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498 results on '"Yamashino, Takafumi"'

1. A hierarchical transcriptional network activates specific CDK inhibitors that regulate G2 to control cell size and number in Arabidopsis

Author

Nomoto, Yuji, Takatsuka, Hirotomo, Yamada, Kesuke, Suzuki, Toshiya, Suzuki, Takamasa, Huang, Ying, Latrasse, David, An, Jing, Gombos, Magdolna, Breuer, Christian, Ishida, Takashi, Maeo, Kenichiro, Imamura, Miyu, Yamashino, Takafumi, Sugimoto, Keiko, Magyar, Zoltán, Bögre, László, Raynaud, Cécile, Benhamed, Moussa, and Ito, Masaki

Published
2022
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5. A Small-Molecule Modulator Affecting the Clock-Associated PSEUDO-RESPONSE REGULATOR 7 Amount.

Author

Uehara, Takahiro N, Takao, Saori, Matsuo, Hiromi, Saito, Ami N, Ota, Eisuke, Ono, Azusa, Itami, Kenichiro, Kinoshita, Toshinori, Yamashino, Takafumi, Yamaguchi, Junichiro, and Nakamichi, Norihito

Subjects
SMALL molecules, TRANSCRIPTION factors, BIOLOGICAL rhythms, CHEMICAL libraries, BIOLOGICAL systems
Abstract

Circadian clocks are biological timekeeping systems that coordinate genetic, metabolic and physiological behaviors with the external day–night cycle. The clock in plants relies on the transcriptional-translational feedback loops transcription-translation feedback loop (TTFL), consisting of transcription factors including PSUEDO-RESPONSE REGULATOR (PRR) proteins, plant lineage–specific transcriptional repressors. Here, we report that a novel synthetic small-molecule modulator, 5-(3,4-dichlorophenyl)-1-phenyl-1,7-dihydro-4H-pyrazolo[3,4-d] pyrimidine-4,6(5H)-dione (TU-892), affects the PRR7 protein amount. A clock reporter line of Arabidopsis was screened against the 10,000 small molecules in the Maybridge Hitfinder 10K chemical library. This screening identified TU-892 as a period-lengthening molecule. Gene expression analyses showed that TU-892 treatment upregulates CIRCADIAN CLOCK–ASSOCIATED 1 (CCA1) mRNA expression. TU-892 treatment reduced the amount of PRR7 protein, a transcriptional repressor of CCA1. Other PRR proteins including TIMING OF CAB EXPRESSION 1 were altered less by TU-892 treatment. TU-892-dependent CCA1 upregulation was attenuated in mutants impaired in PRR7. Collectively, TU-892 is a novel type of clock modulator that reduces the levels of PRR7 protein. [ABSTRACT FROM AUTHOR]

Published
2023
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6. Author Reply to Peer Reviews of The mRNA decapping machinery targets LBD3/ASL9 to mediate apical hook and lateral root development in Arabidopsis

Author

Zuo, Zhangli, primary, Roux, Milena, additional, Chevalier, Jonathan, additional, Dagdas, Yasin, additional, Yamashino, Takafumi, additional, Hojgaard, Soren Diers, additional, Knight, Emilie, additional, Østergaard, Lars, additional, Rodriguez, Eleazar, additional, and Petersen, Morten, additional

Published
2023
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8. The mRNA decapping machinery targets LBD3/ASL9 to mediate apical hook and lateral root development

Author

Zuo, Zhangli, Roux, Milena E., Chevalier, Jonathan R., Dagdas, Yasin F., Yamashino, Takafumi, Højgaard, Søren D., Knight, Emilie, Østergaard, Lars, Rodriguez, Eleazar, Petersen, Morten, Zuo, Zhangli, Roux, Milena E., Chevalier, Jonathan R., Dagdas, Yasin F., Yamashino, Takafumi, Højgaard, Søren D., Knight, Emilie, Østergaard, Lars, Rodriguez, Eleazar, and Petersen, Morten

Abstract

Multicellular organisms perceive and transduce multiple cues to optimize development. Key transcription factors drive developmental changes, but RNA processing also contributes to tissue development. Here, we report that multiple decapping deficient mutants share developmental defects in apical hook, primary and lateral root growth. More specifically, LATERAL ORGAN BOUNDARIES DOMAIN 3 (LBD3)/ASYMMETRIC LEAVES 2-LIKE 9 (ASL9) transcripts accumulate in decapping deficient plants and can be found in complexes with decapping components. Accumulation of ASL9 inhibits apical hook and lateral root formation. Interestingly, exogenous auxin application restores lateral roots formation in both ASL9 over-expressors and mRNA decay–deficient mutants. Likewise, mutations in the cytokinin transcription factors type-B ARABIDOPSIS RESPONSE REGULATORS (B-ARRs) ARR10 and ARR12 restore the developmental defects caused by over-accumulation of capped ASL9 transcript upon ASL9 overexpression. Most importantly, loss-of-function of asl9 partially restores apical hook and lateral root formation in both dcp5-1 and pat triple decapping deficient mutants. Thus, the mRNA decay machinery directly targets ASL9 transcripts for decay, possibly to interfere with cytokinin/auxin responses, during development., Multicellular organisms perceive and transduce multiple cues to optimize development. Key transcription factors drive developmental changes, but RNA processing also contributes to tissue development. Here, we report that multiple decapping deficient mutants share developmental defects in apical hook, primary and lateral root growth. More specifically, LATERAL ORGAN BOUNDARIES DOMAIN 3 (LBD3)/ASYMMETRIC LEAVES 2-LIKE 9 (ASL9) transcripts accumulate in decapping deficient plants and can be found in complexes with decapping components. Accumulation of ASL9 inhibits apical hook and lateral root formation. Interestingly, exogenous auxin application restores lateral roots formation in both ASL9 over-expressors and mRNA decay-deficient mutants. Likewise, mutations in the cytokinin transcription factors type-B ARABIDOPSIS RESPONSE REGULATORS (B-ARRs) ARR10 and ARR12 restore the developmental defects caused by over-accumulation of capped ASL9 transcript upon ASL9 overexpression. Most importantly, loss-of-function of asl9 partially restores apical hook and lateral root formation in both dcp5-1 and pat triple decapping deficient mutants. Thus, the mRNA decay machinery directly targets ASL9 transcripts for decay, possibly to interfere with cytokinin/auxin responses, during development.

