Kristine Wylie, Ph.D.  kwylie@wustl.edu

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Assistant Professor of Pediatrics, Infectious Diseases
Infectious Diseases

phone: (314) 454-6050

Clinical Interests

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 study of the dynamics of the microbiome and microbial infections during pregnancy. 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. She and her colleagues developed a targeted sequence capture panel, ViroCap, designed to enrich nucleic acid from eukaryotic DNA and RNA viruses from 34 families that infect vertebrate hosts. This approach greatly enhances the study of eukaryotic viruses using metagenomic sequencing. Using these methods, she and her colleagues have found that characteristics of the eukaryotic virome in the vagina associate with preterm birth. They are currently studying the dynamic associations between the vaginal microbiome (viruses and bacteria) and host response in a larger cohort of pregnant women and carrying out in vitro experiments to understand the mechanisms underlying associations with preterm birth.

Education

  • BA, Southern Illinois University1996
  • PhD, Saint Louis University2009

Training

  • Postdoctoral Research Associate, Washington University School of Medicine2009 - 2013

Honors

  • Michael R. Levy Award in Cellular and Molecular Biology, Southern Illinois University at Edwardsville1996
  • Sigma Xi, Saint Louis University2004
  • Presidential Fellowship, Saint Louis University2004 - 2008
  • Student travel award, American Society for Virology 27th Annual Meeting2008
  • Alpha Sigma Nu Jesuit Honor Society2009
  • Student travel award, American Society for Virology 28th Annual Meeting2009
  • Graduate Student of the Year, Molecular Microbiology and Immunology, Saint Louis University2009 - 2010
  • NHGRI Genome Advance of the Month, The Human Microbiome Project: Extending the definition of what constitutes a human2012

Recent Publications view all (57)


