A rapid and sensitive method to detect SARS-CoV-2 virus using targeted-mass spectrometry

Singh, Praveen; Chakraborty, Rahul; Marwal, Robin; Radhakrishan, V S; Bhaskar, Akash Kumar; Vashisht, Himanshu; Dhar, Mahesh Shanker; Pradhan, Shalini; Ranjan, Gyan; Imran, Mohamed; Raj, Anurag; Sharma, Uma; Singh, Priyanka; Lall, Hemlata; Dutta, Meena; Garg, Parth; A, Ray; Dash, Debasis; Sivasubbu, Sridhar; Gogia, Hema; Madan, Preeti; Kabra, Sandhya; Singh, Sujeet Kumar; Agrawal, Anurag; Rakshit, Partha; Kumar, Pramod; Sengupta, Shantanu

doi:10.1007/s42485-020-00044-9

Cited by 48 publications

(48 citation statements)

References 16 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The pandemic has prompted many groups to explore the potential of LC-MS/MS for detection of SARS-CoV-2 as an alternative antigen testing methodology. 6 − 13 The available data support the potential of LC-MS/MS to achieve >90% sensitivity and nearly 100% specificity when using quantitative reverse transcription-polymerase chain reaction (qRT-PCR) testing as the benchmark. 6 , 10 , 13 …”

Section: Introductionmentioning

confidence: 92%

See 1 more Smart Citation

Targeted Detection of SARS-CoV-2 Nucleocapsid Sequence Variants by Mass Spectrometric Analysis of Tryptic Peptides

et al. 2021

View full text Add to dashboard Cite

COVID-19 vaccines are becoming more widely available, but accurate and rapid testing remains a crucial tool for slowing the spread of the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) virus. Although the quantitative reverse transcription-polymerase chain reaction (qRT-PCR) remains the most prevalent testing methodology, numerous tests have been developed that are predicated on detection of the SARS-CoV-2 nucleocapsid protein, including liquid chromatography-tandem mass spectrometry (LC-MS/MS) and immunoassay-based approaches. The continuing emergence of SARS-CoV-2 variants has complicated these approaches, as both qRT-PCR and antigen detection methods can be prone to missing viral variants. In this study, we describe several COVID-19 cases where we were unable to detect the expected peptide targets from clinical nasopharyngeal swabs. Whole genome sequencing revealed that single nucleotide polymorphisms in the gene encoding the viral nucleocapsid protein led to sequence variants that were not monitored in the targeted assay. Minor modifications to the LC-MS/MS method ensured detection of the variants of the target peptide. Additional nucleocapsid variants could be detected by performing the bottom-up proteomic analysis of whole viral genome-sequenced samples. This study demonstrates the importance of considering variants of SARS-CoV-2 in the assay design and highlights the flexibility of mass spectrometry-based approaches to detect variants as they evolve.

show abstract

Section: Introductionmentioning

confidence: 92%

“… 6 − 13 The available data support the potential of LC-MS/MS to achieve >90% sensitivity and nearly 100% specificity when using quantitative reverse transcription-polymerase chain reaction (qRT-PCR) testing as the benchmark. 6 , 10 , 13 …”

Section: Introductionmentioning

confidence: 92%

Targeted Detection of SARS-CoV-2 Nucleocapsid Sequence Variants by Mass Spectrometric Analysis of Tryptic Peptides

et al. 2021

View full text Add to dashboard Cite

show abstract

“…A majority of authors developed analytical methods to find specific peptides for straight identification of the virus. Two major strategies were pursued, some studies were focused on the detection of main proteins from the virus nucleocapsid [ [33] , [34] , [35] , [36] ] while other research groups opted to search for a more comprehensive peptide/proteome profile [ [37] , [38] , [39] , [40] , [41] ].…”

