Use of consensus sequences for the design of high density resequencing microarrays: the influenza virus paradigm.

ABSTRACT:

Background

A resequencing microarray called PathogenID v2.0 has been developed and used to explore various strategies of sequence selection for its design. The part dedicated to influenza viruses was based on consensus sequences specific for one gene generated from global alignments of a large number of influenza virus sequences available in databanks.

Results

For each HA (H1, H2, H3, H5, H7 and H9) and NA (N1, N2 and N7) molecular type chosen to be tested, 1 to 3 consensus sequences were computed and tiled on the microarray. A total of 12 influenza virus samples from different host origins (humans, pigs, horses and birds) and isolated over a period of about 50 years were used in this study. Influenza viruses were correctly identified, and in most cases with the accurate inf

SUBMITTER: Leclercq I 

PROVIDER: S-EPMC3091733 | biostudies-literature | 2010 Oct

REPOSITORIES: biostudies-literature