title: Optimization of dengue virus  genome  assembling using GSFLX 454 pyrosequencing data:  evaluation of assembling strategies.
abstract: Currently assembling genomes without reference is one of the most important challenges for bioinformaticists all over the world in an attempt to characterize new organisms. The current study has used two dengue virus type 4 (DENV-4) strains recently isolated in Brazil, which have its genomes sequenced using the GSFLX 454 sequencer (Roche, Life Science) by the pyrosequencing method. The GSFLX 454 data were used for testing different genome assembling strategies. We described a pipeline that was able to recover more than 96% of the sequenced genome in a single run and could be helpful for further assembly attempts of other DENV genomes, as well as other RNA virus-like genomes.
authors.affiliation: Departamento de Arbovirologia e Febres Hemorrágicas, Instituto Evandro Chagas, Ananindeua, PA, Brasil. samir.casseb@gmail.com
authors.forename: S M M
authors.initials: SM
authors.lastname: Casseb
authors.forename: J F
authors.initials: JF
authors.lastname: Cardoso
authors.forename: R
authors.initials: R
authors.lastname: Ramos
authors.forename: A
authors.initials: A
authors.lastname: Carneiro
authors.forename: M
authors.initials: M
authors.lastname: Nunes
authors.forename: P F C
authors.initials: PF
authors.lastname: Vasconcelos
authors.forename: A
authors.initials: A
authors.lastname: Silva
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D020451:Contig Mapping; D003716:Dengue Virus / Q000235:genetics*; D016679:Genome, Viral / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D013223:Statistics as Topic