Transcription factor PIF4 controls the thermosensory activation of flowering

Kumar, S. Vinod; Lucyshyn, Doris; Jaeger, Katja E.; Alós, Enriqueta; Alvey, Elizabeth; Harberd, Nicholas P.; Wigge, Philip A.

doi:10.1038/nature10928

Cited by 652 publications

(715 citation statements)

References 26 publications

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“…Among all known PIFs, PIF4 uniquely regulates hypocotyl elongation in response to light, shade, temperature, and diurnal conditions Lorrain et al, 2008;Franklin et al, 2011;Kumar et al, 2012). It does so by binding to the promoter sequences and activating the expression of target genes, including regulatory genes involved in auxin biosynthesis.…”

Section: Distinct and Shared Biological Functions Of Pifs In Arabidopsismentioning

confidence: 99%

Phytochromes and Phytochrome Interacting Factors

2017

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The basic helix-loop-helix domain-containing transcription factors that interact physically with the red and far-red light photoreceptors, phytochromes, are called PHYTOCHROME INTERACTING FACTORS (PIFs). In the last two decades, the phytochrome-PIF signaling module has been shown to be conserved from Physcomitrella patens to higher plants. Exciting recent studies highlight the discovery of at least four distinct kinases (PPKs, CK2, BIN2, and phytochrome itself) and four families of ubiquitin ligases (SCF EBF 1/2 , CUL3 LRB , CUL3 BOP , and CUL4 COP1-SPA ) that regulate PIF abundance both in dark and light conditions. This review discusses these recent discoveries with a focus on the central phytochrome signaling mechanisms that have a profound impact on plant growth and development in response to light.

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Section: Distinct and Shared Biological Functions Of Pifs In Arabidopsismentioning

confidence: 99%

Phytochromes and Phytochrome Interacting Factors

2017

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“…The regulatory effects of some of these interactions were demonstrated through perturbation or induction of the specific TF in transgenics or mutants (Pruneda-Paz et al, 2009;Zheng et al, 2009;Bassel et al, 2012;Huang et al, 2012;Kumar et al, 2012). Knowledge of the TF-DNA interactions in species other than Arabidopsis is limited.…”

Section: Introductionmentioning

confidence: 99%

SND1 Transcription Factor-Directed Quantitative Functional Hierarchical Genetic Regulatory Network in Wood Formation in Populus trichocarpa

et al. 2013

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Wood is an essential renewable raw material for industrial products and energy. However, knowledge of the genetic regulation of wood formation is limited. We developed a genome-wide high-throughput system for the discovery and validation of specific transcription factor (TF)-directed hierarchical gene regulatory networks (hGRNs) in wood formation. This system depends on a new robust procedure for isolation and transfection of Populus trichocarpa stem differentiating xylem protoplasts. We overexpressed Secondary Wall-Associated NAC Domain 1s (Ptr-SND1-B1), a TF gene affecting wood formation, in these protoplasts and identified differentially expressed genes by RNA sequencing. Direct Ptr-SND1-B1-DNA interactions were then inferred by integration of timecourse RNA sequencing data and top-down Graphical Gaussian Modeling-based algorithms. These Ptr-SND1-B1-DNA interactions were verified to function in differentiating xylem by anti-PtrSND1-B1 antibody-based chromatin immunoprecipitation (97% accuracy) and in stable transgenic P. trichocarpa (90% accuracy). In this way, we established a Ptr-SND1-B1-directed quantitative hGRN involving 76 direct targets, including eight TF and 61 enzyme-coding genes previously unidentified as targets. The network can be extended to the third layer from the second-layer TFs by computation or by overexpression of a second-layer TF to identify a new group of direct targets (third layer). This approach would allow the sequential establishment, one two-layered hGRN at a time, of all layers involved in a more comprehensive hGRN. Our approach may be particularly useful to study hGRNs in complex processes in plant species resistant to stable genetic transformation and where mutants are unavailable.

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“…We have chosen to focus mainly on the integration of hormonal signals and the circadian clock. However, there is also evidence that PIFs integrate other pathways that are only briefly mentioned in this review, such as temperature (Koini et al, 2009;Stavang et al, 2009;Kumar et al, 2012) and sugar metabolism Lilley et al, 2012;Sairanen et al, 2012). First, we summarize current knowledge of the PIF-phy interplay regulating morphogenesis.…”

mentioning

confidence: 99%