Functional analyses of the Dof domain, a zinc finger DNA‐binding domain, in a pumpkin DNA‐binding protein AOBP

Shimofurutani, Naoko; Kisu, Yasutomo; Suzuki, Masashi; Esaka, Muneharu

doi:10.1016/s0014-5793(98)00670-x

Cited by 42 publications

(29 citation statements)

References 25 publications

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“…AOBP encodes a Dof/Zn-finger transcription factor that is proposed to repress AOX transcription and cause the accumulation of reduced ASC Shimofurutani et al, 1998). In contrast with these reports, our transcriptome and selective metabolite analyses show that AOBP expression is not positively correlated with ASC accumulation in tomato pericarp (Figure 4; see Supplemental Figure 1 online) and therefore imply that this metabolite is governed by factors in addition to or other than AOBP in this tissue.…”

Section: Candidate Regulatory Genes For Fruit Developmentcontrasting

confidence: 97%

Transcriptome and Selected Metabolite Analyses Reveal Multiple Points of Ethylene Control during Tomato Fruit Development

et al. 2005

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Transcriptome profiling via cDNA microarray analysis identified 869 genes that are differentially expressed in developing tomato (Solanum lycopersicum) pericarp. Parallel phenotypic and targeted metabolite comparisons were employed to inform the expression analysis. Transcript accumulation in tomato fruit was observed to be extensively coordinated and often completely dependent on ethylene. Mutation of an ethylene receptor (Never-ripe [Nr]), which reduces ethylene sensitivity and inhibits ripening, alters the expression of 37% of these 869 genes. Nr also influences fruit morphology, seed number, ascorbate accumulation, carotenoid biosynthesis, ethylene evolution, and the expression of many genes during fruit maturation, indicating that ethylene governs multiple aspects of development both prior to and during fruit ripening in tomato. Of the 869 genes identified, 628 share homology (E-value #1 3 10 ÿ10 ) with known gene products or known protein domains. Of these 628 loci, 72 share homology with previously described signal transduction or transcription factors, suggesting complex regulatory control. These results demonstrate multiple points of ethylene regulatory control during tomato fruit development and provide new insights into the molecular basis of ethylene-mediated ripening.

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Section: Candidate Regulatory Genes For Fruit Developmentcontrasting

confidence: 97%

Transcriptome and Selected Metabolite Analyses Reveal Multiple Points of Ethylene Control during Tomato Fruit Development

et al. 2005

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“…For example, OsMADS45 interacted with an undefined protein whose gene expression is induced in seeds. This undefined protein interacted with two ZFPs with a defined promoter-binding element (35) and with DOF domains resembling the Cys-2͞Cys-2 zinc finger DNAbinding domains of steroid receptors (36). The first DOF ZFP interacted with a protein with a basic helix-loop-helix domain shared across kingdoms by a class of TFs responsible for developmental transcription (37), supporting the notion of an extended TF interaction network for developmental control.…”

Section: Resultsmentioning

confidence: 68%

A network of rice genes associated with stress response and seed development

Cooper

Clarke

Budworth

et al. 2003

Proc. Natl. Acad. Sci. U.S.A.

238

180

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We used a systematic approach to build a network of genes associated with developmental and stress responses in rice by identifying interaction domains for 200 proteins from stressed and developing tissues, by measuring the associated gene expression changes in different tissues exposed to a variety of environmental, biological, and chemical stress treatments, and by localizing the cognate genes to regions of stress-tolerance trait genetic loci. The integrated data set suggests that similar genes respond to environmental cues and stresses, and some may also regulate development. We demonstrate that the data can be used to correctly predict gene function in monocots and dicots. As a result, we have identified five genes that contribute to disease resistance in Arabidopsis.

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“…When Cys 65 was replaced by Ala, the protein lost its capacity to bind Pb3 and also transactivate cZ. This indicates that the Cys2/ Cys2 Zn 2+ structure is necessary to maintain the proper conformation for DNA binding, as it has been previously described for other Dof transcription factors (Mena et al 1998;Shimofurutani et al 1998;Yanagisawa 1995). In addition to Cys residues, it appears that aromatic residues (Y and W) in the C-terminal part of Dof domain contribute to stabilize the Dof structure (Umemura et al 2004).…”

Section: Functional Domains Of Pbfmentioning

confidence: 65%

The maize Dof protein PBF activates transcription of γ-zein during maize seed development

et al. 2008

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Maize PBF (prolamin-box binding factor) belongs to the Dof class of plant specific transcription factors containing one highly conserved zinc finger DNA-binding domain, called Dof (DNA binding with one finger) domain. Maize PBF trans-activates the gamma-zein gene (gammaZ) promoter in developing maize seeds as shown by transient expression in maize endosperms. Co-transfection of a gammaZ:GUS construct with 35S:PBF resulted in a sevenfold increase in GUS expression, however, PBF mutation in Cys residues within the Dof domain abolishes both, binding to DNA and the capacity to activate gammaZ promoter. We present two pieces of evidence that PBF transactivates gammaZ promoter by binding to the Pb3 motif (TGTAAAG). First, recombinant Dof domain of PBF (bdPBF) specifically recognized Pb3 site as shown by gel mobility shift assays and second, co-expression of PBF with gammaZ promoter mutated in Pb3 motif suppressed PBF trans-activation capacity. Immunocytochemical analysis on developing endosperm sections shows that PBF is localized in the nuclei of the peripheral layer cells of starchy endosperm, the tissue in which the initial accumulation of gamma-zein protein occurs. By contrast, PBF is detected in the cytosol of the starchy endosperm cells newly differentiated from aleurone daughter cells, where gamma-zein was absent. Taken together these data indicate that maize PBF plays an essential role in the regulation of the temporal and spatial expression of gammaZ gene.

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Functional analyses of the Dof domain, a zinc finger DNA‐binding domain, in a pumpkin DNA‐binding protein AOBP

Cited by 42 publications

References 25 publications

Transcriptome and Selected Metabolite Analyses Reveal Multiple Points of Ethylene Control during Tomato Fruit Development

Transcriptome and Selected Metabolite Analyses Reveal Multiple Points of Ethylene Control during Tomato Fruit Development

A network of rice genes associated with stress response and seed development

The maize Dof protein PBF activates transcription of γ-zein during maize seed development

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