617. Characterization and development of the infant gut virome: A STORK study
Session: Poster Abstract Session: Microbiome and Beyond
Thursday, October 4, 2018
Room: S Poster Hall
Background: There is little known about the dynamics the of the infant virome and how it relates to healthy growth and development. This study will establish the baseline gut virome and observe dynamic changes in a cohort of infants from birth to three years old. We hypothesize that changes in the gut virome will impact growth and immune development.

Methods: One hundred and twenty-eight infants were enrolled in the Stanford’s Outcome Research in Kids (STORK) cohort prior to 36 weeks gestation. Stool samples were collected at an average of 90, 134, 162 days old/infant. Baseline data were collected at birth (height, weight, length, Apgar’s score, antibiotic use) and health surveys were collected weekly. Stool samples (n=477) were extracted using the EZ1 Viral Kit (Qiagen). Libraries were prepared using the Nextera XT kit (Illumina) and sequenced on an Illumina HiSeq 2500 on rapid mode (150/150bp paired-end sequencing). Datasets were analyzed using SURPI; a bioinformatic pipeline for pathogen detection.

Results: A subset of the infants were tested (n=27), 54% of which were male. The infants were 62% white, Hispanic, 26% white, non-Hispanic, 8% Asian, and 4% other. Seventy-five stool samples - sequenced at an average depth of 22 million reads - were analyzed from the 27 infants. Vertebrate viruses (42.8%) and phages (45.2%) represented the majority of the viral reads, while the other reads were invertebrate, plants or protozoa (12%). Virome abundance, richness, and diversity were 5.5 e+04 species reads per million, 55.5 on the Chao Richness scale, and 1.45 on the Shannon Diversity Index respectively, with values increasing as the infants aged. The phage families most commonly identified were Myoviridae, Podoviridae, and Siphoviridae. There were seven different human viral families observed: Adenoviridae, Astroviridae, Caliciviridae, Parvoviridae, Picornaviridae, Reoviridae, and Anelloviridae. Five infants were documented to have cold symptoms within 7 days of sampling, they were found to have mastadenovirus C (1), mamastrovirus 1 (1), bocavirus (3). Three infants were documented to have caliciviruses (2) and adenovirus (1), however no symptoms were reported.

Conclusion: This study will comprehensively characterize the development of the human virome and monitor its effect on growth and immune development.

Andrea Granados, PhD1, Susanna K. Tan, MD2, Jerome Bouquet, PhD3, Charles Y. Chiu, M.D., Ph.D.4, Julie Parsonnet, MD, FIDSA5 and Lauri Green, BSc3, (1)Dept of Laboratory Medicine, University of California, San Francisco, San Francisco, CA, (2)Medicine, Division of Infectious Diseases, Stanford University School of Medicine, Stanford, CA, (3)University of California, San Francisco, San Francisco, CA, (4)Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA, (5)Department of Medicine, Division of Infectious Diseases and Geographic Medicine, Stanford University School of Medicine, Stanford, CA


A. Granados, None

S. K. Tan, None

J. Bouquet, None

C. Y. Chiu, None

J. Parsonnet, None

L. Green, None

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