Intertwined Dysregulation of Ribosomal Proteins and Immune Response Delineates SARS-CoV-2 Vaccination Breakthroughs

Maurya, Ranjeet; Shamim, Uzma; Mishra, Pallavi; Swaminathan, Aparna; Raina, Aakarshan; Tarai, Bansidhar; Budhiraja, Sandeep; Pandey, Rajesh

doi:10.1128/spectrum.04292-22

Cited by 7 publications

(2 citation statements)

References 60 publications

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“…Learning from the differential disease trajectory/symptoms during and after COVID-19 globally as well as multitude of studies from our Lab, wherein we intended to understand the human host response to SARS-CoV-2 using the RNA isolated from nasopharyngeal swab samples, we used the same sample source for SARS-CoV-2 detection as well as RNA-Seq to study the host transcriptome 39 , 40 . Herein, in order to identify the early predictor of dengue disease severity, we employed the RNA isolated from dengue patients’ serum samples, which is used for dengue NS1 Ag testing.…”

Section: Discussionmentioning

confidence: 99%

Early transcriptomic host response signatures in the serum of dengue patients provides insights into clinical pathogenesis and disease severity

Yadav,

Shamim,

Ravi

et al. 2023

Sci Rep

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Dengue virus (DENV), known to cause viral infection, belongs to the family Flaviviridae, having four serotypes (DENV1-4) that spreads by the bite of the Aedes aegypti mosquito. India has been suffering from dengue outbreaks annually with widespread epidemics by prevalence of all the four DENV serotypes. The diverse spectrum of clinical manifestations in dengue infection, mild to severe forms, makes the need of timely diagnosis and prompt treatment an essence. The identification of a dengue host response signature in serum can increase the understanding of dengue pathogenesis since most dengue NS1 Ag tests have been developed and evaluated in serum samples. Here, to understand the same, we undertook a dual RNA-sequencing (RNA-Seq) based approach from the serum samples of dengue-infected patients. The results thus yield the early transcriptional signatures that discriminated the high viral reads patients from patients who had low dengue viral reads. We identified a significant upregulation of two sets of genes, key antiviral (IFIT3, RSAD2, SAT1) and vascular dysfunction (TNFS10, CXCL8) related genes in the high viral reads group. Deeper delving of this gene profile revealed a unique two-way response, where the antiviral genes can mediate the disease course to mild, contrarily the increased expression of the other gene set might act as pointers of severe disease course. Further, we explored the hematologic parameters from the complete blood count (CBC), which suggests that lymphocytes (low) and neutrophils (high) might serve as an early predictor of prognosis in dengue infection. Collectively, our findings give insights into the foundation for further investigation of the early host response using the RNA isolated from dengue patients’ serum samples and opens the door for careful monitoring of the early clinical and transcriptome profiles for management of the dengue patients.

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Section: Discussionmentioning

confidence: 99%

Early transcriptomic host response signatures in the serum of dengue patients provides insights into clinical pathogenesis and disease severity

Yadav,

Shamim,

Ravi

et al. 2023

Sci Rep

Self Cite

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“…Although this method allows for highresolution dynamic gene expression profiling, the bulk of RNA-seq based investigations focus only on genes rather than individual/ specific transcripts per gene. This is in part because of the fact that gene-level studies are thought to be more robust and produce more empirically actionable results (7,8). However, it is important to recognize that transcript-level analysis provides a granular understanding of alternative splicing, isoform expression, and posttranscriptional modifications, which can uncover novel insights into gene regulation and biological processes (9).…”

Section: Introductionmentioning

confidence: 99%

Suppressed transcript diversity and immune response in COVID-19 ICU patients: a longitudinal study

Mehta,

Chattopadhyay,

Mohite

et al. 2023

Life Sci. Alliance

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Understanding the dynamic changes in gene expression during Acute Respiratory Distress Syndrome (ARDS) progression in post-acute infection patients is crucial for unraveling the underlying mechanisms. Study investigates the longitudinal changes in gene/transcript expression patterns in hospital-admitted severe COVID-19 patients with ARDS post-acute SARS-CoV-2 infection. Blood samples were collected at three time points and patients were stratified into severe and mild ARDS, based on their oxygenation saturation (SpO2/FiO2) kinetics over 7 d. Decline in transcript diversity was observed over time, particularly in patients with higher severity, indicating dysregulated transcriptional landscape. Comparing gene/transcript-level analyses highlighted a rather limited overlap. With disease progression, a transition towards an inflammatory state was evident. Strong association was found between antibody response and disease severity, characterized by decreased antibody response and activated B cell population in severe cases. Bayesian network analysis identified various factors associated with disease progression and severity, viz. humoral response, TLR signaling, inflammatory response, interferon response, and effector T cell abundance. The findings highlight dynamic gene/transcript expression changes during ARDS progression, impact on tissue oxygenation and elucidate disease pathogenesis.

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Immunocompromised or Inter-individual Variabilities?

Mehta,

Pandey

2024

Pathogens and Environmental Impact on Life Forms

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Intertwined Dysregulation of Ribosomal Proteins and Immune Response Delineates SARS-CoV-2 Vaccination Breakthroughs

Cited by 7 publications

References 60 publications

Early transcriptomic host response signatures in the serum of dengue patients provides insights into clinical pathogenesis and disease severity

Early transcriptomic host response signatures in the serum of dengue patients provides insights into clinical pathogenesis and disease severity

Suppressed transcript diversity and immune response in COVID-19 ICU patients: a longitudinal study

Immunocompromised or Inter-individual Variabilities?

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