Section: Diagnosismentioning

confidence: 99%

“…Besides the nucleocapsid protein of SARS-CoV-2, some studies were focused on finding other peptides that could spot the virus using nasopharyngeal or oropharyngeal swabs [ 38 , 40 , 42 ] and Vero cells [ 39 ] as samples. An initial peptide screening was performed using nanoLC-ESI-QOrbitrap MS system, followed by a target analysis carried out by turbulent flow chromatography (TFC) coupled with a QqQ mass spectrometer fitted with HESI source system [ 37 ].…”

Section: Diagnosismentioning

confidence: 99%

Mass spectrometry applied to diagnosis, prognosis, and therapeutic targets identification for the novel coronavirus SARS-CoV-2: A review

Lima

Fernandes

Alves

et al. 2022

Analytica Chimica Acta

View full text Add to dashboard Cite

Mass spectrometry (MS) has found numerous applications in medicine and has been widely used in the detection and characterization of biomolecules associated with viral infections such as COVID-19. COVID-19 is a multisystem disease and, therefore, the need arises to carry out a careful and conclusive assessment of the pathophysiological parameters involved in the infection, to develop an effective therapeutic approach, assess the prognosis of the disease, and especially the early diagnosis of the infected population. Thus, the urgent need for highly accurate methods of diagnosis and prognosis of this infection presents new challenges for the development of laboratory medicine, whose methods require sensitivity, speed, and accuracy of the techniques for analyzing the biological markers involved in the infection. In this context, MS stands out as a robust analytical tool, with high sensitivity and selectivity, accuracy, low turnaround time, and versatility for the analysis of biological samples. However, it has not yet been adopted as a frontline clinical laboratory technique. Therefore, this review explores the potential and trends of current MS methods and their contribution to the development of new strategies to COVID-19 diagnosis and prognosis and how this tool can assist in the discovery of new therapeutic targets, in addition, to comment what could be the future of MS in medicine.

show abstract

“…Many efforts have been explored to make the MS-detection process high-throughput, highly accurate, and sensitive [32][33][34][35].…”

Section: Introductionmentioning

confidence: 99%

MALDI MS-Based Investigations for SARS-CoV-2 Detection

Preianò

Correnti

Pelaia

et al. 2021

BioChem

View full text Add to dashboard Cite

The urgent need to fight the COVID-19 pandemic has impressively stimulated the efforts of the international scientific community, providing an extraordinary wealth of studies. After the sequence of the virus became available in early January 2020, safe and effective vaccines were developed in a time frame much shorter than everybody expected. However, additional studies are required since viral mutations have the potential of facilitating viral transmission, thus reducing the efficacy of developed vaccines. Therefore, improving the current laboratory testing methods and developing new rapid and reliable diagnostic approaches might be useful in managing contact tracing in the fight against both the original SARS-CoV-2 strain and the new, potentially fast-spreading CoV-2 variants. Mass Spectrometry (MS)-based testing methods are being explored, with the challenging promise to overcome the many limitations arising from currently used laboratory testing assays. More specifically, MALDI-MS, since its advent in the mid 1980s, has demonstrated without any doubt the great potential to overcome many unresolved analytical challenges, becoming an effective proteomic tool in several applications, including pathogen identification. With the aim of highlighting the challenges and opportunities that derive from MALDI-based approaches for the detection of SARS-CoV-2 and its variants, we extensively examined the most promising proofs of concept for MALDI studies related to the COVID-19 outbreak.

show abstract

A rapid and sensitive method to detect SARS-CoV-2 virus using targeted-mass spectrometry

Cited by 48 publications

References 16 publications

Targeted Detection of SARS-CoV-2 Nucleocapsid Sequence Variants by Mass Spectrometric Analysis of Tryptic Peptides

Targeted Detection of SARS-CoV-2 Nucleocapsid Sequence Variants by Mass Spectrometric Analysis of Tryptic Peptides

Mass spectrometry applied to diagnosis, prognosis, and therapeutic targets identification for the novel coronavirus SARS-CoV-2: A review

MALDI MS-Based Investigations for SARS-CoV-2 Detection

Contact Info

Product

Resources

About