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Ribosomal RNA depletion or exclusion has negligible effect on the detection of viruses in a pan viral microarray.

McGowan, S, Nunez-Garcia, J, Steinbach, F, La Rocca, A, Blake, D and Dastjerdi, A (2014) Ribosomal RNA depletion or exclusion has negligible effect on the detection of viruses in a pan viral microarray. J Virol Methods, 207. pp. 163-168.

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Abstract

Pan viral DNA microarrays, which can detect known, novel and multiple viral infections, are major laboratory assets contributing to the control of infectious diseases. The large quantity of ribosomal RNA (rRNA) found in tissue samples is thought to be a major factor contributing to the comparatively lower sensitivity of detecting RNA viruses, as a sequence-independent PCR is used to amplify unknown samples for microarray analysis. This study aimed to determine whether depletion or exclusion of rRNA can improve microarray detection and simplify its analysis. Therefore, two different rRNA depletion and exclusion protocols, RiboMinus™ technology and non-rRNA binding hexanucleotides, were applied to the microarray sample processing and the outcome was compared with those of the sequence-independent amplification protocol. This study concludes that the two procedures, described to deplete or exclude rRNA, have negligible effect on the microarrays detection and analysis and might only in combination with further techniques result in a significant enhancement of sensitivity. Currently, existing protocols of random amplification and background adjustment are pertinent for the purpose of sample processing for microarray analysis.

Item Type: Article
Authors :
NameEmailORCID
McGowan, SUNSPECIFIEDUNSPECIFIED
Nunez-Garcia, JUNSPECIFIEDUNSPECIFIED
Steinbach, FUNSPECIFIEDUNSPECIFIED
La Rocca, AUNSPECIFIEDUNSPECIFIED
Blake, DUNSPECIFIEDUNSPECIFIED
Dastjerdi, AUNSPECIFIEDUNSPECIFIED
Date : October 2014
Identification Number : 10.1016/j.jviromet.2014.07.012
Uncontrolled Keywords : Hexanucleotide, Microarray, RiboMinus™, Ribosomal RNA depletion, Virus discovery
Related URLs :
Depositing User : Symplectic Elements
Date Deposited : 28 Mar 2017 10:52
Last Modified : 31 Oct 2017 17:19
URI: http://epubs.surrey.ac.uk/id/eprint/807086

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