A diverse group of small circular ssDNA viral genomes in human and non-human primate stools

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Ng, Terry Fei Fan ^{[1, 2, 3]} ; Zhang, Wen ^{[2, 4]} ; Sachsenroeder, Jana ^{[2, 5]} ; Kondov, Nikola O. ^[2] ; da Costa, Antonio Charlys ^{[6, 2]} ; Vega, Everardo ^[7] ; Holtz, Lori R. ^[8] ; Wu, Guang ^[9] ; Wang, David ^{[9, 10]} ; Stine, Colin O. ^[11] ; Antonio, Martin ^[12] ; Mulvaney, Usha S. ^[2] ; Muench, Marcus O. ^{[1, 2]} ; Deng, Xutao ^{[1, 2]} ; Ambert-Balay, Katia ^[13] ; Pothier, Pierre ^[13] ; Vinje, Jan ^[14] ; Delwart, Eric ^{[1, 2]}

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^[1] Univ Calif San Francisco, Dept Lab Med, San Francisco, CA 94143 - USA

^[2] Blood Syst Res Inst, 270 Masonic Ave, San Francisco, CA 94118 - USA

^[3] Ctr Dis Control & Prevent, Natl Ctr Immunizat & Resp Dis, Div Viral Dis, Atlanta, GA - USA

^[4] Jiangsu Univ, Sch Med, Dept Microbiol, Zhenjiang, Jiangsu - Peoples R China

^[5] Fed Inst Risk Assessment, Berlin - Germany

^[6] Univ Sao Paulo, Inst Trop Med, Sao Paulo - Brazil

^[7] Ctr Dis Control & Prevent, NCIRD, Polio & Picornavirus Lab Branch, Atlanta, GA - USA

^[8] Washington Univ, Dept Pediat, St Louis, MO 63130 - USA

^[9] Washington Univ, Dept Mol Microbiol, St Louis, MO 63110 - USA

^[10] Washington Univ, Dept Pathol & Immunol, St Louis, MO 63110 - USA

^[11] Univ Maryland, Sch Med, Baltimore, MD 21201 - USA

^[12] MRC Unit, Banjul - Gambia

^[13] Dijon Univ Hosp, Natl Reference Ctr Enter Viruses, Dijon - France

^[14] Ctr Dis Control & Prevent, NCIRD, Natl Calicivirus Lab, Atlanta, GA - USA

• Tipo de documento: Artigo Científico
• Fonte: VIRUS EVOLUTION; v. 1, n. 1 MAR 2015.
• Citações Web of Science: 25

Resumo

Viral metagenomics sequencing of fecal samples from outbreaks of acute gastroenteritis from the US revealed the presence of small circular ssDNA viral genomes encoding a replication initiator protein (Rep). Viral genomes were similar to 2.5 kb in length, with bi-directionally oriented Rep and capsid (Cap) encoding genes and a stem loop structure downstreamof Rep. Several genomes showed evidence of recombination. By digital screening of an in-house virome database (1.04 billion reads) using BLAST, we identified closely related sequences from cases of unexplained diarrhea in France. Deep sequencing and PCR detected such genomes in 7 of 25 US (28 percent) and 14 of 21 French outbreaks (67 percent). One of eighty-five sporadic diarrhea cases in the Gambia was positive by PCR. Twenty-two complete genomes were characterized showing that viruses from patients in the same outbreaks were closely related suggesting common origins. Similar genomes were also characterized from the stools of captive chimpanzees, a gorilla, a black howler monkey, and a lemur that were more diverse than the human stool-associated genomes. The name smacovirus is proposed for this monophyletic viral clade. Possible tropism include mammalian enteric cells or ingested food components such as infected plants. No evidence of viral amplification was found in immunodeficient mice orally inoculated with smacovirus- positive stool supernatants. A role for smacoviruses in diarrhea, if any, remains to be demonstrated. (AU)

• Processo FAPESP: 14/05211-2 - Metagenômica viral em plasma de doadores de sangue em dois bancos de sangue brasileiro
• Beneficiário: Antonio Charlys da Costa
• Modalidade de apoio: Bolsas no Exterior - Estágio de Pesquisa - Doutorado Direto
• Processo FAPESP: 12/03417-7 - Caracterização do vírus da dengue pela análise do genoma completo viral em amostras de doadores e receptores de sangue nos estados de Pernambuco e Rio de Janeiro
• Beneficiário: Antonio Charlys da Costa
• Modalidade de apoio: Bolsas no Brasil - Doutorado Direto