Journal
NATURE BIOTECHNOLOGY
Volume 28, Issue 2, Pages 149-U14Publisher
NATURE RESEARCH
DOI: 10.1038/nbt.1603
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Funding
- Carnegie Institution for Science
- National Science Foundation [MCB-0520140]
- Korean government [2009-0063342, 20090070968]
- Yonsei University [2008-7-0284, 2008-1-0018]
- National Science Foundation, National Institutes of Health
- Welch Foundation [F1515]
- Packard Foundation
- Div Of Molecular and Cellular Bioscience
- Direct For Biological Sciences [0820823] Funding Source: National Science Foundation
- National Research Foundation of Korea [2008-0062292, 2009-0070968] Funding Source: Korea Institute of Science & Technology Information (KISTI), National Science & Technology Information Service (NTIS)
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We introduce a rational approach for associating genes with plant traits by combined use of a genome-scale functional network and targeted reverse genetic screening. We present a probabilistic network (AraNet) of functional associations among 19,647 (73%) genes of the reference flowering plant Arabidopsis thaliana. AraNet associations are predictive for diverse biological pathways, and outperform predictions derived only from literature-based protein interactions, achieving 21% precision for 55% of genes. AraNet prioritizes genes for limited-scale functional screening, resulting in a hit-rate tenfold greater than screens of random insertional mutants, when applied to early seedling development as a test case. By interrogating network neighborhoods, we identify AT1G80710 (now DROUGHT SENSITIVE 1; DRS1) and AT3G05090 (now LATERAL ROOT STIMULATOR 1; LRS1) as regulators of drought sensitivity and lateral root development, respectively. AraNet (http://www.functionalnet.org/aranet/) provides a resource for plant gene function identification and genetic dissection of plant traits.
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