The compositional landscape of minicircle sequences isolated from active lesions and scars of American cutaneous leishmaniasis

Particle and Fibre Toxicology

Adeilton Brandão¹  Frederico G Coutinho Abath²  Octavio Fernandes¹  Maria Edileuza F de Brito²  Roberto Pereira Werkhäuser²  Fábia Carla da Silva Soares²  Eduardo Henrique Gomes Rodrigues² 

[1] Laboratório Interdisciplinar de Pesquisas Médicas, Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, RJ, Brazil;Laboratório de Imunopatologia e Biologia Molecular, Departamento de Imunologia, Centro de Pesquisas Aggeu Magalhães, Fundação Oswaldo Cruz, Recife, PE, Brazil

关键词: Compositional bias;    Nucleotide;    Minicircle;    Kinetoplast DNA;    American cutaneous leishmaniasis;   

Others  :  825070
DOI  :  10.1186/1756-3305-6-228

 received in 2013-05-28, accepted in 2013-08-02,  发布年份 2013

【 摘 要 】

Background

American cutaneous leishmaniasis (ACL) is characterized by cutaneous lesions that heal spontaneously or after specific treatment. This paper reports on the analysis of kDNA minicircle sequences from clinical samples (typical lesions and scars) that were PCR-amplified with specific primers for Leishmania species of the subgenus Viannia.

Methods

From 56 clinical isolates we obtained a single amplified fragment (ca. 790 bp), which after cloning and sequencing resulted in 290 minicircle sequences from both active lesions and scars. We aimed to get a compositional profile of these sequences in clinical samples and evaluate the corresponding compositional changes. Sequences were analyzed with the compseq and wordcount (Emboss package) to get the composition of di-, tri-, tetra-, penta- and hexanucleotides. Additionally, we built a nucleotide dictionary with words of 7, 8, 9 and 10 nucleotides.

Results

This compositional analysis showed that minicircles amplified from active cutaneous lesions and scars have a distinct compositional profile as viewed by nucleotide composition of words up to 10mer. With regard to the most frequent nucleotide words above length 6, there is also a distinct pattern for 7, 8, 9 and 10mer.

Conclusion

These results indicate that minicircle sequences can be monitored upon direct exposure to a selection/stressing environment (e.g. chemical action) by evaluating their nucleotide compositional profile. It might be useful as a molecular tool in research concerning the evolution of infecting Leishmania in both vector and vertebrate hosts.

【 授权许可】

   
2013 Rodrigues et al.; licensee BioMed Central Ltd.

【 图 表 】

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