title: High GC content of simple sequence repeats in Herpes simplex virus type 1 genome.
abstract: The presence, locations and composition of simple sequence repeats (SSRs) in Herpes simplex virus type 1 (HSV-1) genome were extracted and analyzed by using the software Imperfect Microsatellite Extractor (IMEx). There were 663 mon-, 502 di-, 184 tri-, 20 tetra-, 4 penta- and 4 hexanucleotide SSRs that were observed in different distribution between coding and noncoding regions in the HSV-1 genome. G/C, GC/CG, and (GGC)(n) were predominant in mononucleotide, dinucletide, trinucleotide repeats respectively. Indeed, the results showed that GC content in simple sequence repeats was notably higher than that in entire HSV-1 genome. Our data might be helpful for studying the pathogenesis, genome structure and evolution of HSV-1.
authors.affiliation: College of Biology, State Key Laboratory for Chemo/Biosensing and Chemometrics, Hunan University, Changsha 410082, China.
authors.forename: Qingjian
authors.initials: Q
authors.lastname: Ouyang
authors.forename: Xiangyan
authors.initials: X
authors.lastname: Zhao
authors.forename: Haiping
authors.initials: H
authors.lastname: Feng
authors.forename: You
authors.initials: Y
authors.lastname: Tian
authors.forename: Dan
authors.initials: D
authors.lastname: Li
authors.forename: Mingfu
authors.initials: M
authors.lastname: Li
authors.forename: Zhongyang
authors.initials: Z
authors.lastname: Tan
mesh_terms: D000818:Animals; D001482:Base Composition / Q000235:genetics / Q000502:physiology; D001483:Base Sequence; D002874:Chromosome Mapping; D004279:DNA, Viral / Q000032:analysis / Q000235:genetics*; D016679:Genome, Viral / Q000235:genetics*; D018259:Herpesvirus 1, Human / Q000235:genetics*; D006801:Humans; D018895:Microsatellite Repeats / Q000235:genetics*
chemical_list: D004279:DNA, Viral