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Roche NimbleGen Arrays Help Unveil the Secrets of Insidious Potato Blight
Yearly potato production (300 Mt) substantially contributes to worldwide food security, surpassed only by wheat (630 Mt) and rice (608 Mt)(2). While it is important to identify the problem genes responsible for infection, it is equally important to identify the genes that develop resistance.
Brian J. Haas, a primary contributor from the Broad Institute of MIT and Harvard, noted that "NimbleGen services generated the data that made it possible for us to identify key genes in pathogenesis, as described in our recent Nature publication on the potato blight genome. In particular we identified a large number of so-called effector genes that are critical to pathogenesis that had been previously unknown and are extremely challenging to predict because of their small size and unusual structure."
Senior author Chad Nusbaum, co-director of the Broad Institute's Genome Sequencing and Analysis Program, added that "NimbleGen services generated data that made it possible for us to identify these genes in a timely and cost-competitive manner."
The authors capitalized on Roche NimbleGen's flexible array design capability to use the data from the newly sequenced genome to build a custom gene expression microarray, which helped measure gene level changes between the vegetative stage and infection stage. Nearly 3% of approximately 18,000 genes analyzed on the NimbleGen Gene Expression microarray are induced at least twofold during infection. Some of the induced genes belong to gene families with functions previously known to be involved in infection, such as RXLR genes, which may maintain virulence by suppressing host cell death. Understanding the P. infestans genes responsible for potato blight, and having unraveled its genetic code, will lead to methods for controlling the infection to improve food production and reduce the impact on worldwide crop losses.
(1) BJ Haas, S Kamoun, et al., Nature 2009 September 17; 241: 393-398; doi: 10.1038/nature08358
(2) AJ Haverkort, PC Struik, et al., Potato Res 2009 August 8; 52:249-264; doi: 10.1007/s11540-009-9136-3
For more information about Roche NimbleGen, please visit www.nimblegen.com
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