size p. 4486-4504.
    Publishing place Elsevier Inc.
    Document type Article
    ZDB-ID 356334-0
    ISSN 1089-8646 ; 0888-7543
    ISSN (online) 1089-8646
    ISSN 0888-7543
    DOI 10.1016/j.ygeno.2020.08.003
    Database NAL-Catalogue (AGRICOLA)

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  6. Article: Global multi-omics and systems pharmacological strategy unravel the multi-targeted therapeutic potential of natural bioactive molecules against COVID-19: An in silico approach

    Muthuramalingam, Pandiyan / Jeyasri, Rajendran / Valliammai, Alaguvel / Selvaraj, Anthonymuthu / Karthika, Chandrasekar / Gowrishankar, Shanmugaraj / Pandian, Shunmugiah Karutha / Ramesh, Manikandan / Chen, Jen-Tsung

    Genomics

    Abstract: Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel ... ...

    Abstract Understanding the immunological behavior of COVID-19 cases at molecular level is essential for therapeutic development. In this study, multi-omics and systems pharmacology analyses were performed to unravel the multi-targeted mechanisms of novel bioactives to combat COVID-19. Immuno-transcriptomic dataset of healthy controls and COVID-19 cases was retrieved from ArrayExpress. Phytocompounds from ethnobotanical plants were collected from PubChem. Differentially expressed 98 immune genes associated with COVID-19 were derived through NetworkAnalyst 3.0. Among 259 plant derived compounds, 154 compounds were targeting 13 COVID-19 immune genes involved in diverse signaling pathways. In addition, pharmacological properties of these phytocompounds were compared with COVID-19 drugs prescribed by WHO, and 25 novel phytocompounds were found to be more efficient with higher bioactive scores. The current study unravels the virogenomic signatures which can serve as therapeutic targets and identified phytocompounds with anti-COVID-19 efficacy. However, further experimental validation is essential to bring out these molecules as commercial drug candidates.
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #696331
    Database COVID19

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  7. Article ; Online: Global multi-omics and systems pharmacological strategy unravel the multi-targeted therapeutic potential of natural bioactive molecules against COVID-19

    Muthuramalingam, Pandiyan / Jeyasri, Rajendran / Valliammai, Alaguvel / Selvaraj, Anthonymuthu / Karthika, Chandrasekar / Gowrishankar, Shanmugaraj / Pandian, Shunmugiah Karutha / Ramesh, Manikandan / Chen, Jen-Tsung

    Genomics

    An in silico approach

    2020  Volume 112, Issue 6, Page(s) 4486–4504

    Keywords Genetics ; covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    ZDB-ID 356334-0
    ISSN 1089-8646 ; 0888-7543
    ISSN (online) 1089-8646
    ISSN 0888-7543
    DOI 10.1016/j.ygeno.2020.08.003
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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