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Research Article

Quantification of circulating Mycobacterium tuberculosis antigen peptides allows rapid diagnosis of active disease and treatment monitoring

Chang Liu, Zhen Zhao, Jia Fan, Christopher J. Lyon, Hung-Jen Wu, Dobrin Nedelkov, Adrian M. Zelazny, Kenneth N. Olivier, Lisa H. Cazares, Steven M. Holland, Edward A. Graviss, and Ye Hu
  1. aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
  2. bSchool of Biological and Health Systems Engineering, Arizona State University, Tempe, AZ 85287;
  3. cVirginia G. Piper Biodesign Center for Personalized Diagnostics, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
  4. dDepartment of Laboratory Medicine, Clinical Center, National Institutes of Health, Bethesda, MD 20892;
  5. eDepartment of Chemical Engineering, Texas A&M University, College Station, TX 77843;
  6. fMolecular Biomarkers Laboratory, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
  7. gCardiovascular and Pulmonary Branch, National Heart, Lung, and Blood Institute, Bethesda, MD 20892;
  8. hMolecular and Translational Sciences, US Army Medical Research Institute of Infectious Diseases, Frederick, MD 21702;
  9. iLaboratory of Clinical Infectious Diseases, National Institute of Allergy and Infectious Diseases, Bethesda, MD 20892;
  10. jDepartment of Pathology and Genomic Medicine, Houston Methodist Research Institute, Houston, TX 77030

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PNAS first published March 27, 2017; https://doi.org/10.1073/pnas.1621360114
Chang Liu
aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
bSchool of Biological and Health Systems Engineering, Arizona State University, Tempe, AZ 85287;
cVirginia G. Piper Biodesign Center for Personalized Diagnostics, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
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Zhen Zhao
dDepartment of Laboratory Medicine, Clinical Center, National Institutes of Health, Bethesda, MD 20892;
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Jia Fan
aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
cVirginia G. Piper Biodesign Center for Personalized Diagnostics, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
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Christopher J. Lyon
aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
cVirginia G. Piper Biodesign Center for Personalized Diagnostics, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
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Hung-Jen Wu
aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
eDepartment of Chemical Engineering, Texas A&M University, College Station, TX 77843;
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Dobrin Nedelkov
fMolecular Biomarkers Laboratory, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
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Adrian M. Zelazny
dDepartment of Laboratory Medicine, Clinical Center, National Institutes of Health, Bethesda, MD 20892;
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Kenneth N. Olivier
gCardiovascular and Pulmonary Branch, National Heart, Lung, and Blood Institute, Bethesda, MD 20892;
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Lisa H. Cazares
hMolecular and Translational Sciences, US Army Medical Research Institute of Infectious Diseases, Frederick, MD 21702;
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Steven M. Holland
iLaboratory of Clinical Infectious Diseases, National Institute of Allergy and Infectious Diseases, Bethesda, MD 20892;
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Edward A. Graviss
jDepartment of Pathology and Genomic Medicine, Houston Methodist Research Institute, Houston, TX 77030
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Ye Hu
aDepartment of Nanomedicine, Houston Methodist Research Institute, Houston, TX 77030;
bSchool of Biological and Health Systems Engineering, Arizona State University, Tempe, AZ 85287;
cVirginia G. Piper Biodesign Center for Personalized Diagnostics, The Biodesign Institute, Arizona State University, Tempe, AZ 85287;
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  • For correspondence: tyhu@asu.edu
  1. Edited by William R. Jacobs Jr., Albert Einstein College of Medicine, Howard Hughes Medical Institute, Bronx, NY, and approved February 17, 2017 (received for review January 6, 2017)

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Significance

Active Mycobacterium tuberculosis (Mtb) infections represent a significant global health threat, but can be difficult to diagnose and manage owing to the nonquantitative nature and relatively poor performance of current frontline sputum-based diagnostic assays, which can be further degraded by certain Mtb manifestations. This study describes the development of a rapid and quantitative blood-based assay with high sensitivity and specificity for active Mtb infections that can be used to monitor responses to antimycobacterial therapy. Our method combines antibody-labeled, energy-focusing nanodisks with high-throughput mass spectrometry to enhance the detection of Mtb-specific peptides in digested serum samples, and should allow rapid clinical translation. This approach also should be applicable to other infectious diseases, particularly those for which conventional immunoassays exhibit suboptimal performance.

Abstract

Tuberculosis (TB) is a major global health threat, resulting in an urgent unmet need for a rapid, non–sputum-based quantitative test to detect active Mycobacterium tuberculosis (Mtb) infections in clinically diverse populations and quickly assess Mtb treatment responses for emerging drug-resistant strains. We have identified Mtb-specific peptide fragments and developed a method to rapidly quantify their serum concentrations, using antibody-labeled and energy-focusing porous discoidal silicon nanoparticles (nanodisks) and high-throughput mass spectrometry (MS) to enhance sensitivity and specificity. NanoDisk-MS diagnosed active Mtb cases with high sensitivity and specificity in a case-control study with cohorts reflecting the complexity of clinical practice. Similar robust sensitivities were obtained for cases of culture-positive pulmonary TB (PTB; 91.3%) and extrapulmonary TB (EPTB; 92.3%), and the sensitivities obtained for culture-negative PTB (82.4%) and EPTB (75.0%) in HIV-positive patients significantly outperformed those reported for other available assays. NanoDisk-MS also exhibited high specificity (87.1–100%) in both healthy and high-risk groups. Absolute quantification of serum Mtb antigen concentration was informative in assessing responses to antimycobacterial treatment. Thus, a NanoDisk-MS assay approach could significantly improve the diagnosis and management of active TB cases, and perhaps other infectious diseases as well.

  • tuberculosis
  • blood test
  • nanodisk
  • rapid diagnosis
  • treatment monitoring

Footnotes

  • ↵1To whom correspondence should be addressed. Email: tyhu{at}asu.edu.
  • Author contributions: C.L., Z.Z., and Y.H. designed research; C.L., J.F., H.-J.W., and D.N. performed research; E.A.G. contributed clinical samples; C.L., Z.Z., J.F., C.J.L., A.M.Z., K.N.O., L.H.C., S.M.H., E.A.G., and Y.H. analyzed data; and C.L., Z.Z., C.J.L., A.M.Z., L.H.C., S.M.H., E.A.G., and Y.H. wrote the paper.

  • The authors declare no conflict of interest.

  • This article is a PNAS Direct Submission.

  • This article contains supporting information online at www.pnas.org/lookup/suppl/doi:10.1073/pnas.1621360114/-/DCSupplemental.

Freely available online through the PNAS open access option.

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TB diagnosis and therapy analysis by serum antigen
Chang Liu, Zhen Zhao, Jia Fan, Christopher J. Lyon, Hung-Jen Wu, Dobrin Nedelkov, Adrian M. Zelazny, Kenneth N. Olivier, Lisa H. Cazares, Steven M. Holland, Edward A. Graviss, Ye Hu
Proceedings of the National Academy of Sciences Mar 2017, 201621360; DOI: 10.1073/pnas.1621360114

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TB diagnosis and therapy analysis by serum antigen
Chang Liu, Zhen Zhao, Jia Fan, Christopher J. Lyon, Hung-Jen Wu, Dobrin Nedelkov, Adrian M. Zelazny, Kenneth N. Olivier, Lisa H. Cazares, Steven M. Holland, Edward A. Graviss, Ye Hu
Proceedings of the National Academy of Sciences Mar 2017, 201621360; DOI: 10.1073/pnas.1621360114
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