Journal
PLANT PHYSIOLOGY
Volume 169, Issue 3, Pages 1436-1442Publisher
AMER SOC PLANT BIOLOGISTS
DOI: 10.1104/pp.15.00959
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Funding
- National Science Foundation [MCB-1153413]
- Direct For Biological Sciences
- Div Of Molecular and Cellular Bioscience [1153413] Funding Source: National Science Foundation
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The number of sequenced genomes is rapidly increasing, but functional annotation of the genes in these genomes lags far behind. Even in Arabidopsis (Arabidopsis thaliana), only approximately 40% of enzyme-and transporter-encoding genes have credible functional annotations, and this number is even lower in nonmodel plants. Functional characterization of unknown genes is a challenge, but various databases (e.g. for protein localization and coexpression) can be mined to provide clues. If homologous microbial genes exist-and about one-half the genes encoding unknown enzymes and transporters in Arabidopsis have microbial homologs-cross-kingdom comparative genomics can powerfully complement plant-based data. Multiple lines of evidence can strengthen predictions and warrant experimental characterization. In some cases, relatively quick tests in genetically tractable microbes can determine whether a prediction merits biochemical validation, which is costly and demands specialized skills.
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