A simple and fast spectroscopy-based technique for Covid-19 diagnosis

Kitane, Driss Lahlou; LOUKMAN, Salma; Marchoudi, Nabila; Fernandez-Galiana, A.; Ansari, Fatima Zahra El; Jouali, Farah; Badir, Jamal; Gala, Jean‐Luc; Bertsimas, Dimitris; Azami, Nawfal; Lakbita, Omar; Moudam, Omar; Benhida, Rachid; Fekkak, Jamal

doi:10.1038/s41598-021-95568-5

Cited by 40 publications

(30 citation statements)

References 50 publications

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“…Saliva FTIR spectra of this COVID.POS FU.NEG group displayed reduced saccharide (ribose) bands (1038 cm −1 and 1074 cm −1 ) compared with COVID.POS FU.POS . These bands coincided with the ATR-FTIR bands for extracted SARS-CoV-2 RNA [53], in agreement with the PCR results; however, this difference in saccharide absorbance may also indicate recovery from the previously described, hyperglycemic state. This group also showed reduced signal in the finger print region, proposed by Martinez-Cuazitl et al [9] to represent immunoglobulins IgG, IgM, and IgA.…”

Section: Discussionsupporting

confidence: 88%

Pathophysiological Response to SARS-CoV-2 Infection Detected by Infrared Spectroscopy Enables Rapid and Robust Saliva Screening for COVID-19

et al. 2022

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Fourier transform infrared (FTIR) spectroscopy provides a (bio)chemical snapshot of the sample, and was recently used in proof-of-concept cohort studies for COVID-19 saliva screening. However, the biological basis of the proposed technology has not been established. To investigate underlying pathophysiology, we conducted controlled infection experiments on Vero E6 cells in vitro and K18-hACE2 mice in vivo. Potentially infectious culture supernatant or mouse oral lavage samples were treated with ethanol or 75% (v/v) Trizol for attenuated total reflectance (ATR)-FTIR spectroscopy and proteomics, or RT-PCR, respectively. Controlled infection with UV-inactivated SARS-CoV-2 elicited strong biochemical changes in culture supernatant/oral lavage despite a lack of viral replication, determined by RT-PCR or a cell culture infectious dose 50% assay. Nevertheless, SARS-CoV-2 infection induced additional FTIR signals over UV-inactivated SARS-CoV-2 infection in both cell and mouse models, which correspond to aggregated proteins and RNA. Proteomics of mouse oral lavage revealed increased secretion of kallikreins and immune modulatory proteins. Next, we collected saliva from a cohort of human participants (n = 104) and developed a predictive model for COVID-19 using partial least squares discriminant analysis. While high sensitivity of 93.48% was achieved through leave-one-out cross-validation, COVID-19 patients testing negative on follow-up on the day of saliva sampling using RT-PCR was poorly predicted in this model. Importantly, COVID-19 vaccination did not lead to the misclassification of COVID-19 negatives. Finally, meta-analysis revealed that SARS-CoV-2 induced increases in the amide II band in all arms of this study and in recently published cohort studies, indicative of altered β-sheet structures in secreted proteins. In conclusion, this study reveals a consistent secretory pathophysiological response to SARS-CoV-2, as well as a simple, robust method for COVID-19 saliva screening using ATR-FTIR.

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Section: Discussionsupporting

confidence: 88%

Pathophysiological Response to SARS-CoV-2 Infection Detected by Infrared Spectroscopy Enables Rapid and Robust Saliva Screening for COVID-19

et al. 2022

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“…Kitane et al [ 26 ] had reported an unparalleled, fast, reagent-free, and user-friendly screening spectroscopic method for the detection of SARS-CoV-2 on RNA extracts. This method was verified on clinical samples collected from 280 patients with quantitative predictive scores on both positive and negative samples.…”

Section: Ftir Spectroscopy–based Detection Of Covid-19mentioning

confidence: 99%

“…2 The schematic diagram exhibiting sequential FT-IR-based assay for the detection of SARS-CoV-2, which consisted of sample collection, RNA extraction, FTIR analysis, and subsequent machine learning. (Reprinted with permission from Kitane et al [ 26 ]. Copyright (2021) Nature Portfolio) …”

Section: Ftir Spectroscopy–based Detection Of Covid-19mentioning

confidence: 99%

Spectroscopy: a versatile sensing tool for cost-effective and rapid detection of novel coronavirus (COVID-19)

Sur

Santra²

2022

emergent mater.

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The deadly novel coronavirus SARS-CoV-2 is responsible for COVID-19, which was first recognized in Wuhan, China, in December 2019. Rapid identification at primary stage of the novel coronavirus, SARS-CoV-2, is important to restrict it and prevent the pandemic. Real-time RT-PCR assays are the best diagnostic tests presently available for SARS-CoV-2 detection, which are highly sensitive, even though expensive equipment and trained technicians are necessary. Furthermore, the method has moderately long time bound. This deadly viral infection can also be detected by applying various spectroscopic techniques as spectroscopy can provide fast, precise identification and monitoring, leading to the overall understanding of its mutation rates, which will further facilitate antiviral drug development as well as vaccine development. It is an innovative and non-invasive technique for combating the spread of novel coronavirus. This review article demonstrates the application of various spectroscopic techniques to detect COVID-19 rapidly. Different spectroscopy-based detection protocols and additional development of new, novel sensors and biosensors along with diagnostic kits had been described here stressing the status of sensitive diagnostic systems to handle with the COVID-19 outbreak.

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“…Nasopharyngeal samples collected from 280 patients were processed to extract the RNA. The FTIR spectral domains lying at 600‐1350 cm −1 ; 1500‐1700 cm −1 ; and 2300‐3900 cm −1 were attributed to RNA fingerprints [ 20 ]. The derivatives of the raw spectra obtained were used to normalize the data of the transformed spectra; machine learning algorithms were used to build classification models.…”

Section: Molecular Spectroscopic Techniquesmentioning

confidence: 99%

Novel photonic methods for diagnosis of SARS‐CoV‐2 infection

Joshi

Shukla

Narayan

2022

Transl Biophotonics

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The COVID-19 pandemic that began in March 2020 continues in many countries. The ongoing pandemic makes early diagnosis a crucial part of efforts to prevent the spread of SARS-CoV-2 infections. As such, the development of a rapid, reliable, and low-cost technique with increased sensitivity for detection of SARS-CoV-2 is an important priority of the scientific community. At present, nucleic acid-based techniques are primarily used as the reference approach for the detection of SARS-CoV-2 infection. However, in several cases, false positive results have been observed with these techniques. Due to the drawbacks associated with existing techniques, the development of new techniques for the diagnosis of COVID-19 is an important research activity. We provide an overview of novel diagnostic methods for SARS-CoV-2 diagnosis that integrate photonic technology with artificial intelligence. Recent developments in emerging diagnostic techniques based on the principles of advanced molecular spectroscopy and microscopy are considered.

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A simple and fast spectroscopy-based technique for Covid-19 diagnosis

Cited by 40 publications

References 50 publications

Pathophysiological Response to SARS-CoV-2 Infection Detected by Infrared Spectroscopy Enables Rapid and Robust Saliva Screening for COVID-19

Pathophysiological Response to SARS-CoV-2 Infection Detected by Infrared Spectroscopy Enables Rapid and Robust Saliva Screening for COVID-19

Spectroscopy: a versatile sensing tool for cost-effective and rapid detection of novel coronavirus (COVID-19)

Novel photonic methods for diagnosis of SARS‐CoV‐2 infection

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