Exploring the genome of Trypanosoma vivax through GSS and in silico comparative analysis.
A survey of the Trypanosoma vivax genome was carried out by the genome sequence survey (GSS) approach resulting in 1,086 genomic sequences. A total of 455 high-quality GSS sequences were generated, consisting of 331 non-redundant sequences distributed in 264 singlets and 67 clusters in a total of 135.5 Kb of the T. vivax genome. The estimation of the overall G+C content, and the prediction of the presence of ORFs and putative genes were carried out using the Glimmer and Jemboss packages. Analysis of the obtained sequences was carried out by BLAST programs against 12 different databases and also using the Conserved Domain Database, InterProScan, and tRNAscan-SE. Along with the existing 23 T. vivax entries in the GenBank, the 32 putative genes predicted and the 331 non-redundant GSS sequences reported herein represent new potential markers for the development of PCRbased assays for specific diagnosis and typing of Trypanosoma vivax.
Guerreiro
Luana Tatiana A
LT
Departamento de Bioquímica e Biologia Molecular, Instituto Oswaldo Cruz/Fundação Oswaldo Cruz, Rio de Janeiro, Brazil.
Souza
Silvana S
SS
Wagner
Glauber
G
De Souza
Edson A
EA
Mendes
Pablo N
PN
Campos
Linair M
LM
Barros
Lígia
L
Pires
Paulo F
PF
Campos
Maria Luiza M
ML
Grisard
Edmundo C
EC
Dávila
Alberto M R
AM
D000465:Algorithms; D000818:Animals; D019295:Computational Biology; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D020224:Expressed Sequence Tags; D015723:Gene Library; D017125:Genes, Protozoan / Q000235:genetics; D005819:Genetic Markers; D018503:Genome, Protozoan; D016366:Open Reading Frames; D016133:Polymerase Chain Reaction; D015800:Protozoan Proteins / Q000502:physiology; D012343:RNA, Transfer / Q000235:genetics; D017422:Sequence Analysis, DNA; D012984:Software; D016689:Trypanosoma vivax / Q000235:genetics* / Q000502:physiology*
D005819:Genetic Markers; D015800:Protozoan Proteins; D012343:RNA, Transfer