Full Text | PDF

Share on tweeters Share on facebook Share on linkedin Share on googleplus

Theranostics 2017; 7(2):238-252. doi:10.7150/thno.16086 This issue Cite

Research Paper

Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract

Yanbao Yu1✉, Patricia Sikorski1,#, Madeline Smith1, Cynthia Bowman-Gholston2, Nicolas Cacciabeve3, Karen E. Nelson1, Rembert Pieper1✉

1. J. Craig Venter Institute, 9714 Medical Center Drive, Rockville, MD 20850.
2. Quest Diagnostics at Shady Grove Adventist Hospital, 9901 Medical Center Drive, Rockville 20850, MD.
3. Advanced Pathology Associates LLC at Shady Grove Adventist Hospital, 9901 Medical Center Drive, Rockville 20850, MD.
# Current address: Laboratory of Parasitic Diseases, NIAID, NIH, 4 Memorial Drive, Bethesda 20892, MD; Department of Microbiology and Immunology, Georgetown University, 3900 Reservoir Road, N.W., 20057, Washington, DC.

✉ Corresponding authors: Yanbao Yu, email: yayuorg, tel: (301) 795-7868, fax: (301) 795-7052; Rembert Pieper, email: rpieperorg, tel: (301) 795-7605, fax: (301) 795-7070.

Citation:
Yu Y, Sikorski P, Smith M, Bowman-Gholston C, Cacciabeve N, Nelson KE, Pieper R. Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract. Theranostics 2017; 7(2):238-252. doi:10.7150/thno.16086. https://www.thno.org/v07p0238.htm
Other styles

File import instruction

Abstract

Graphic abstract

Inflammation in the urinary tract results in a urinary proteome characterized by a high dynamic range of protein concentrations and high variability in protein content. This proteome encompasses plasma proteins not resorbed by renal tubular uptake, renal secretion products, proteins of immune cells and erythrocytes derived from trans-urothelial migration and vascular leakage, respectively, and exfoliating urothelial and squamous epithelial cells. We examined how such proteins partition into soluble urine (SU) and urinary pellet (UP) fractions by analyzing 33 urine specimens 12 of which were associated with a urinary tract infection (UTI). Using mass spectrometry-based metaproteomic approaches, we identified 5,327 non-redundant human proteins, 2,638 and 4,379 of which were associated with SU and UP fractions, respectively, and 1,206 non-redundant protein orthology groups derived from pathogenic and commensal organisms of the urogenital tract. Differences between the SU and UP proteomes were influenced by local inflammation, supported by respective comparisons with 12 healthy control urine proteomes. Clustering analyses showed that SU and UP fractions had proteomic signatures discerning UTIs, vascular injury, and epithelial cell exfoliation from the control group to varying degrees. Cases of UTI revealed clusters of proteins produced by activated neutrophils. Network analysis supported the central role of neutrophil effector proteins in the defense against invading pathogens associated with subsequent coagulation and wound repair processes. Our study expands the existing knowledge of the urinary proteome under perturbed conditions, and should be useful as reference dataset in the search of biomarkers.

Keywords: urine, clinical proteomics, urothelial cells, label-free quantitation, urinary tract infection, neutrophils, inflammation, network analysis, shotgun proteomics, urine sediment

Citation styles

APA
Yu, Y., Sikorski, P., Smith, M., Bowman-Gholston, C., Cacciabeve, N., Nelson, K.E., Pieper, R. (2017). Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract. Theranostics, 7(2), 238-252. https://doi.org/10.7150/thno.16086.

ACS
Yu, Y.; Sikorski, P.; Smith, M.; Bowman-Gholston, C.; Cacciabeve, N.; Nelson, K.E.; Pieper, R. Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract. Theranostics 2017, 7 (2), 238-252. DOI: 10.7150/thno.16086.

NLM
Yu Y, Sikorski P, Smith M, Bowman-Gholston C, Cacciabeve N, Nelson KE, Pieper R. Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract. Theranostics 2017; 7(2):238-252. doi:10.7150/thno.16086. https://www.thno.org/v07p0238.htm

CSE
Yu Y, Sikorski P, Smith M, Bowman-Gholston C, Cacciabeve N, Nelson KE, Pieper R. 2017. Comprehensive Metaproteomic Analyses of Urine in the Presence and Absence of Neutrophil-Associated Inflammation in the Urinary Tract. Theranostics. 7(2):238-252.

This is an open access article distributed under the terms of the Creative Commons Attribution (CC BY-NC) License. See http://ivyspring.com/terms for full terms and conditions.
Popup Image

©2024 Ivyspring International Publisher. Terms of use