  1. Impaired chylomicron assembly modifies hepatic metabolism through bile acid dependent and transmissible microbial adaptations. Hepatology. 2019. PMID:31004524 
  2. Genome Organization of Canada Goose Coronavirus, A Novel Species Identified in a Mass Die-off of Canada Geese. Sci Rep. 2019;9(1):5954. PMCID:PMC6459860  PMID:30976080 
  3. Dynamic host immune response in virus-associated cancers. Commun Biol. 2019;2:109. PMCID:PMC6430765  PMID:30911684 
  4. Whole-Genome Sequencing of Klebsiella pneumoniae Isolates to Track Strain Progression in a Single Patient With Recurrent Urinary Tract Infection. Front Cell Infect Microbiol. 2019;9:14. PMCID:PMC6375827  PMID:30800643 
  5. Differences in the lower airway microbiota of infants with and without cystic fibrosis. J Cyst Fibros. 2018. PMID:30580994 
  6. Detection of Viruses in Clinical Samples by Use of Metagenomic Sequencing and Targeted Sequence Capture. J Clin Microbiol. 2018;56(12). PMCID:PMC6258860  PMID:30232133 
  7. Evaluation of patient- versus provider-collected vaginal swabs for microbiome analysis during pregnancy. BMC Res Notes. 2018;11(1):706. PMCID:PMC6173906  PMID:30290831 
  8. Carriage of the Toxic Shock Syndrome Toxin Gene by Contemporary Community-Associated Staphylococcus aureus Isolates. J Pediatric Infect Dis Soc. 2018. PMID:30285124 
  9. Remnant Small Bowel Length in Pediatric Short Bowel Syndrome and the Correlation with Intestinal Dysbiosis and Linear Growth. J Am Coll Surg. 2018. PMID:30077861 
  10. The vaginal eukaryotic DNA virome and preterm birth. Am J Obstet Gynecol. 2018. PMID:29738749 
  11. Nucleotide resolution mapping of influenza A virus nucleoprotein-RNA interactions reveals RNA features required for replication. Nat Commun. 2018;9(1):465. PMCID:PMC5792457  PMID:29386621 
  12. BreakPoint Surveyor: A Pipeline for Structural Variant Visualization. Bioinformatics. 2017. PMID:28582538 
  13. Association of Antibiotics, Airway Microbiome and Inflammation in Infants with Cystic Fibrosis. Ann Am Thorac Soc. 2017. PMID:28708417 
  14. Early pregnancy vaginal microbiome trends and preterm birth. Am J Obstet Gynecol. 2017. PMID:28549981 
  15. The lower airway microbiota in early cystic fibrosis lung disease: a longitudinal analysis. Thorax. 2017. PMID:28280235 
  16. Genome Sequence of Enterovirus D68 from St. Louis, Missouri, USA, 2016. Genome Announc. 2017;5(9). PMCID:PMC5334578  PMID:28254971 
  17. The Virome of the Human Respiratory Tract. Clin Chest Med. 2017;38(1):11-19. PMID:28159153 
  18. Resurgence of Rotavirus Genotype G12 in St. Louis During the 2014-2015 Rotavirus Season. J Pediatric Infect Dis Soc. 2016. PMID:27988496 
  19. Environmental Enteric Dysfunction and the Fecal Microbiota in Malawian Children. Am J Trop Med Hyg. 2016. PMID:27956653 
  20. Tissue polymerase chain reaction for the diagnosis of cytomegalovirus disease after allogeneic stem cell transplantation. Am J Hematol. 2016. PMID:27859620 
  21. Divergent viral presentation among human tumors and adjacent normal tissues Sci Rep. 2016;6:28294. doi:10.1038/srep28294  PMCID:MC4919655  PMID:27339696 
  22. Azithromycin therapy during respiratory syncytial virus bronchiolitis: Upper airway microbiome alterations and subsequent recurrent wheeze J Allergy Clin Immunol. 2016;pii:S0091-6749(16)30288-3. doi:10.116/j.jaci.2016.03.054 [Epub ahead of print]  PMID:27339392 
  23. High-throughput sequencing of cerebrospinal fluid for diagnosis of chronic Propionibacterium acnes meningitis in an allogeneic stem cell transplant recipient. Transpl Infect Dis. 2016;18(2):227-33. PMID:26895706 
  24. Metagenomic approach for identification of the pathogens associated with diarrhea in stool specimens. J Clin Microbiol. 2016;54(2):368-75. doi:0.1128/JCM.01965-15 Epub 2015 Dec 4  PMCID:PMC4733167  PMID:26637379 
  25. The transcriptional profile of coronary arteritis in Kawasaki disease. BMC Genomics. 2015;16:1076. PMCID:PMC4683744  PMID:26679344 
  26. Emergence of Rotavirus G12P[8] in St. Louis During the 2012-2013 Rotavirus Season. J Pediatric Infect Dis Soc. 2015;4(4):e84-9. PMCID:PMC4681384  PMID:26513823 
  27. Enhanced virome sequencing using targeted sequence capture. Genome Res. 2015;25(12):1910-20. doi:10.1101/gr.191049.115  PMID:26395152 
  28. mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis. J Data Mining Genomics Proteomics. 2015;4(3):135. doi:Epub 2013 Jul 31  PMCID:PMC4612494  PMID:26500804 
  29. Development and Evaluation of an Enterovirus D68 Real-Time Reverse Transcriptase PCR Assay. J Clin Microbiol. 2015;53(8):2641-7. doi:10.1128/JCM.00923-15  PMCID:PMC4508392  PMID:26063859 
