1. Metagenomic next-generation sequencing of samples from pediatric febrile illness in Tororo, Uganda.
- Author
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Ramesh, Akshaya, Nakielny, Sara, Hsu, Jennifer, Kyohere, Mary, Byaruhanga, Oswald, de Bourcy, Charles, Egger, Rebecca, Dimitrov, Boris, Juan, Yun-Fang, Sheu, Jonathan, Wang, James, Kalantar, Katrina, Langelier, Charles, Ruel, Theodore, Mpimbaza, Arthur, Wilson, Michael R, Rosenthal, Philip J, and DeRisi, Joseph L
- Subjects
Nasopharynx ,Feces ,Humans ,Plasmodium falciparum ,Cytomegalovirus ,Respiratory Syncytial Viruses ,Rhinovirus ,Malaria ,Fever ,Retrospective Studies ,Child ,Preschool ,Infant ,Uganda ,Female ,Male ,Metagenome ,High-Throughput Nucleotide Sequencing ,Child ,Preschool ,General Science & Technology - Abstract
Febrile illness is a major burden in African children, and non-malarial causes of fever are uncertain. In this retrospective exploratory study, we used metagenomic next-generation sequencing (mNGS) to evaluate serum, nasopharyngeal, and stool specimens from 94 children (aged 2-54 months) with febrile illness admitted to Tororo District Hospital, Uganda. The most common microbes identified were Plasmodium falciparum (51.1% of samples) and parvovirus B19 (4.4%) from serum; human rhinoviruses A and C (40%), respiratory syncytial virus (10%), and human herpesvirus 5 (10%) from nasopharyngeal swabs; and rotavirus A (50% of those with diarrhea) from stool. We also report the near complete genome of a highly divergent orthobunyavirus, tentatively named Nyangole virus, identified from the serum of a child diagnosed with malaria and pneumonia, a Bwamba orthobunyavirus in the nasopharynx of a child with rash and sepsis, and the genomes of two novel human rhinovirus C species. In this retrospective exploratory study, mNGS identified multiple potential pathogens, including 3 new viral species, associated with fever in Ugandan children.
- Published
- 2019