PHYTOCHROME-INTERACTING FACTOR 5 (PIF5) positively regulates dark-induced senescence and chlorophyll degradation in Arabidopsis

Zhang, Yongqiang; Liu, Zhongjuan; Chen, Yadi; He, Jun; Bi, Yurong

doi:10.1016/j.plantsci.2015.05.010

Cited by 85 publications

(81 citation statements)

References 47 publications

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“…2; Hornitschek et al, 2009;Hao et al, 2012;Lee et al, 2014;Nieto et al, 2015). Besides hypocotyl elongation, PIF4 also controls several physiological and development aspects, such as stomatal development in response to light quality, circadian gating, chlorophyll degradation and leaf senescence in darkness, freezing tolerance, and anthocyanin biosynthesis under red-light conditions Casson et al, 2009;Lee and Thomashow, 2012;Sakuraba et al, 2014;Song et al, 2014;Liu et al, 2015;Zhang et al, 2015;Zhu et al, 2016a).…”

Section: Distinct and Shared Biological Functions Of Pifs In Arabidopsismentioning

confidence: 99%

“…PIF5 (and PIF4) functions as a positive regulator of leaf senescence through chlorophyll degradation in darkness (Sakuraba et al, 2014;Song et al, 2014;Zhang et al, 2015) and as a negative regulator of red light-induced anthocyanin biosynthesis . PIF5 in collaboration with PIF4 and PIF7 functions as an important regulator of shade avoidance in Arabidopsis Hornitschek et al, 2009;Li et al, 2012a).…”

Section: Distinct and Shared Biological Functions Of Pifs In Arabidopsismentioning

confidence: 99%

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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%

Section: Distinct and Shared Biological Functions Of Pifs In Arabidopsismentioning

confidence: 99%

Phytochromes and Phytochrome Interacting Factors

2017

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“…Light modulates photoreceptor activity, which in turn triggers transcription factor (TF) regulation. For example, the phytochrome-interacting TFs, PIF4 and PIF5, negatively regulate phytochrome B (phyB)-mediated red light responses, and are required for dark-induced leaf senescence 12, 13 . The expression of the major senescence-promoting NAC transcription factor ORESARA 1 (ORE1), which is a downstream factor of PIF4/5 , is activated in the dark 12, 13 .…”

Section: Introductionmentioning

confidence: 99%

“…For example, the phytochrome-interacting TFs, PIF4 and PIF5, negatively regulate phytochrome B (phyB)-mediated red light responses, and are required for dark-induced leaf senescence 12, 13 . The expression of the major senescence-promoting NAC transcription factor ORESARA 1 (ORE1), which is a downstream factor of PIF4/5 , is activated in the dark 12, 13 . Under darkness, PIFs repress GOLDEN2-LIKE1 ( GLK1 ), which is an important chloroplast maintenance master regulator involved in the PIFs-dependent regulatory network and influences photosynthesis-associated genes and plastid retrograde signalling 14–16 .…”

Section: Introductionmentioning

confidence: 99%

Genome-wide mapping of DNase I hypersensitive sites reveals chromatin accessibility changes in Arabidopsis euchromatin and heterochromatin regions under extended darkness

Liu

Zhang

et al. 2017

Sci Rep

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Light, as the energy source in photosynthesis, is essential for plant growth and development. Extended darkness causes dramatic gene expression changes. In this study, we applied DNase-seq (DNase I hypersensitive site sequencing) to study changes of chromatin accessibility in euchromatic and heterochromatic regions under extended darkness in Arabidopsis. We generated 27 Gb DNase-seq and 67.6 Gb RNA-seq data to investigate chromatin accessibility changes and global gene expression under extended darkness and control condition in Arabidopsis. We found that ~40% DHSs (DNaseI hypersensitive sites) were diminished under darkness. In non-TE regions, the majority of DHS-changed genes were DHS-diminished under darkness. A total of 519 down-regulated genes were associated with diminished DHSs under darkness, mainly involved in photosynthesis process and retrograde signaling, and were regulated by chloroplast maintenance master regulators such as GLK1. In TE regions, approximately half of the DHS-changed TEs were DHS-increased under darkness and were primarily associated with the LTR/Gypsy retrotransposons in the heterochromatin flanking the centromeres. In contrast, DHS-diminished TEs under darkness were enriched in Copia, LINE, and MuDR dispersed across chromosomes. Together, our results indicated that extended darkness resulted in more increased chromatin compaction in euchromatin and decompaction in heterochromatin, thus further leading to gene expression changes in Arabidopsis.

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“…ChIP–PCR experiment confirmed that PIF4 binds to the E-box motifs of the promoters of both chloroplast activity maintainer genes GOLDEN 2-LIKE 1 ( GLK1 ) and GLK2 , repressing their expression [16]. Additionally, PIF4 and PIF5 act as transcriptional activators of the master senescence transcription factor ORESARA 1 ( ORE1 ) and chlorophyll degrading enzyme encoding genes, such as STAY GREEN 1 ( SGR1 ) and NON-YELLOW COLORING 1 ( NYC1 ), during dark-induced senescence by direct interaction with the G-box motifs on the corresponding promoter regions [16–18]. Finally, PIF1 has been shown to directly bind the G-box motif of the promoter of the chlorophyll and carotenoid biosynthetic genes PROTOCHLOROPHYLLIDE OXIDOREDUCTASE and PHYTOENE SYNTHASE ( PSY ), inducing and inhibiting their transcription, respectively [19,20].…”

Section: Introductionmentioning

confidence: 99%

Phytochrome Interacting Factors (PIFs) in Solanum lycopersicum: Diversity, Evolutionary History and Expression Profiling during Different Developmental Processes

et al. 2016

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Although the importance of light for tomato plant yield and edible fruit quality is well known, the PHYTOCHROME INTERACTING FACTORS (PIFs), main components of phytochrome-mediated light signal transduction, have been studied almost exclusively in Arabidopsis thaliana. Here, the diversity, evolution and expression profile of PIF gene subfamily in Solanum lycopersicum was characterized. Eight tomato PIF loci were identified, named SlPIF1a, SlPIF1b, SlPIF3, SlPIF4, SlPIF7a, SlPIF7b, SlPIF8a and SlPIF8b. The duplication of SlPIF1, SlPIF7 and SlPIF8 genes were dated and temporally coincided with the whole-genome triplication event that preceded tomato and potato divergence. Different patterns of mRNA accumulation in response to light treatments were observed during seedling deetiolation, dark-induced senescence, diel cycle and fruit ripening. SlPIF4 showed similar expression profile as that reported for A. thaliana homologs, indicating an evolutionary conserved function of PIF4 clade. A comprehensive analysis of the evolutionary and transcriptional data allowed proposing that duplicated SlPIFs have undergone sub- and neofunctionalization at mRNA level, pinpointing the importance of transcriptional regulation for the maintenance of duplicated genes. Altogether, the results indicate that genome polyploidization and functional divergence have played a major role in diversification of the Solanum PIF gene subfamily.

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PHYTOCHROME-INTERACTING FACTOR 5 (PIF5) positively regulates dark-induced senescence and chlorophyll degradation in Arabidopsis

Cited by 85 publications

References 47 publications

Phytochromes and Phytochrome Interacting Factors

Phytochromes and Phytochrome Interacting Factors

Genome-wide mapping of DNase I hypersensitive sites reveals chromatin accessibility changes in Arabidopsis euchromatin and heterochromatin regions under extended darkness

Phytochrome Interacting Factors (PIFs) in Solanum lycopersicum: Diversity, Evolutionary History and Expression Profiling during Different Developmental Processes

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