Genome-wide analysis of core cell cycle genes in Arabidopsis.Vandepoele, K., Raes, J., De Veylder, L., Rouzé, P., Rombauts, S., Inzé, D.AbstractCyclin-dependent kinases and cyclins regulate with the help of different interacting proteins the progression through the eukaryotic cell cycle. A high-quality, homology-based annotation protocol was applied to determine the core cell cycle genes in the recently completed Arabidopsis genome sequence. In total, 61 genes were identified belonging to seven selected families of cell cycle regulators, for which 30 are new or corrections of the existing annotation. A new class of putative cell cycle regulators was found that probably are competitors of E2F/DP transcription factors, which mediate the G1-to-S progression. In addition, the existing nomenclature for cell cycle genes of Arabidopsis was updated, and the physical positions of all genes were compared with segmentally duplicated blocks in the genome, showing that 22 core cell cycle genes emerged through block duplications. This genome-wide analysis illustrates the complexity of the plant cell cycle machinery and provides a tool for elucidating the function of new family members in the future.Supplementary DataNext to the information present in the table below, additional data about the structural annotation is provided. Every GeneModel shows the intrensic Eugene prediction, EST matches, AGI annotation and the final annotation. If available, accession numbers of experimental mRNAs are given.
Note that within CDS sequences UTRs, based on EST information, can be present. In this case, the position of start and stop codon are indicated in the description line of the sequen
ce file. Since coordinates in the table are referring to genome version of January 18, 2001 (v180101), updated gene coordinates are provided within the GeneModels.These refer to the 5 pseudo molecules updated on AUG-2001 (Download here). GeneModels not 100% similar to the AGI annotation have been transferred to TAIR, which will update the incorrect annotatio n and create a "Cell cycle" section within the Gene families. This update should be finished by the end of February 2002.
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