Kristine Wylie, Ph.D.,  McDonnell Genome Institute

Dr. Kristine Wylie is an Assistant Professor in the Department of Pediatrics at Washington University School of Medicine and the McDonnell Genome Institute. Her main research interest is the human microbiome and its relationship to health and disease.

During Dr. Wylie’s postdoctoral work, she developed methods for analyzing high-throughput metagenomic shotgun sequence data sets to study the human virome, the viral component of the microbiome. Dr. Wylie analyzed the human virome (eukaryotic viruses) in the healthy subjects from the Human Microbiome Project, providing the first analysis of the commensal virome in a large cohort of generally healthy, asymptomatic people. Many of the viruses carried in asymptomatic people are the same viruses that can cause problems in the long term, for example by reactivation in immunocompromised patients or by causing cancer. This work establishes the foundation for studying the long-term dynamics of the virome and determining effects, both positive and negative, of viruses on human health. In another study, Dr. Wylie studied the viromes in children in a study aimed at understanding the role of viruses in children with unexplained fevers. She and her colleagues determined that viruses are frequently found in samples from children with unexplained fever. As many of the children received antibiotics despite having no confirmed bacterial infection, this work suggests better viral diagnostics would help reduce the misuse of antibiotics. Dr. Wylie and her colleagues recently developed a targeted sequence capture panel, ViroCap, designed to enrich nucleic acid from DNA and RNA viruses from 34 families that infect vertebrate hosts. This tool will greatly enhance the study of eukaryotic DNA and RNA viruses and takes us closer to using high-throughput sequencing as a comprehensive viral diagnostic tool. These early studies lay the foundation for her continued work aimed at understanding the effects of acute and persistent viral infections and to develop improved diagnostics.

Dr. Wylie is currently involved in many collaborative efforts that use high-throughput sequencing to study the microbiome and its association with disease.


