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  1. Article: Artificial intelligence-driven systems engineering for next-generation plant-derived biopharmaceuticals.

    Parthiban, Subramanian / Vijeesh, Thandarvalli / Gayathri, Thashanamoorthi / Shanmugaraj, Balamurugan / Sharma, Ashutosh / Sathishkumar, Ramalingam

    Frontiers in plant science

    2023  Volume 14, Page(s) 1252166

    Abstract: Recombinant biopharmaceuticals including antigens, antibodies, hormones, cytokines, single-chain variable fragments, and peptides have been used as vaccines, diagnostics and therapeutics. Plant molecular pharming is a robust platform that uses plants as ... ...

    Abstract Recombinant biopharmaceuticals including antigens, antibodies, hormones, cytokines, single-chain variable fragments, and peptides have been used as vaccines, diagnostics and therapeutics. Plant molecular pharming is a robust platform that uses plants as an expression system to produce simple and complex recombinant biopharmaceuticals on a large scale. Plant system has several advantages over other host systems such as humanized expression, glycosylation, scalability, reduced risk of human or animal pathogenic contaminants, rapid and cost-effective production. Despite many advantages, the expression of recombinant proteins in plant system is hindered by some factors such as non-human post-translational modifications, protein misfolding, conformation changes and instability. Artificial intelligence (AI) plays a vital role in various fields of biotechnology and in the aspect of plant molecular pharming, a significant increase in yield and stability can be achieved with the intervention of AI-based multi-approach to overcome the hindrance factors. Current limitations of plant-based recombinant biopharmaceutical production can be circumvented with the aid of synthetic biology tools and AI algorithms in plant-based glycan engineering for protein folding, stability, viability, catalytic activity and organelle targeting. The AI models, including but not limited to, neural network, support vector machines, linear regression, Gaussian process and regressor ensemble, work by predicting the training and experimental data sets to design and validate the protein structures thereby optimizing properties such as thermostability, catalytic activity, antibody affinity, and protein folding. This review focuses on, integrating systems engineering approaches and AI-based machine learning and deep learning algorithms in protein engineering and host engineering to augment protein production in plant systems to meet the ever-expanding therapeutics market.
    Language English
    Publishing date 2023-11-15
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2023.1252166
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2)

    Ashwini Malla / Balamurugan Shanmugaraj / Sathishkumar Ramalingam

    Journal of Pure and Applied Microbiology, Vol 14, Iss suppl 1, Pp 931-

    An Emerging Zoonotic Respiratory Pathogen in Humans

    2020  Volume 936

    Abstract: Two highly human pathogenic coronaviruses outbreak in the beginning of 21st century i.e. Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV) and Middle East Respiratory Syndrome Coronavirus (MERS-CoV) in 2002 and 2012 respectively caused high ... ...

    Abstract Two highly human pathogenic coronaviruses outbreak in the beginning of 21st century i.e. Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV) and Middle East Respiratory Syndrome Coronavirus (MERS-CoV) in 2002 and 2012 respectively caused high pathogenicity and fatality rates in human populations. Recently, a new coronavirus named as SARS-CoV-2 or nCoV-2019 was first reported in Wuhan, China in December 2019 which is responsible for an acute human respiratory illness referred as Coronavirus Disease (COVID-19), an ongoing pandemic. SARS-CoV-2 is the third known highly pathogenic virus affecting human population. This virus spread globally within few weeks of first identification and nearly 5.52 million confirmed cases with more than 3,47,000 deaths reported as of May 25, 2020. Till date, there are no specific anti-viral drugs, therapies or vaccines to contain and prevent this infectious pathogen outbreak. The global spread of this virus to over 210 countries resulted in both human and economic losses, highlighting the need for an immediate imperative research exploration on prophylactic and therapeutic measures. Current knowledge and understanding of the pathogenesis of similar coronavirus SARS-CoV and MERS-CoV might be helpful for the rapid development of treatment strategies to prevent the further spread of this virus. In this review, we recapitulate the topical understanding on the structure, pathogenesis and epidemiology of SARS-CoV-2 that has emerged as a major health concern worldwide.
    Keywords coronavirus ; covid-19 ; epidemiology ; mers-cov ; sars-cov ; sars-cov-2 ; Microbiology ; QR1-502 ; covid19
    Subject code 572
    Language English
    Publishing date 2020-05-01T00:00:00Z
    Publisher Journal of Pure and Applied Microbiology
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Emerging mosquito-borne arboviral infection Zika - An epidemiological review

