Department of Biotechnology, College of Life Science and Biotechnology, Yonsei University, Seodaemun-gu, Seoul, Korea.
Nat Biotechnol. 2010 Feb;28(2):149-56. doi: 10.1038/nbt.1603. Epub 2010 Jan 31.
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.
我们介绍了一种通过综合使用全基因组功能网络和靶向反向遗传筛选将基因与植物性状相关联的合理方法。我们提出了一个功能关联的概率网络（AraNet），其中包含参考开花植物拟南芥（Arabidopsis thaliana）的 19647 个（73%）基因。AraNet 关联可预测多种生物途径，并且优于仅基于文献的蛋白质相互作用得出的预测，对于 55%的基因实现了 21%的精度。AraNet 对有限规模的功能筛选进行优先级排序，当将其应用于早期幼苗发育作为测试案例时，与随机插入突变体的筛选相比，其命中率提高了十倍。通过询问网络邻域，我们确定 AT1G80710（现为干旱敏感 1；DRS1）和 AT3G05090（现为侧根刺激 1；LRS1）分别为干旱敏感性和侧根发育的调节剂。AraNet（http://www.functionalnet.org/aranet/）为植物基因功能鉴定和植物性状的遗传剖析提供了一个资源。
