High affinity of host human microRNAs to SARS-CoV-2 genome: An in silico analysis

Jafarinejad-Farsangi, Saeideh; Jazi, Maryam Moazzam; Rostamzadeh, Farzaneh; Hadizadeh, Morteza

doi:10.1016/j.ncrna.2020.11.005

Cited by 73 publications

(87 citation statements)

References 44 publications

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“…MiRNA target-prediction software is a useful tool for predicting targets of miRNAs and identifying cellular miRNAs, due to its ability to bind to the virus genome and its ability to act as anti-viral miRNAs [48] . Recently, in silico analyses of the interaction between cellular miRNAs and the SARS-CoV-2 genome were performed by Jafarinejad-Farsang et al [52] . In this study it was predicted that the sequences of miR-29 family members have the ability to bind to the SARS-COV-2 genome and are bound to the coding sequence for SARS-CoV-2 spike.…”

Section: Discussionmentioning

confidence: 99%

“…In this study it was predicted that the sequences of miR-29 family members have the ability to bind to the SARS-COV-2 genome and are bound to the coding sequence for SARS-CoV-2 spike. Furthermore, miR-146a, let-7b, let-7e, miR-21 and miR-16 were identified as miRNAs targeting differentially expressed genes (DEGs) in SARS-CoV-2 infected lung cells [52] . Ma and colleagues [53] found that let‐7c was significantly overexpressed in influenza‐infected A549 cells and that it can act as an anti-influenza miRNA through reduction of M1 protein of HINI influenza A in A549 cells [53] .…”

Section: Discussionmentioning

confidence: 99%

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Acute and post-acute phase of COVID-19: Analyzing expression patterns of miRNA-29a-3p, 146a-3p, 155-5p, and let-7b-3p in PBMC

Donyavi

Bokharaei‐Salim

Baghi

et al. 2021

International Immunopharmacology

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Background When a new pathogen, such as severe acute respiratory syndrome coronavirus 2, appears all novel information can aid in the process of monitoring and in the diagnosis of the coronavirus disease (COVID‐19). The aim of the current study is to elucidate the specific miRNA profile which can act as new biomarkers for distinguishing acute COVID-19 disease from the healthy group and those in the post-acute phase of the COVID-19 disease. Methods The expression level of selected miRNAs including let-7b-3p, miR-29a-3p, miR-146a-3p and miR-155-5p were evaluated in peripheral blood mononuclear cells (PBMCs) of COVID-19 patients, in both the acute and post-acute COVID-19 phase of the disease and healthy groups, by real-time PCR assays. Specificity and sensitivity of miRNAs was tested by receiver operating characteristic (ROC) analysis in COVID-19 patients. Results The expression level of all miRNAs in COVID-19 patients was significantly higher than in the healthy group. Therefore, the expression pattern of miR-29a-3p, miR-146a-3p and let-7b-3p in the post-acute COVID-19 phase was significantly different from the acute COVID-19 phase. ROC analyses demonstrated that miR-29a-3p, -155-5p and -146a-3p may serve as the novel biomarker for COVID-19 diagnosis with high specificity and sensitivity. In addition, miR-29a-3p, and -146a-3p can maybe act as novel biomarkers for distinguishing acute from post-acute phase of COVID-19 disease. Discussion The difference in miRNA expression pattern between COVID-19 patients and those in the healthy group, and between acute COVID-19 with post-acute COVID-19, suggested that cellular miRNAs could be used as promising biomarkers for diagnosis and monitoring of COVID-19.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Acute and post-acute phase of COVID-19: Analyzing expression patterns of miRNA-29a-3p, 146a-3p, 155-5p, and let-7b-3p in PBMC

Donyavi

Bokharaei‐Salim

Baghi

et al. 2021

International Immunopharmacology

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“…RNA sequencing of SARS‐CoV‐ and influenza A‐infected lung tissues of mice also demonstrated the key roles of lncRNAs in respiratory virus pathogenesis via stimulating the interferon (IFN) production 3 . In our recent work, we found that the miR‐29 family has the most binding sites (11 sites) on the SARS‐CoV‐2 genome 4 . However, to our knowledge, there is not any report on investigating the physical interaction of human differentially expressed lncRNAs with SARS‐CoV‐2.…”

