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Plant Physiology 135:773-782 (2004)
© 2004 American Society of Plant Biologists

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GENOME ANALYSIS

Genome-Wide ORFeome Cloning and Analysis of Arabidopsis Transcription Factor Genes1,[w]

Wei Gong2, Yun-Ping Shen2, Li-Geng Ma, Yi Pan, Yun-Long Du, Dong-Hui Wang, Jian-Yu Yang, Li-De Hu, Xin-Fang Liu, Chun-Xia Dong, Li Ma, Yan-Hui Chen, Xiao-Yuan Yang, Ying Gao, Danmeng Zhu, Xiaoli Tan, Jin-Ye Mu, Da-Bing Zhang, Yu-Le Liu, S.P. Dinesh-Kumar, Yi Li, Xi-Ping Wang, Hong-Ya Gu, Li-Jia Qu, Shu-Nong Bai, Ying-Tang Lu, Jia-Yang Li, Jin-Dong Zhao, Jianru Zuo, Hai Huang, Xing Wang Deng* and Yu-Xian Zhu*

Peking-Yale Joint Center for Plant Molecular Genetics and Agrobiotechnology, College of Life Sciences, and the National Laboratory of Protein Engineering and Plant Genetic Engineering, Peking University, Beijing 100871, China (W.G., Y.-P.S., L.-G.M., Y.P., Y.-L.D., D.-H.W., C.-X.D., Y.-H.C., X.-Y.Y., Y.G., D.Z., Y.L., H.-Y.G., L.-J.Q., S.-N.B., J.-D.Z., Y.-X.Z.); State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200433, China (J.-Y.Y., L.-D.H., X.-P.W.); Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China (X.-F.L., X.-L.T., J.-Y.M., J.-Y.L., J.Z.); Key Lab. of MOE for Plant Developmental Biology, College of Life Sciences, Wuhan University, Wuhan 430072, China (L.M., Y.-T.L.); School of Life Science and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China (D.-B.Z.); Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut 05620 USA (Y.-L.L., L.-G. M., S.P.D.-K., X.W.D.); and Shanghai Institute of Plant Physiology and Ecology, Shanghai 200032, China (H.H.)

Here, we report our effort in generating an ORFeome collection for the Arabidopsis transcription factor (TF) genes. In total, ORFeome clones representing 1,282 Arabidopsis TF genes have been obtained in the Gateway high throughput cloning pENTR vector, including 411 genes whose annotation lack cDNA support. All the ORFeome inserts have also been mobilized into a yeast expression destination vector, with an estimated 85% rate of expressing the respective proteins. Sequence analysis of these clones revealed that 34 of them did not match with either the reported cDNAs or current predicted open-reading-frame sequences. Among those, novel alternative splicing of TF gene transcripts is responsible for the observed differences in at least five genes. However, those alternative splicing events do not appear to be differentially regulated among distinct Arabidopsis tissues examined. Lastly, expression of those TF genes in 17 distinct Arabidopsis organ types and the cultured cells was profiled using a 70-mer oligo microarray.

1 This work was supported by a grant from the Chinese National Natural Science Foundation (grant no. 30221120261).

2 These authors contributed equally to the paper.

[w] The online version of this article contains Web-only data.

www.plantphysiol.org/cgi/doi/10.1104/pp.104.042176.

* Corresponding authors; e-mail xingwang.deng{at}yale.edu or zhuyx{at}water.pku.edu.cn; fax 203–432–5726.

Received March 5, 2004; returned for revision April 20, 2004; accepted April 20, 2004.




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