    Ashwini Malla / Balamurugan Shanmugaraj / Sathishkumar Ramalingam

    Asian Pacific Journal of Tropical Biomedicine, Vol 10, Iss 5, Pp 193-

    2020  Volume 200

    Abstract: The unprecedented resurgence and geographical expansion of arboviral infections such as dengue, Chikungunya, yellow fever, and Zika have a significant impact on human health and pose a serious threat to public health globally in recent years. Zika virus ... ...

    Abstract The unprecedented resurgence and geographical expansion of arboviral infections such as dengue, Chikungunya, yellow fever, and Zika have a significant impact on human health and pose a serious threat to public health globally in recent years. Zika virus is a Flavivirus and is transmitted to humans through an infected mosquito bite. The Zika virus has been identified in many countries in Africa, Asia, and Pacific islands and sporadic human cases have been reported since 1947. The non-specific clinical symptoms of Zika fever are often misdiagnosed with other arboviral infections, especially dengue and chikungunya. Till now, there is no vaccine or specific antiviral treatment for Zika infection. The recent emergence of Zika is alarming and highlights the need for arboviral research to develop an effective treatment. Here in this review, we discussed the epidemiology of Zika, which has re-emerged in the recent decade and caused international concern.
    Keywords arboviruses ; epidemiology ; mosquito ; zika ; Arctic medicine. Tropical medicine ; RC955-962 ; Biology (General) ; QH301-705.5
    Subject code 306
    Language English
    Publishing date 2020-01-01T00:00:00Z
    Publisher Wolters Kluwer Medknow Publications
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: Disseminated Nocardia infection—A rare presentation

    Harkesh Arora / Sathishkumar Ramalingam / Rajvee Sanghavi / Adedayo Balogun / Maheshwari Muruganandam

    Clinical Case Reports, Vol 9, Iss 8, Pp n/a-n/a (2021)

    2021  

    Abstract: Abstract Nocardia infection is rare and requires early diagnosis, extended use of sulfonamides for good prognosis, and prevention of recurrence. It is crucial to suspect nocardiosis in cases of atypical pneumonias or unexplained visceral organ ... ...

    Abstract Abstract Nocardia infection is rare and requires early diagnosis, extended use of sulfonamides for good prognosis, and prevention of recurrence. It is crucial to suspect nocardiosis in cases of atypical pneumonias or unexplained visceral organ dysfunction.
    Keywords atypical ; disseminated ; immunocompromised ; immunosuppression ; Nocardia ; nocardiosis ; Medicine ; R ; Medicine (General) ; R5-920
    Language English
    Publishing date 2021-08-01T00:00:00Z
    Publisher Wiley
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Epidemiology, clinical features and transmission of re-emerging arboviral infection chikungunya

    Balamurugan Shanmugaraj / Ashwini Malla / Sathishkumar Ramalingam

    Asian Pacific Journal of Tropical Biomedicine, Vol 9, Iss 4, Pp 135-

    2019  Volume 139

    Abstract: A number of re-emerging and emerging infectious diseases including chikungunya, West Nile, yellow fever, Zika, dengue, Japanese encephalitis, and others have increased in recent years, which threaten the public health across the globe. Chikungunya is a ... ...