  30. Enterovirus D68-associated acute respiratory distress syndrome in adult, United States, 2014. Emerg Infect Dis. 2015;21(5):914-6. doi:10.3201/eid2105.142033  PMCID:PMC4412249  PMID:25897542 
  31. Genome sequence of enterovirus D68 from St. Louis, Missouri, USA. Emerg Infect Dis. 2015;21(1):184-6. doi:10.3201/eid2101.141605  PMCID:PMC4285240  PMID:25532062 
  32. Metagenomic analysis of double-stranded DNA viruses in healthy adults. BMC Biol. 2014;12(1):71. doi:10.1186/s12915-014-0071-7  PMCID:PMC4177058  PMID:25212266 
  33. Exploration of bacterial community classes in major human habitats. Genome Biol. 2014;15(5):R66. doi:10.1186/gb-2014-15-5-r66  PMCID:PMC4073010  PMID:24887286 
  34. Virome genomics: a tool for defining the human virome. Curr Opin Microbiol. 2013;16(4):479-84. doi:10.1016/j.mib.2013.04.006  PMCID:PMC3755052  PMID:23706900 
  35. A proautophagic antiviral role for the cellular prion protein identified by infection with a herpes simplex virus 1 ICP34.5 mutant. J Virol. 2013;87(10):5882-94. doi:10.1128/JVI.02559-12  PMCID:PMC3648145  PMID:23487467 
  36. Biogeography of the ecosystems of the healthy human body. Genome Biol. 2013;14(1):R1. doi:10.1186/gb-2013-14-1-r1  PMCID:PMC4054670  PMID:23316946 
  37. Emerging view of the human virome. Transl Res. 2012;160(4):283-90. doi:10.1016/j.trsl.2012.03.006  PMCID:PMC3701101  PMID:22683423 
  38. A framework for human microbiome research. Nature. 2012;486(7402):215-21. doi:10.1038/nature11209  PMCID:PMC3377744  PMID:22699610 
  39. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486(7402):207-14. doi:10.1038/nature11234  PMCID:PMC3564958  PMID:22699609 
  40. Sequence analysis of the human virome in febrile and afebrile children. PLoS One. 2012;7(6):e27735. doi:10.1371/journal.pone.0027735  PMCID:PMC3374612  PMID:22719819 
  41. Novel bacterial taxa in the human microbiome. PLoS One. 2012;7(6):e35294. doi:10.1371/journal.pone.0035294  PMCID:PMC3374617  PMID:22719826 
  42. Increased prevalence of anellovirus in pediatric patients with fever. PLoS One. 2012;7(11):e50937. doi:10.1371/journal.pone.0050937  PMCID:PMC3511395  PMID:23226428 
  43. The "most wanted" taxa from the human microbiome for whole genome sequencing. PLoS One. 2012;7(7):e41294. doi:10.1371/journal.pone.0041294  PMCID:PMC3406062  PMID:22848458 
  44. Astrovirus MLB2 viremia in febrile child. Emerg Infect Dis. 2011;17(11):2050-2. doi:10.3201/eid1711.110496  PMCID:PMC3310569  PMID:22099095 
  45. Herpes simplex virus 2 UL13 protein kinase disrupts nuclear lamins. Virology. 2009;392(1):137-47. doi:10.1016/j.virol.2009.06.051  PMCID:PMC2769575  PMID:19640559 
  46. Increased eIF2alpha phosphorylation attenuates replication of herpes simplex virus 2 vhs mutants in mouse embryonic fibroblasts and correlates with reduced accumulation of the PKR antagonist ICP34.5. J Virol. 2009;83(18):9151-62. doi:10.1128/JVI.00886-09  PMCID:PMC2738226  PMID:19587046 
  47. Herpes simplex virus virion host shutoff attenuates establishment of the antiviral state. J Virol. 2008;82(11):5527-35. doi:10.1128/JVI.02047-07  PMCID:PMC2395185  PMID:18367525 
  48. Selective ablation of virion host shutoff protein RNase activity attenuates herpes simplex virus 2 in mice. J Virol. 2008;82(7):3642-53. doi:10.1128/JVI.02409-07  PMCID:PMC2268463  PMID:18234805 
  49. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 2005;434(7034):724-31. doi:10.1038/nature03466  PMID:15815621 
  50. A physical map of the chicken genome. Nature. 2004;432(7018):761-4. doi:10.1038/nature03030  PMID:15592415 
  51. Finishing the euchromatic sequence of the human genome. Nature. 2004;431(7011):931-45. doi:10.1038/nature03001  PMID:15496913 
  52. The DNA sequence of human chromosome 7. Nature. 2003;424(6945):157-64. doi:10.1038/nature01782  PMID:12853948 
  53. A physical map of the mouse genome. Nature. 2002;418(6899):743-50. doi:10.1038/nature00957  PMID:12181558 
  54. The LN54 radiation hybrid map of zebrafish expressed sequences. Genome Res. 2001;11(12):2127-32. doi:10.1101/gr.210601  PMCID:PMC311215  PMID:11731504 
  55. A physical map of the human Y chromosome. Nature. 2001;409(6822):943-5. doi:10.1038/35057170  PMID:11237016 
  56. Initial sequencing and analysis of the human genome. Nature. 2001;409(6822):860-921. doi:10.1038/35057062  PMID:11237011 
  57. A physical map of the human genome. Nature. 2001;409(6822):934-41. doi:10.1038/35057157  PMID:11237014 
Last updated: 05/21/2019
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