Different tools have been proposed to detect, characterize and quantify genes responsible for degradation of different pollutants in environmental samples such us PCR-SSCP DNA fingerprinting, PCR DNA clone libraries and microarrays. In the present work, we developed a custom array system termed BiodegChip to assess functional BTEX (Benzene, Toluene, Ethylbenzene, Xylene) catabolic gene diversity in contaminated environments. A custom CDS database was created including all catabolic genes encoding key activities in BTEX degradation pathways based on the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, containing >15,000 genes in >30 functional groups (EC number). Resulting gene database were subjected to probe design (50 mer) using the software Oligoarrays 2.1 with a selection parameter of GC content between 35 and 50% and Tm range 80 and 88°C. The verification of specificity of all probes was used using BLASTTN database. Printing and experimental procedures for application in environmental analyses are in progress.
|Titolo:||BiodegChip : a DNA microarray to study the catabolic genes of aromatic "BTEX" pollutants in complex microbial communities|
DAFFONCHIO, DANIELE GIUSEPPE (Penultimo)
|Data di pubblicazione:||gen-2014|
|Settore Scientifico Disciplinare:||Settore AGR/16 - Microbiologia Agraria|
|Citazione:||BiodegChip : a DNA microarray to study the catabolic genes of aromatic "BTEX" pollutants in complex microbial communities / A. Najjari, L. Soufi, M. Mahjoubi, F. Mapelli, W. Hassen, W. Bejaoui, S. Sakouhi, A. Jaouani, G. Tsiamis, D. Daffonchio, A. Cherif. ((Intervento presentato al convegno Microbial Resource Management for Polluted Marine Environments and Bioremediation tenutosi a Hammamet nel 2014.|
|Appare nelle tipologie:||14 - Intervento a convegno non pubblicato|