    Abstract A number of re-emerging and emerging infectious diseases including chikungunya, West Nile, yellow fever, Zika, dengue, Japanese encephalitis, and others have increased in recent years, which threaten the public health across the globe. Chikungunya is a neglected re-emerging arboviral infection caused by chikungunya virus. Arboviral infections such as chikungunya, Zika and dengue have similar epidemiology, transmission cycles and clinical symptoms, which makes it difficult to diagnose these three infections. Moreover, there is no commercial vaccine or licensed therapy available for chikungunya infection, thus causing severe burden worldwide. Vector control may reduce the disease risk; however, this remains a challenge due to many factors including, but not limited to, evolution of insecticide resistance in mosquitoes, gaps in vector control tools, urbanization, environmental and demographic changes. Effective integrated vector control strategies and surveillance measures along with affordable vaccine development or anti-viral therapy are essential to control the infection. In this review, we discuss the epidemiology of mosquito-borne infection chikungunya which has re-emerged as an international concern in recent decades.
    Keywords arboviruses ; chikungunya ; epidemiology ; mosquito ; Arctic medicine. Tropical medicine ; RC955-962 ; Biology (General) ; QH301-705.5
    Subject code 610
    Language English
    Publishing date 2019-01-01T00:00:00Z
    Publisher Wolters Kluwer Medknow Publications
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Molecular phylogeny of the

    Mahima, Karthikeyan / Sudhakar, Jana Venkata / Sathishkumar, Ramalingam

    Genome

    2020  Volume 63, Issue 12, Page(s) 597–606

    Abstract: The closely related species present in the subgenera ... ...

    Abstract The closely related species present in the subgenera of
    MeSH term(s) Biological Evolution ; DNA, Plant/genetics ; Ficus/anatomy & histology ; Ficus/classification ; Ficus/genetics ; Genetic Markers ; Phenotype ; Phylogeny ; Plant Leaves ; Sequence Analysis, DNA ; Species Specificity
    Chemical Substances DNA, Plant ; Genetic Markers
    Language English
    Publishing date 2020-08-21
    Publishing country Canada
    Document type Journal Article
    ZDB-ID 639031-6
    ISSN 1480-3321 ; 0831-2796
    ISSN (online) 1480-3321
    ISSN 0831-2796
    DOI 10.1139/gen-2019-0210
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Systematic reinstatement of highly sacred

    Mahima, Karthikeyan / Umapathy, Senthilkumar / Sudhakar, Jana Venkata / Sathishkumar, Ramalingam

    PhytoKeys

    2021  Volume 186, Page(s) 121–138

    Abstract: ... ...

    Abstract Ficuskrishnae
    Language English
    Publishing date 2021-12-09
    Publishing country Bulgaria
    Document type Journal Article
    ZDB-ID 2579891-1
    ISSN 1314-2003 ; 1314-2011
    ISSN (online) 1314-2003
    ISSN 1314-2011
    DOI 10.3897/phytokeys.186.74086
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Plant Metabolic Gene Clusters: Evolution, Organization, and Their Applications in Synthetic Biology.

    Bharadwaj, Revuru / Kumar, Sarma R / Sharma, Ashutosh / Sathishkumar, Ramalingam

    Frontiers in plant science

    2021  Volume 12, Page(s) 697318

    Abstract: Plants are a remarkable source of high-value specialized metabolites having significant physiological and ecological functions. Genes responsible for synthesizing specialized metabolites are often clustered together for a coordinated expression, which is ...

    Abstract Plants are a remarkable source of high-value specialized metabolites having significant physiological and ecological functions. Genes responsible for synthesizing specialized metabolites are often clustered together for a coordinated expression, which is commonly observed in bacteria and filamentous fungi. Similar to prokaryotic gene clustering, plants do have gene clusters encoding enzymes involved in the biosynthesis of specialized metabolites. More than 20 gene clusters involved in the biosynthesis of diverse metabolites have been identified across the plant kingdom. Recent studies demonstrate that gene clusters are evolved through gene duplications and neofunctionalization of primary metabolic pathway genes. Often, these clusters are tightly regulated at nucleosome level. The prevalence of gene clusters related to specialized metabolites offers an attractive possibility of an untapped source of highly useful biomolecules. Accordingly, the identification and functional characterization of novel biosynthetic pathways in plants need to be worked out. In this review, we summarize insights into the evolution of gene clusters and discuss the organization and importance of specific gene clusters in the biosynthesis of specialized metabolites. Regulatory mechanisms which operate in some of the important gene clusters have also been briefly described. Finally, we highlight the importance of gene clusters to develop future metabolic engineering or synthetic biology strategies for the heterologous production of novel metabolites.
    Language English
    Publishing date 2021-08-13
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2021.697318
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Molecular phylogeny of the Ficus virens complex (Moraceae)

