title: A novel Bayesian method for detection of APOBEC3-mediated hypermutation and its application to zoonotic transmission of simian foamy viruses.
abstract: Simian Foamy Virus (SFV) can be transmitted from non-human primates (NHP) to humans. However, there are no documented cases of human to human transmission, and significant differences exist between infection in NHP and human hosts. The mechanism for these between-host differences is not completely understood. In this paper we develop a new Bayesian approach to the detection of APOBEC3-mediated hypermutation, and use it to compare SFV sequences from human and NHP hosts living in close proximity in Bangladesh. We find that human APOBEC3G can induce genetic changes that may prevent SFV replication in infected humans in vivo.
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Frederick A
authors.initials: FA
authors.lastname: Matsen
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Christopher T
authors.initials: CT
authors.lastname: Small
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Khanh
authors.initials: K
authors.lastname: Soliven
authors.affiliation: University of Washington, Seattle, Washington, United States of America ; Swedish Medical Center, Seattle, Washington, United States of America.
authors.forename: Gregory A
authors.initials: GA
authors.lastname: Engel
authors.affiliation: Jahangirnagar University, Savar, Dhaka, Bangladesh.
authors.forename: Mostafa M
authors.initials: MM
authors.lastname: Feeroz
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Xiaoxing
authors.initials: X
authors.lastname: Wang
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Karen L
authors.initials: KL
authors.lastname: Craig
authors.affiliation: Jahangirnagar University, Savar, Dhaka, Bangladesh.
authors.forename: M Kamrul
authors.initials: MK
authors.lastname: Hasan
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Michael
authors.initials: M
authors.lastname: Emerman
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
authors.forename: Maxine L
authors.initials: ML
authors.lastname: Linial
authors.affiliation: University of Washington, Seattle, Washington, United States of America.
authors.forename: Lisa
authors.initials: L
authors.lastname: Jones-Engel
mesh_terms: D000071478:APOBEC Deaminases; D000071480:APOBEC-3G Deaminase; D000818:Animals; D001459:Bangladesh; D001499:Bayes Theorem; D018388:Codon, Terminator; D019295:Computational Biology; D003564:Cytidine Deaminase / Q000235:genetics; D043525:Cytosine Deaminase / Q000235:genetics*; D054884:Host-Pathogen Interactions / Q000235:genetics; D006801:Humans; D008251:Macaca / Q000235:genetics / Q000821:virology; D008957:Models, Genetic; D009154:Mutation; D012367:RNA, Viral / Q000235:genetics; D012192:Retroviridae Infections / Q000235:genetics* / Q000635:transmission*; D053150:Simian foamy virus / Q000235:genetics* / Q000472:pathogenicity / Q000502:physiology; D013045:Species Specificity; D014779:Virus Replication; D015047:Zoonoses / Q000235:genetics* / Q000635:transmission*
chemical_list: D018388:Codon, Terminator; D012367:RNA, Viral; D043525:Cytosine Deaminase; D000071478:APOBEC Deaminases; D000071480:APOBEC-3G Deaminase; C502889:APOBEC3 proteins, human; C464924:APOBEC3G protein, human; D003564:Cytidine Deaminase