FlexiChip package: an universal microarray with a dedicated analysis software for high-thoughput SNPs detection linked to anti-malarial drug resistanceReportar como inadecuado




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Malaria Journal

, 8:229

First Online: 15 October 2009Received: 02 March 2009Accepted: 15 October 2009

Abstract

BackgroundA number of molecular tools have been developed to monitor the emergence and spread of anti-malarial drug resistance to Plasmodium falciparum. One of the major obstacles to the wider implementation of these tools is the absence of practical methods enabling high throughput analysis. Here a new Zip-code array is described, called FlexiChip, linked to a dedicated software program, which largely overcomes this problem.

MethodsPreviously published microarray probes detecting single-nucleotide polymorphisms SNP associated with parasite resistance to anti-malarial drugs ResMalChip were adapted for a universal microarray FlexiChip format. To evaluate the overall sensitivity of the FlexiChip package microarray + software, the results of FlexiChip were compared to ResMalChip microarray, using the same extension probes and with the same PCR products. In both cases, sequence results were used as gold standard to calculate sensitivity and specificity. FlexiChip results obtained with a set of field isolates were then compared to those assessed in an independent reference laboratory.

ResultsThe FlexiChip package gave results identical to the ResMalChip results in 92.7% of samples kappa coefficient 0.8491, with a standard error 0.021 and had a sensitivity of 95.88% and a specificity of 97.68% compared to the sequencing as the reference method. Moreover the method performed well compared to the results obtained in the reference laboratories, with 99.7% of identical results kappa coefficient 0.9923, S.E. 0.0523.

ConclusionMicroarrays could be employed to monitor P. falciparum drug resistance markers with greater cost effectiveness and the possibility for high throughput analysis. The FlexiChip package is a promising tool for use in poor resource settings of malaria endemic countries.

Electronic supplementary materialThe online version of this article doi:10.1186-1475-2875-8-229 contains supplementary material, which is available to authorized users.

Nicolas Steenkeste, Marie-Agnès Dillies contributed equally to this work.

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Autor: Nicolas Steenkeste - Marie-Agnès Dillies - Nimol Khim - Odile Sismeiro - Sophy Chy - Pharath Lim - Andreas Crameri - Chris

Fuente: https://link.springer.com/







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