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Mass Spectrometric Analysis of Urine from COVID-19 Patients for Detection of SARS-CoV-2 Viral Antigen and to Study Host Response.
Chavan, Sandip; Mangalaparthi, Kiran K; Singh, Smrita; Renuse, Santosh; Vanderboom, Patrick M; Madugundu, Anil Kumar; Budhraja, Rohit; McAulay, Kathrine; Grys, Thomas E; Rule, Andrew D; Alexander, Mariam P; O'Horo, John C; Badley, Andrew D; Pandey, Akhilesh.
  • Chavan S; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Mangalaparthi KK; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Singh S; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Renuse S; Institute of Bioinformatics, International Technology Park, Bangalore, 560066, Karnataka, India.
  • Vanderboom PM; Manipal Academy of Higher Education, Manipal, 576104, Karnataka, India.
  • Madugundu AK; Center for Molecular Medicine, National Institute of Mental Health and Neurosciences, Hosur Road, Bangalore, 560029, Karnataka, India.
  • Budhraja R; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • McAulay K; Center for Individualized Medicine, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Grys TE; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Rule AD; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Alexander MP; Manipal Academy of Higher Education, Manipal, 576104, Karnataka, India.
  • O'Horo JC; Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota 55905, United States.
  • Badley AD; Department of Laboratory Medicine and Pathology, Mayo Clinic, Phoenix, Arizona 85054, United States.
  • Pandey A; Department of Laboratory Medicine and Pathology, Mayo Clinic, Phoenix, Arizona 85054, United States.
J Proteome Res ; 20(7): 3404-3413, 2021 07 02.
Article in English | MEDLINE | ID: covidwho-1253877
ABSTRACT
SARS-CoV-2 infection has become a major public health burden and affects many organs including lungs, kidneys, the liver, and the brain. Although the virus is readily detected and diagnosed using nasopharyngeal swabs by reverse transcriptase polymerase chain reaction (RT-PCR), detection of its presence in body fluids is fraught with difficulties. A number of published studies have failed to detect viral RNA by RT-PCR methods in urine. Although microbial identification in clinical microbiology using mass spectrometry is undertaken after culture, here we undertook a mass spectrometry-based approach that employed an enrichment step to capture and detect SARS-CoV-2 nucleocapsid protein directly from urine of COVID-19 patients without any culture. We detected SARS-CoV-2 nucleocapsid protein-derived peptides from 13 out of 39 urine samples. Further, a subset of COVID-19 positive and COVID-19 negative urine samples validated by mass spectrometry were used for the quantitative proteomics analysis. Proteins with increased abundance in urine of SARS-CoV-2 positive individuals were enriched in the acute phase response, regulation of complement system, and immune response. Notably, a number of renal proteins such as podocin (NPHS2), an amino acid transporter (SLC36A2), and sodium/glucose cotransporter 5 (SLC5A10), which are intimately involved in normal kidney function, were decreased in the urine of COVID-19 patients. Overall, the detection of viral antigens in urine using mass spectrometry and alterations of the urinary proteome could provide insights into understanding the pathogenesis of COVID-19.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Body Fluids / COVID-19 Type of study: Prognostic study Limits: Humans Language: English Journal: J Proteome Res Journal subject: Biochemistry Year: 2021 Document Type: Article Affiliation country: Acs.jproteome.1c00391

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Body Fluids / COVID-19 Type of study: Prognostic study Limits: Humans Language: English Journal: J Proteome Res Journal subject: Biochemistry Year: 2021 Document Type: Article Affiliation country: Acs.jproteome.1c00391