F-Box Proteins in Rice. Genome-Wide Analysis, Classification, Temporal and Spatial Gene Expression during Panicle and Seed Development, and Regulation by Light and Abiotic Stress1[W][OA]
By Mukesh Jain, Aashima Nijhawan, Rita Arora, Pinky Agarwal, S. Ray, Pooja Sharma, S. Kapoor, Akhilesh K. Tyagi, J. Khurana. Plant Physiology, 2007
655 citations recorded by the source corpus.
F-box proteins constitute a large family in eukaryotes and are characterized by a conserved F-box motif (approximately 40 amino acids). As components of the Skp1p-cullin-F-box complex, F-box proteins are critical for the controlled degradation of cellular proteins. We have identified 687 potential F-box proteins in rice (Oryza sativa), the model monocotyledonous plant, by a reiterative database search. Computational analysis revealed the presence of several other functional domains, including leucine-rich repeats, kelch repeats, F-box associated domain, domain of unknown function, and tubby domain in F-box proteins. Based upon their domain composition, they have been classified into 10 subfamilies. Several putative novel conserved motifs have been identified in F-box proteins, which do not contain any other known functional domain. An analysis of a complete set of F-box proteins in rice is presented, including classification, chromosomal location, conserved motifs, and phylogenetic relationship. It appears that the expansion of F-box family in rice, in large part, might have occurred due to localized gene duplications. Furthermore, comprehensive digital expression analysis of F-box protein-encoding genes has been complemented with microarray analysis. The results reveal specific and/or overlapping expression of rice F-box protein-encoding genes during floral transition as well as panicle and seed development. At least 43 F-box protein-encoding genes have been found to be differentially expressed in rice seedlings subjected to different abiotic stress conditions. The expression of several F-box protein-encoding genes is also influenced by light. The structure and function of F-box proteins in plants is discussed in light of these results and the published information. These data will be useful for prioritization of F-box proteins for functional validation in rice.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/b433a277e1a5570e4011437fcd07dbfa6946030c
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Citations in the corpus
- Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm (2011, background): “Among the 835 experimental samples currently available, there are 55 samples measured in the ripening seed and 84 samples measured in the panicl”
- Genomic Survey and Gene Expression Analysis of the Basic Leucine Zipper Transcription Factor Family in Rice1[W][OA] (2007, methodology): “Vol. 146, 2008 347 for 3 h (salt stress), and kept at 4 C 6 1 C for 3 h (cold stress) as described previously (Jain et al., 2007).”
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- Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana. (2008, background): “Fourteen stress-inducible miRNAs were detected, and our results were further confirmed by detecting their expression patterns and analyzing the cis-elements in their promoter sequences.”