    Mahima, Karthikeyan / Sudhakar, Jana Venkata / Sathishkumar, Ramalingam

    Genome. 2020, v. 63, no. 12

    2020  

    Abstract: The closely related species present in the subgenera of Urostigma are challenging to classify due to the existence of overlapping morphological characteristics, which makes identification habitually problematic. It is still unresolved whether the species ...

    Abstract The closely related species present in the subgenera of Urostigma are challenging to classify due to the existence of overlapping morphological characteristics, which makes identification habitually problematic. It is still unresolved whether the species of the Ficus virens complex, which includes F. virens, F. middletonii, F. caulocarpa, F. concinna, and F. superba, are the same or distinct species due to the complexities in classification. To clarify the circumscription between the species and re-evaluate the taxonomical status, morphological characteristics were extensively examined; further, a phylogenetic reconstruction based on two DNA markers (ITS2 and trnH-psbA) in combination with morphological traits was carried out. The phylogenetic tree constructed using the combined morphology and DNA markers revealed that the five species should be demarcated as independent species. This study supports the importance of using both molecular and morphological data for efficient discrimination of species having high similarities. Further investigation into the species present in the subgenera Urostigma may provide additional information regarding the ancestral traits and its evolutionary history.
    Keywords DNA ; Ficus virens ; genome ; phylogeny
    Language English
    Size p. 597-606.
    Publishing place NRC Research Press
    Document type Article
    Note NAL-AP-2-clean
    ZDB-ID 639031-6
    ISSN 1480-3321 ; 0831-2796
    ISSN (online) 1480-3321
    ISSN 0831-2796
    DOI 10.1139/gen-2019-0210
    Database NAL-Catalogue (AGRICOLA)

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  10. Article ; Online: DNA barcoding detects floral origin of Indian honey samples.

    Saravanan, Mohanasundaram / Mohanapriya, Gunasekaran / Laha, Ramachandra / Sathishkumar, Ramalingam

    Genome

    2019  Volume 62, Issue 5, Page(s) 341–348

    Abstract: The unique medicinal and nutritional properties of honey are determined by its chemical composition. To evaluate the quality of honey, it is essential to study the surrounding vegetation where honeybees forage. In this study we used conventional ... ...

    Abstract The unique medicinal and nutritional properties of honey are determined by its chemical composition. To evaluate the quality of honey, it is essential to study the surrounding vegetation where honeybees forage. In this study we used conventional melissopalynological and DNA barcoding techniques to determine the floral source of honey samples collected from different districts of the state of Mizoram, India. Pollen grains were isolated and genomic DNA was extracted from the honey samples. PCR amplification was carried out using universal barcode candidates
    MeSH term(s) Animals ; Bees/physiology ; DNA Barcoding, Taxonomic ; DNA, Intergenic/genetics ; DNA, Plant/chemistry ; DNA, Plant/genetics ; Flowers/classification ; Flowers/genetics ; Honey/analysis ; India ; Plants/classification ; Plants/genetics ; Pollen/classification ; Pollen/genetics ; Polymerase Chain Reaction ; Ribulose-Bisphosphate Carboxylase/genetics
    Chemical Substances DNA, Intergenic ; DNA, Plant ; RbcL protein, plastid (EC 4.1.1.39) ; Ribulose-Bisphosphate Carboxylase (EC 4.1.1.39)
    Language English
    Publishing date 2019-03-28
    Publishing country Canada
    Document type Journal Article
    ZDB-ID 639031-6
    ISSN 1480-3321 ; 0831-2796
    ISSN (online) 1480-3321
    ISSN 0831-2796
    DOI 10.1139/gen-2018-0058
    Database MEDical Literature Analysis and Retrieval System OnLINE

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