Genome-Wide Analysis of the Cyclin Gene Family in Tomato
Open Access
- 23 December 2013
- journal article
- research article
- Published by MDPI AG in International Journal of Molecular Sciences
- Vol. 15 (1), 120-140
- https://doi.org/10.3390/ijms15010120
Abstract
Cyclins play important roles in cell division and cell expansion. They also interact with cyclin-dependent kinases to control cell cycle progression in plants. Our genome-wide analysis identified 52 expressed cyclin genes in tomato. Phylogenetic analysis of the deduced amino sequences of tomato and Arabidopsis cyclin genes divided them into 10 types, A-, B-, C-, D-, H-, L-, T-, U-, SDS- and J18. Pfam analysis indicated that most tomato cyclins contain a cyclin-N domain. C-, H- and J18 types only contain a cyclin-C domain, and U-type cyclins contain another potential cyclin domain. All of the cyclin genes are distributed throughout the tomato genome except for chromosome 8, and 30 of them were found to be segmentally duplicated; they are found on the duplicate segments of chromosome 1, 2, 3, 4, 5, 6, 10, 11 and 12, suggesting that tomato cyclin genes experienced a mass of segmental duplication. Quantitative real-time polymerase chain reaction analysis indicates that the expression patterns of tomato cyclin genes were significantly different in vegetative and reproductive stages. Transcription of most cyclin genes can be enhanced or repressed by exogenous application of gibberellin, which implies that gibberellin maybe a direct regulator of cyclin genes. The study presented here may be useful as a guide for further functional research on tomato cyclins.This publication has 52 references indexed in Scilit:
- AUREOCHROME1a-Mediated Induction of the Diatom-Specific Cyclin dsCYC2 Controls the Onset of Cell Division in Diatoms (Phaeodactylum tricornutum)THE PLANT CELL ONLINE, 2013
- Early increased expression of a cyclin-dependant protein kinase (LtCDKA1;1) during inflorescence initiation of the long day grass Lolium temulentumFunctional Plant Biology, 2013
- The tomato genome sequence provides insights into fleshy fruit evolutionNature, 2012
- MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearityNucleic Acids Research, 2012
- The Pfam protein families databaseNucleic Acids Research, 2011
- A regulatory gene induces trichome formation and embryo lethality in tomatoProceedings of the National Academy of Sciences of the United States of America, 2011
- MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony MethodsMolecular Biology and Evolution, 2011
- Gibberellin Metabolism and its RegulationAnnual Review of Plant Biology, 2008
- Cyclin G1 and Cyclin G2 Comprise a New Family of Cyclins with Contrasting Tissue-specific and Cell Cycle-regulated ExpressionOnline Journal of Public Health Informatics, 1996
- Cyclin I: A New Cyclin Encoded by a Gene Isolated from Human BrainExperimental Cell Research, 1995