Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue

Laser capture microdissection (LCM) coupled to label-free quantitative mass spectrometry is a viable strategy to identify biomarkers from infected tissues. In this study, LCM was employed to take a “snapshot” of proteins produced in vivo during <i>Coccidiodies</i> spp. infection in human...

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Main Authors: Natalie M. Mitchell, Surendra Dasari, Thomas E. Grys, Douglas F. Lake
Format: Article
Language:English
Published: MDPI AG 2020-12-01
Series:Journal of Fungi
Subjects:
Online Access:https://www.mdpi.com/2309-608X/6/4/365
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author Natalie M. Mitchell
Surendra Dasari
Thomas E. Grys
Douglas F. Lake
author_facet Natalie M. Mitchell
Surendra Dasari
Thomas E. Grys
Douglas F. Lake
author_sort Natalie M. Mitchell
collection DOAJ
description Laser capture microdissection (LCM) coupled to label-free quantitative mass spectrometry is a viable strategy to identify biomarkers from infected tissues. In this study, LCM was employed to take a “snapshot” of proteins produced in vivo during <i>Coccidiodies</i> spp. infection in human lungs. Proteomic analysis of LCM lung sections revealed hundreds of hosts and Coccidioidal proteins. Twenty-seven highly abundant <i>Coccidioides</i> spp. proteins were identified which do not share significant sequence orthology with human proteins. Three of the 27 Coccidioidal proteins are also potential <i>Coccidoides</i>-specific biomarkers, as they also do not share sequence homology to any other pathogenic fungus or microbe. Gene ontology analysis of the 27 biomarker candidate proteins revealed enriched hydrolase activity and increased purine and carbohydrate metabolism functions. Finally, we provide proteomic evidence that all 27 biomarker candidates are produced by the fungus when grown in vitro in a media- and growth-phase dependent manner.
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spelling doaj.art-82724563af5348e1b09d78e6d23775652023-11-21T00:47:13ZengMDPI AGJournal of Fungi2309-608X2020-12-016436510.3390/jof6040365Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung TissueNatalie M. Mitchell0Surendra Dasari1Thomas E. Grys2Douglas F. Lake3School of Life Sciences, Mayo Clinic Collaborative Research Building, Arizona State University, Scottsdale, AZ 85259, USADepartment of Health Sciences Research, Mayo Clinic College of Medicine, Rochester, MN 55905, USADepartment of Laboratory Medicine and Pathology, Mayo Clinic, Phoenix, AZ 85054, USASchool of Life Sciences, Mayo Clinic Collaborative Research Building, Arizona State University, Scottsdale, AZ 85259, USALaser capture microdissection (LCM) coupled to label-free quantitative mass spectrometry is a viable strategy to identify biomarkers from infected tissues. In this study, LCM was employed to take a “snapshot” of proteins produced in vivo during <i>Coccidiodies</i> spp. infection in human lungs. Proteomic analysis of LCM lung sections revealed hundreds of hosts and Coccidioidal proteins. Twenty-seven highly abundant <i>Coccidioides</i> spp. proteins were identified which do not share significant sequence orthology with human proteins. Three of the 27 Coccidioidal proteins are also potential <i>Coccidoides</i>-specific biomarkers, as they also do not share sequence homology to any other pathogenic fungus or microbe. Gene ontology analysis of the 27 biomarker candidate proteins revealed enriched hydrolase activity and increased purine and carbohydrate metabolism functions. Finally, we provide proteomic evidence that all 27 biomarker candidates are produced by the fungus when grown in vitro in a media- and growth-phase dependent manner.https://www.mdpi.com/2309-608X/6/4/365<i>Coccidioides</i>Valley Feverbiomarkermass spectrometrylaser capture microdissection
spellingShingle Natalie M. Mitchell
Surendra Dasari
Thomas E. Grys
Douglas F. Lake
Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
Journal of Fungi
<i>Coccidioides</i>
Valley Fever
biomarker
mass spectrometry
laser capture microdissection
title Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
title_full Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
title_fullStr Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
title_full_unstemmed Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
title_short Laser Capture Microdissection-Assisted Protein Biomarker Discovery from <i>Coccidioides</i>-Infected Lung Tissue
title_sort laser capture microdissection assisted protein biomarker discovery from i coccidioides i infected lung tissue
topic <i>Coccidioides</i>
Valley Fever
biomarker
mass spectrometry
laser capture microdissection
url https://www.mdpi.com/2309-608X/6/4/365
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AT surendradasari lasercapturemicrodissectionassistedproteinbiomarkerdiscoveryfromicoccidioidesiinfectedlungtissue
AT thomasegrys lasercapturemicrodissectionassistedproteinbiomarkerdiscoveryfromicoccidioidesiinfectedlungtissue
AT douglasflake lasercapturemicrodissectionassistedproteinbiomarkerdiscoveryfromicoccidioidesiinfectedlungtissue