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Urinary cell-free DNA is a versatile analyte for monitoring infections of the urinary tract

Author

Listed:
  • Philip Burnham

    (Cornell University)

  • Darshana Dadhania

    (Weill Cornell Medicine
    New York Presbyterian Hospital–Weill Cornell Medical Center)

  • Michael Heyang

    (Cornell University)

  • Fanny Chen

    (Cornell University)

  • Lars F. Westblade

    (Weill Cornell Medicine
    Weill Cornell Medicine)

  • Manikkam Suthanthiran

    (Weill Cornell Medicine
    New York Presbyterian Hospital–Weill Cornell Medical Center)

  • John Richard Lee

    (Weill Cornell Medicine
    New York Presbyterian Hospital–Weill Cornell Medical Center)

  • Iwijn De Vlaminck

    (Cornell University)

Abstract

Urinary tract infections are one of the most common infections in humans. Here we tested the utility of urinary cell-free DNA (cfDNA) to comprehensively monitor host and pathogen dynamics in bacterial and viral urinary tract infections. We isolated cfDNA from 141 urine samples from a cohort of 82 kidney transplant recipients and performed next-generation sequencing. We found that urinary cfDNA is highly informative about bacterial and viral composition of the microbiome, antimicrobial susceptibility, bacterial growth dynamics, kidney allograft injury, and host response to infection. These different layers of information are accessible from a single assay and individually agree with corresponding clinical tests based on quantitative PCR, conventional bacterial culture, and urinalysis. In addition, cfDNA reveals the frequent occurrence of pathologies that remain undiagnosed with conventional diagnostic protocols. Our work identifies urinary cfDNA as a highly versatile analyte to monitor infections of the urinary tract.

Suggested Citation

  • Philip Burnham & Darshana Dadhania & Michael Heyang & Fanny Chen & Lars F. Westblade & Manikkam Suthanthiran & John Richard Lee & Iwijn De Vlaminck, 2018. "Urinary cell-free DNA is a versatile analyte for monitoring infections of the urinary tract," Nature Communications, Nature, vol. 9(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-04745-0
    DOI: 10.1038/s41467-018-04745-0
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    Cited by:

    1. Omary Mzava & Alexandre Pellan Cheng & Adrienne Chang & Sami Smalling & Liz-Audrey Kounatse Djomnang & Joan Sesing Lenz & Randy Longman & Amy Steadman & Luis G. Gómez-Escobar & Edward J. Schenck & Mir, 2022. "A metagenomic DNA sequencing assay that is robust against environmental DNA contamination," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
    2. Nailil Husna & Tatsuya Aiba & Shin-Ichiro Fujita & Yoshika Saito & Dai Shiba & Takashi Kudo & Satoru Takahashi & Satoshi Furukawa & Masafumi Muratani, 2024. "Release of CD36-associated cell-free mitochondrial DNA and RNA as a hallmark of space environment response," Nature Communications, Nature, vol. 15(1), pages 1-15, December.

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