| Texto completo | |
| Autor(es): |
Vasconcelos, E. J. R.
[1]
;
Terrao, M. C.
[1]
;
Ruiz, J. C.
[2]
;
Vencio, R. Z. N.
[3]
;
Cruz, A. K.
[1]
Número total de Autores: 5
|
| Afiliação do(s) autor(es): | [1] Univ Sao Paulo, Dept Biol Celular & Mol & Bioagentes Patogen, Fac Med Ribeirao Preto, BR-14049900 Ribeirao Preto, SP - Brazil
[2] Fundacao Oswaldo Cruz, Ctr Pesquisas Rene Rachou, Belo Horizonte, MG - Brazil
[3] Univ Sao Paulo, Dept Comp & Matemat, Fac Filosofia Ciencias & Letras Ribeirao Preto, BR-14049900 Ribeirao Preto, SP - Brazil
Número total de Afiliações: 3
|
| Tipo de documento: | Artigo Científico |
| Fonte: | Molecular and Biochemical Parasitology; v. 183, n. 2, p. 140-150, JUN 2012. |
| Citações Web of Science: | 8 |
| Resumo | |
In silico analyses of Leishmania spp. genome data are a powerful resource to improve the understanding of these pathogens' biology. Trypanosomatids such as Leishmania spp. have their protein-coding genes grouped in long polycistronic units of functionally unrelated genes. The control of gene expression happens by a variety of posttranscriptional mechanisms. The high degree of synteny among Leishmania species is accompanied by highly conserved coding sequences (CDS) and poorly conserved intercoding untranslated sequences. To identify the elements involved in the control of gene expression, we conducted an in silico investigation to find conserved intercoding sequences (CICS) in the genomes of L major, L infantum, and L braziliensis. We used a combination of computational tools, such as Linux-Shell, PERL and R languages, BLAST, MSPcrunch, SSAKE, and Pred-A-Term algorithms to construct a pipeline which was able to: (i) search for conservation in target-regions, (ii) eliminate CICS redundancy and mask repeat elements, (iii) predict the mRNA's extremities, (iv) analyze the distribution of orthologous genes within the generated LeishCICS-clusters, (v) assign GO terms to the LeishCICS-clusters. and (vi) provide statistical support for the gene-enrichment annotation. We associated the LeishCICS-cluster data, generated at the end of the pipeline, with the expression profile oft. donovani genes during promastigote-amastigote differentiation, as previously evaluated by others (GEO accession: GSE21936). A Pearson's correlation coefficient greater than 0.5 was observed for 730 LeishCICS-clusters containing from 2 to 17 genes. The designed computational pipeline is a useful tool and its application identified potential regulatory cis elements and putative regulons in Leishmania. (C) 2012 Elsevier B.V. All rights reserved. (AU) | |
| Processo FAPESP: | 08/53929-9 - Identificação in silico e caracterização funcional de potenciais sítios regulatórios em regiões não-traduzidas nos genomas de Leishmania spp |
| Beneficiário: | Elton José Rosas de Vasconcelos |
| Modalidade de apoio: | Bolsas no Brasil - Doutorado Direto |
| Processo FAPESP: | 08/04969-8 - Investigação de mecanismos e elementos envolvidos no processo de regulação de expressão gênica em Leishmania |
| Beneficiário: | Monica Cristina Terrão |
| Modalidade de apoio: | Bolsas no Brasil - Doutorado |
| Processo FAPESP: | 06/50323-7 - Estudo do controle da expressão gênica e plasticidade genética em Leishmania |
| Beneficiário: | Angela Kaysel Cruz |
| Modalidade de apoio: | Auxílio à Pesquisa - Temático |