title citation publication date
Early pregnancy vaginal microbiome trends and preterm birth Am J Obstet Gynecol. 2017 Sep;217(3):356.e1-356.e18. doi: 10.1016/j.ajog.2017.05.030. Epub 2017 May 23. 2017-09-01
Association of Antibiotics, Airway Microbiome and Inflammation in Infants with Cystic Fibrosis. Ann Am Thorac Soc. 2017 Jul 14. doi: 10.1513/AnnalsATS.201702-121OC. [Epub ahead of print] 1970-08-22
BreakPoint Surveyor: A Pipeline for Structural Variant Visualization Bioinformatics. 2017 Jun 5. doi: 10.1093/bioinformatics/btx362 2017-08-22
The Virome of the Human Respiratory Tract Clin Chest Med. 2017 Mar;38(1):11-19. doi: 10.1016/j.ccm.2016.11.001. Epub 2016 Dec 10. 2017-03-01
Genome Sequence of Enterovirus D68 from St. Louis, Missouri, USA, 2016 Genome Announc. 2017 Mar 2;5(9). pii: e01630-16. doi: 10.1128/genomeA.01630-16. 1970-08-22
The lower airway microbiota in early cystic fibrosis lung disease: a longitudinal analysis Thorax. 2017 Mar 9. pii: thoraxjnl-2016-209279. doi: 10.1136/thoraxjnl-2016-209279 1970-08-22
Resurgence of Rotavirus Genotype G12 in St. Louis During the 2014-2015 Rotavirus Season. J Pediatric Infect Dis Soc. 2016 Dec 17. pii: piw065. [Epub ahead of print] 1970-08-22
Environmental Enteric Dysfunction and the Fecal Microbiota in Malawian Children. Am J Trop Med Hyg. 2016 Dec 12. pii: 16-0617. [Epub ahead of print] 2016-12-12
Divergent viral presentation among human tumors and adjacent normal tissues Sci Rep. 2016 Jun 24;6:28294. doi: 10.1038/srep28294. 1970-08-22
High-throughput sequencing of cerebrospinal fluid for diagnosis of chronic Propionibacterium acnes meningitis in an allogeneic stem cell transplant recipient. Transpl Infect Dis. 2016 Feb 20. doi: 10.1111/tid.12512. [Epub ahead of print] 2016-02-20
Metagenomic approach for identification of the pathogens associated with diarrhea in stool specimens. J Clin Microbiol. 2015 Dec 4. pii: JCM.01965-15. [Epub ahead of print] 2015-12-04
The transcriptional profile of coronary arteritis in Kawasaki disease. BMC Genomics. 2015 Dec 18;16(1):1076. doi: 10.1186/s12864-015-2323-5. 2015-12-18
Emergence of Rotavirus G12P[8] in St. Louis During the 2012-2013 Rotavirus Season. J Pediatric Infect Dis Soc. 2015 Dec;4(4):e84-9. doi: 10.1093/jpids/piu090. Epub 2014 Sep 15. 2015-12-01
mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis. J Data Mining Genomics Proteomics. 2015 Aug;4(3). pii: 135. Epub 2013 Jul 31. 2013-01-01
Enhanced virome sequencing through solution-based capture enrichment. Genome Res. 2015 Sep 22. pii: gr.191049.115. [Epub ahead of print] 2015-09-22
Development and Evaluation of an Enterovirus D68 Real-Time Reverse Transcriptase Polymerase Chain Reaction (RT-PCR) Assay. J Clin Microbiol. 2015 Jun 10. pii: JCM.00923-15. [Epub ahead of print] 2015-06-10
Enterovirus d68-associated acute respiratory distress syndrome in adult, United States, 2014. Emerg Infect Dis. 2015 May;21(5):914-6. doi: 10.3201/eid2105.142033. 2015-05-01
Genome sequence of enterovirus D68 from St. Louis, Missouri, USA. Emerg Infect Dis. 2015;21(1):184-6. doi: 10.3201/eid2101.141605. 2015-01-01
Metagenomic analysis of double-stranded DNA viruses in healthy adults. BMC Biol. 2014 Sep 10;12(1):71. [Epub ahead of print] 2014-09-10
Exploration of bacterial community classes in major human habitats. Genome Biol. 2014 May 7;15(5):R66. [Epub ahead of print] 2014-05-07
Virome genomics: a tool for defining the human virome. Curr Opin Microbiol. 2013 May 22. pii: S1369-5274(13)00063-5. doi: 10.1016/j.mib.2013.04.006. [Epub ahead of print] 2013-05-22
The "most wanted" taxa from the human microbiome for whole genome sequencing. PLoS One. 2012;7(7):e41294. doi: 10.1371/journal.pone.0041294. Epub 2012 Jul 26. 2012-07-26
Biogeography of the ecosystems of the healthy human body. Genome Biol. 2013 Jan 14;14(1):R1. [Epub ahead of print] 2013-01-14
Increased prevalence of anellovirus in pediatric patients with Fever. PLoS One. 2012;7(11):e50937. doi: 10.1371/journal.pone.0050937. Epub 2012 Nov 30. 2012-11-30
Sequence analysis of the human virome in febrile and afebrile children. PLoS One. 2012;7(6):e27735. Epub 2012 Jun 13. 2012-06-13
Novel bacterial taxa in the human microbiome. PLoS One. 2012;7(6):e35294. Epub 2012 Jun 13. 2012-06-13
A framework for human microbiome research. Nature. 2012 Jun 13;486(7402):215-21. doi: 10.1038/nature11209. 2012-06-13
Structure, function and diversity of the healthy human microbiome. Nature. 2012 Jun 13;486(7402):207-14. doi: 10.1038/nature11234. 2012-06-13
The Human Virome in Children and its Relationship to Febrile Illness. Nature Precedings doi:10.1038/npre.2010.5319.1, 2010 Nov 23. 2010-11-23
Emerging view of the human virome. Transl Res. 2012 Apr 24. [Epub ahead of print] 2012-04-24
Astrovirus MLB2 Viremia in Febrile Child. Emerg Infect Dis. 2011 Nov;17(11):2050-2. 2011-11-29
Herpes simplex virus virion host shutoff attenuates establishment of the antiviral state. J Virol. 2008 Jun;82(11):5527-35. Epub 2008 Mar 26. 2008-06-02
A physical map of the chicken genome. Nature. 2004 Dec 9;432(7018):679-80. 2004-12-09
Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 2005 Apr 7;434(7034):724-31. 2005-04-07
A physical map of the human Y chromosome. Nature. 2001 Feb 15;409(6822):943-5. 2001-02-15
A physical map of the mouse genome. Nature. 2002 Aug 15;418(6899):743-50. Epub 2002 Aug 04. 2002-08-15
The DNA sequence of human chromosome 7. Nature. 2003 Jul 10;424(6945):157-64. 2003-07-10
Finishing the euchromatic sequence of the human genome Nature. 2004 Oct 21;431(7011):931-45. 2004-10-21
The LN54 radiation hybrid map of zebrafish expressed sequences. Genome Res. 2001 Dec;11(12):2127-32. 2001-12-01
A physical map of the human genome. Nature. 2001 Feb 15;409(6822):934-41. 2001-02-15