The genetic framework of shoot regeneration in Arabidopsis comprises master regulators and conditional fine-tuning factors

Lardon, Robin; Wijnker, Erik; Keurentjes, Joost J. B.; Geelen, Danny

doi:10.1038/s42003-020-01274-9

Cited by 38 publications

(30 citation statements)

References 100 publications

(123 reference statements)

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“…6 B). SoDof 22 is orthologous to AT4G21050 , which is involved in regenerated shoot numbers 51 . Comparing with the number of cis -elements of SoDofs , SoDof22 contained the most cis -elements associated with plant hormone.…”

Section: Discussionmentioning

confidence: 99%

Expression profiling of the Dof gene family under abiotic stresses in spinach

et al. 2021

Sci Rep

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DNA-binding with one finger (Dof) are plant-specific transcription factors involved in numerous pathways of plant development, such as abiotic stresses responses. Although genome-wide analysis of Dof genes has been performed in many species, but these genes in spinach have not been analyzed yet. We performed a genome-wide analysis and characterization of Dof gene family in spinach (Spinacia oleracea L.). Twenty-two Dof genes were identified and classified into four groups with nine subgroups, which was further corroborated by gene structure and motif analyses. Ka/Ks analysis revealed that SoDofs were subjected to purifying selection. Using cis-acting elements analysis, SoDofs were involved in plant growth and development, plant hormones, and stress responses. Expression profiling demonstrated that SoDofs expressed in leaf and inflorescence, and responded to cold, heat, and drought stresses. SoDof22 expressed the highest level in male flowers and under cold stress. These results provided a genome-wide analysis of SoDof genes, their gender- and tissue-specific expression, and response to abiotic stresses. The knowledge and resources gained from these analyses will benefit spinach improvement.

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Section: Discussionmentioning

confidence: 99%

Expression profiling of the Dof gene family under abiotic stresses in spinach

et al. 2021

Sci Rep

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“…7B). SoDof22 is orthologous to AT4G21050, which is involved in regenerated shoot numbers 40 . These Dof genes may be involved in the growth and development of spinach reproductive organs, and directly or indirectly affect the development of the female and male owers of spinach.…”

Section: Discussionmentioning

confidence: 99%

Expression Profiling of the Dof Gene Family Under Abiotic Stresses in Spinach

et al. 2021

Preprint

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DNA-binding with one finger (Dof) transcription factors are plant-specific transcription factors involved in numerous pathways of plant development, especially in respond to abiotic stresses. Although genome-wide analysis of this gene family has been performed in many species, Dof genes in spinach have not been thoroughly analyzed. We performed a genome-wide analysis and characterization of Dof gene family in spinach. Twenty two Dof genes were identified and classified into four groups with nine subgroups, which was further corroborated by gene structure and motif analyses. Ka/Ks analysis revealed that SoDofs were subjected to purify selection. Using Cis-acting elements analysis, SoDofs were involved in plant growth and development, plant hormones and stress responses. Expression profiling demonstrated that SoDofs expressed in leaf and inflorescence, and responded to cold, heat, and drought stresses. SoDof22 expressed the highest level in male flowers and under cold stress. These results provided a genome-wide analysis of SoDof genes, their gender- and tissue-specific expression, and response to abiotic stresses. The knowledge and resources gained from these analyses will benefit spinach improvement.

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“…T he ability to regenerate shoots or roots from in vitrocultured explants is a property shared by most plant species (Che et al, 2007;Ikeuchi et al, 2019;Lardon et al, 2020). In Arabidopsis thaliana, shoot regeneration can be induced directly or indirectly (Che et al, 2007;Xin et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

Cytosine methylation of the FWA promoter promotes direct in vitro shoot regeneration in Arabidopsis thaliana

Dai

Wang

Song

et al. 2021

JIPB

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Epigenetic modifications within promoter sequences can act as regulators of gene expression. Shoot regeneration is influenced by both DNA methylation and histone methylation, but the mechanistic basis of this regulation is obscure. Here, we identified 218 genes related to the regeneration capacity of callus that were differentially transcribed between regenerable calli (RC) and nonregenerable calli (NRC) in Arabidopsis thaliana. An analysis of the promoters of five of the differentially expressed genes (FWA, ACC1, TFL1, MAX3, and GRP3) pointed to an inverse relationship between cytosine methylation and transcription. The FWA promoter was demethylated and highly expressed in NRC, whereas it was methylated and expressed at low levels in RC. Explants of the hypomethylation mutants fwa-1 and fwa-2 showed strong levels of FWA expression and regenerated less readily than the wild type, suggesting that FWA inhibits direct in vitro shoot regeneration. WUSCHEL-RELATED HOMEOBOX 9 (WOX9), which is required for shoot apical meristem formation, was directly repressed by FWA. Overexpressing WOX9 partly rescued the shoot regeneration defect of fwa-2 plants. These findings suggest that cytosine methylation of the FWA promoter forms part of the regulatory system governing callus regenerability and direct in vitro shoot regeneration.

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The genetic framework of shoot regeneration in Arabidopsis comprises master regulators and conditional fine-tuning factors

Cited by 38 publications

References 100 publications

Expression profiling of the Dof gene family under abiotic stresses in spinach

Expression profiling of the Dof gene family under abiotic stresses in spinach

Expression Profiling of the Dof Gene Family Under Abiotic Stresses in Spinach

Cytosine methylation of the FWA promoter promotes direct in vitro shoot regeneration in Arabidopsis thaliana

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