In silico characterization of hypothetical proteins from Paracoccidioides lutzii
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Data
2015-12
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Resumo
Nearly 60% of Paracoccidioides lutzii genes encode products
annotated as hypothetical or predicted proteins (HPs). In this study, we
describe the global detection and functional inference of HPs, using
computational methods based on sequence similarity, identification of
targeting signals, presence of known protein domains, and use of the Gene
Ontology functional classification scheme. Our analysis enabled a high-
throughput characterization of predicted cellular localization and presence
of protein domains, clustering HPs into different functional categories
including metabolism, localization, cell cycle, response to stimulus, and
signaling. To investigate P. lutzii HP expression profiles, we used data
obtained from the expressed sequence tag database (dbEST). These
analyses revealed 2364 HPs expressed in different situations, namely in
mycelial and yeast forms, during the transition from mycelium to yeast,
and under conditions mimicking infection. Based on this transcriptomic
data, we performed a functional enrichment analysis according to the
domains present in the HPs expressed in each condition. The most
overrepresented functional domains were those involved in the regulation
of gene expression, suggesting important and as yet undescribed roles for these HPs in the adaptation of P. lutzii to environmental conditions.
In addition, the expression profiles of six randomly selected HPs were
analyzed by quantitative real-time polymerase chain reaction in order to
verify their expression in the complementary DNA libraries analyzed in this
investigation. The approach used in this study should improve functional
characterization of P. lutzii HPs.
Descrição
Palavras-chave
Paracoccidioides, Hypothetical proteins, In silico analysis
Citação
SILVA, P. F. F.; NOVAES, E.; PEREIRA, M.; SOARES, C. M. A.; BORGES, C. L.; SALEM-IZACC, S. M. In silico characterization of hypothetical proteins from Paracoccidioides lutzii. Genetics and Molecular Research, Ribeirão Preto, v. 14, n. 4, p. 17416-17425, Dec. 2015.