Section: Introductionmentioning

confidence: 99%

Interplay between SARS‐CoV‐2 and human long non‐coding RNAs

Moazzam-Jazi

Lanjanian

Maleknia

et al. 2021

J Cellular Molecular Medi

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The long non‐coding RNAs (lncRNAs) play a critical regulatory role in the host response to the viral infection. However, little is understood about the transcriptome architecture, especially lncRNAs pattern during the SARS‐CoV‐2 infection. In the present study, using publicly available RNA sequencing data of bronchoalveolar lavage fluid (BALF) and peripheral blood mononuclear cells (PBMC) samples from COVID‐19 patients and healthy individuals, three interesting findings highlighted: (a) More than half of the interactions between lncRNAs‐PCGs of BALF samples established by three trans‐acting lncRNAs (HOTAIRM1, PVT1 and AL392172.1), which also exhibited the high affinity for binding to the SARS‐CoV‐2 genome, suggesting the major regulatory role of these lncRNAs during the SARS‐CoV‐2 infection. (b) lncRNAs of MALAT1 and NEAT1 are possibly contributed to the inflammation development in the SARS‐CoV‐2 infected cells. (c) In contrast to the 3′ part of the SARS‐CoV‐2 genome, the 5′ part can interact with many human lncRNAs. Therefore, the mRNA‐based vaccines will not show any side effects because of the off‐label interactions with the human lncRNAs. Overall, the putative functionalities of lncRNAs can be promising to design the non‐coding RNA‐based drugs and to inspect the efficiency of vaccines to overcome the current pandemic.

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“…This oncogenic miRNA associates with poor survival of lung cancer patients [ 262 ] and has been reported to promote inflammatory response [ 214 ]. In an in silico study, miR-29 family of miRNAs were found to have the most binding sites (11 sites) on SARS-Cov-2 genome [ 263 ]. Members of this family have been reported to exert tumor suppressive effects in lung cancer with role in sensitivity to cisplatin [ 264 , 265 ], and also found to antagonize inflammatory mechanisms in multiple diseases [ 266 , 267 ].…”

Section: Micrornas As Epigenetic Regulators Connecting Inflammation mentioning

confidence: 99%

Epigenetic underpinnings of inflammation: Connecting the dots between pulmonary diseases, lung cancer and COVID-19

Ahmad

Manzoor

Siddiqui

et al. 2022

Seminars in Cancer Biology

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Inflammation is an essential component of several respiratory diseases, such as chronic obstructive pulmonary disease (COPD), asthma and acute respiratory distress syndrome (ARDS). It is central to lung cancer, the leading cancer in terms of associated mortality that has affected millions of individuals worldwide. Inflammation and pulmonary manifestations are also the major causes of COVID-19 related deaths. Acute hyperinflammation plays an important role in the COVID-19 disease progression and severity, and development of protective immunity against the virus is greatly sought. Further, the severity of COVID-19 is greatly enhanced in lung cancer patients, probably due to the genes such as ACE2, TMPRSS2, PAI-1 and furin that are commonly involved in cancer progression as well as SAR-CoV-2 infection. The importance of inflammation in pulmonary manifestations, cancer and COVID-19 calls for a closer look at the underlying processes, particularly the associated increase in IL-6 and other cytokines, the dysregulation of immune cells and the coagulation pathway. Towards this end, several reports have identified epigenetic regulation of inflammation at different levels. Expression of several key inflammation-related cytokines, chemokines and other genes is affected by methylation and acetylation while non-coding RNAs, including microRNAs as well as long non-coding RNAs, also affect the overall inflammatory responses. Select miRNAs can regulate inflammation in COVID-19 infection, lung cancer as well as other inflammatory lung diseases, and can serve as epigenetic links that can be therapeutically targeted. Furthermore, epigenetic changes also mediate the environmental factors-induced inflammation. Therefore, a better understanding of epigenetic regulation of inflammation can potentially help develop novel strategies to prevent, diagnose and treat chronic pulmonary diseases, lung cancer and COVID-19.

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High affinity of host human microRNAs to SARS-CoV-2 genome: An in silico analysis

Cited by 73 publications

References 44 publications

Acute and post-acute phase of COVID-19: Analyzing expression patterns of miRNA-29a-3p, 146a-3p, 155-5p, and let-7b-3p in PBMC

Acute and post-acute phase of COVID-19: Analyzing expression patterns of miRNA-29a-3p, 146a-3p, 155-5p, and let-7b-3p in PBMC

Interplay between SARS‐CoV‐2 and human long non‐coding RNAs

Epigenetic underpinnings of inflammation: Connecting the dots between pulmonary diseases, lung cancer and COVID-19

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