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ResearchIn-Press PreviewGeneticsInfectious diseaseNephrology Open Access | 10.1172/jci.insight.199689

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Urobiota analysis and genome-wide association study in pediatric recurrent urinary tract infections and vesicoureteral reflux

Miguel Verbitsky,1 Pavan Khosla,1 Daniel Bivona,1 Atlas Khan,1 Yask Gupta,1 Heekuk Park,2 Tian H. Shen,1 Aryan Ghotra,1 Katherine Xu,1 Iman A. Ghavami,1 Priya Krithivasan,1 Jeremiah Martino,1 Tanya Sezin,3 Tze Y. Lim,1 Victoria Kolupaeva,4 Nita A. Limdi,5 Yuan Luo,6 Hakon Hakonarson,7 Simone Sanna-Cherchi,1 Krzysztof Kiryluk,1 Cathy L. Mendelsohn,8 Anne-Catrin Uhlemann,2 Jonathan Barasch,1 and Ali G. Gharavi1

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Verbitsky, M. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Khosla, P. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Bivona, D. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Khan, A. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Gupta, Y. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Park, H. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Shen, T. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Ghotra, A. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Xu, K. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Ghavami, I. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Krithivasan, P. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Martino, J. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Sezin, T. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Lim, T. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Kolupaeva, V. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Limdi, N. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Luo, Y. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Hakonarson, H. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Sanna-Cherchi, S. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Kiryluk, K. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Mendelsohn, C. in: PubMed | Google Scholar

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Uhlemann, A. in: PubMed | Google Scholar |

1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

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1Department of Medicine, Division of Nephrology, Columbia University, New York, United States of America

2Department of Medicine, Division of Infectious Diseases, Columbia University, New York, United States of America

3Department of Dermatology, Columbia University, New York, United States of America

4Center for Precision Medicine and Genomics, Columbia University, New York, United States of America

5Department of Neurology, Heersink School of Medicine, University of Alabama at Birmingham, Birmingham, United States of America

6Division of Statistics and Informatics, Northwestern University Feinberg School of Medicine, Chicago, United States of America

7Center for Applied Genomics, The Children's Hospital of Philadelphia and Perelman School of Medicine at the University of Pennsylvania, Philadelphia, United States of America

8Department of Urology, Columbia University, New York, United States of America

Find articles by Gharavi, A. in: PubMed | Google Scholar |

Published December 9, 2025 - More info

JCI Insight. https://doi.org/10.1172/jci.insight.199689.
Copyright © 2025, Verbitsky et al. This work is licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
Published December 9, 2025 - Version history
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Abstract

Urinary tract infections (UTIs) are the most common severe bacterial infections in young children, often associated with vesicoureteral reflux (VUR). To explore host genetic-microbiota interactions and their clinical implications, we analyzed the urinary microbiota (urobiota) and conducted genome-wide association studies (GWAS) for bacterial abundance traits in pediatric UTI and VUR patients from the RIVUR and CUTIE cohorts. We identified four urobiota community types based on relative abundance, characterized by the genera Enterococcus, Prevotella, Pseudomonas, and Escherichia/Shigella, and their associations with VUR, age, and toilet training. Children with VUR exhibited decreased microbial diversity and increased abundance of genera that included opportunistic pathogens, suggesting a disrupted urobiota. We detected genome-wide significant genetic associations with urinary bacterial relative abundances, in or near candidate genes including CXCL12, ABCC1, and ROBO1, which are implicated in urinary tract development and response to infection. We showed that Cxcl12 is induced 12 hours after uropathogenic bacterial infection in mouse bladder. The association with CXCL12 suggests a genetic link between UTI, VUR and cardiovascular phenotypes later in life. These findings provide the first characterization of host genetic influences on the pediatric urobiota in UTI and VUR, offering insights into the interplay between disease, host genetics and the urobiota composition.

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