Published
2023

12. A hierarchical transcriptional network activates specific CDK inhibitors that regulate G2 to control cell size and number in Arabidopsis

Author

Nomoto, Yuji, primary, Takatsuka, Hirotomo, additional, Yamada, Kesuke, additional, Suzuki, Toshiya, additional, Suzuki, Takamasa, additional, Huang, Ying, additional, Latrasse, David, additional, An, Jing, additional, Gombos, Magdolna, additional, Breuer, Christian, additional, Ishida, Takashi, additional, Maeo, Kenichiro, additional, Imamura, Miyu, additional, Yamashino, Takafumi, additional, Sugimoto, Keiko, additional, Magyar, Zoltan, additional, Bogre, Laszlo, additional, Raynaud, Cecile, additional, Benhamed, Moussa, additional, and Ito, Masaki, additional

Published
2021
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17. mRNA decapping machinery targets transcripts of the LBD3/ASL9 transcription factor to authorize formation of apical hook and lateral roots in Arabidopsis

Author

Zuo, Zhangli, Roux, Milena Edna, Rodriguez, Eleazar, Chevalier, Jonathan Renaud, Dagdas, Yasin F., Yamashino, Takafumi, and Petersen, Morten

Subjects
fungi, food and beverages
Abstract

Multicellular organisms perceive and transduce multiple cues to optimize developmental reprogramming and cell state switching. Core transcription factors drive developmental changes, but transitions also require the attenuation of previous states. Here, we demonstrate that the levels of mRNAs of the LATERAL ORGAN BOUNDARIES DOMAIN (LBD)/ASYMMETRIC LEAVES9-LIKE (ASL9) transcription factor are directly regulated by mRNA decapping. Capped ASL9 transcripts accumulate in decapping deficient plants and ASL9 mRNAs are found together with decapping components. Accumulation of ASL9 inhibits apical hook and lateral roots formation and interestingly, exogenous auxin application restores apical and lateral roots in both ASL9 and mRNA decay deficient mutants. Moreover, mutations in the cytokinin transcription factors type-B ARABIDOPSIS RESPONSE REGULATORS (B-ARRs) ARR10 and ARR12 restore these developmental defects of ASL9 overexpression. Thus, the mRNA decay machinery directly targets ASL9 transcripts for decay to balance cytokinin/auxin responses during developmental reprogramming. Significance Statement Plants build new structures to shape their growth in response to environmental and developmental cues. Most developmental studies focus on the transcription rates of key regulators but largely neglect the contribution of mRNA stability or decay. Our work describes an essential function of mRNA decay in cellular reprogramming and developmental programs through functional analysis of the PAT (Proteins associated with Topoisomerase II) mRNA decapping components, and of DCP2 (Decapping 2) and DCP5. Developmental defects caused by accumulation of the mRNA decapping target ASL9 could be restored by interference with a cytokinin pathway and/or exogenous auxin application. Thus, mRNA decapping machinery targets ASL9 transcripts for decay to keep cytokinin/auxin response in balance and to promote developmental processes including apical hooking and lateral root formation.

Published
2019
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18. Genome-wide analyses revealing a signaling network of the RcsC-YojN-RcsB phosphorelay system in Escherichia coli

Author

Hagiwara, Daisuke, Sugiura, Masahito, Oshima, Taku, Mori, Hirotada, Aiba, Hirofumi, Yamashino, Takafumi, and Mizuno, Takeshi

Subjects
Microbiological synthesis -- Physiological aspects, Polysaccharides -- Physiological aspects, Cellular signal transduction -- Genetic aspects, Genomes -- Analysis, Biological sciences
Abstract

In Escherichia coli, capsular colanic acid polysaccharide synthesis is regulated through the multistep RcsC[right arrow]YojN[right arrow]RcsB phosphorelay. By monitoring a hallmarked cps::lacZ reporter gene, we first searched for physiological stimuli that propagate the Rcs signaling system. The expression of cps::lacZ was activated when cells were grown at a low temperature (20[degrees]C) in the presence of glucose as a carbon source and in the presence of a relatively high concentration of external zinc (1 mm Zn[Cl.sub.2]). In this Rcs signaling system, the rcsF gene product (a putative outer membrane-located lipoprotein) was also an essential signaling component. Based on the defined signaling pathway and physiological stimuli for the Rcs signaling system, we conducted genomewide analyses with microarrays to clarify the Rcs transcriptome (i.e., Rcs regulon). Thirty-two genes were identified as putative Rcs regulon members; these genes included 15 new genes in addition to 17 of the previously described cps genes. Using a set of 37 two-component system mutants, we performed alternative genome-wide analyses. The results showed that the propagation of the zinc-responsive Rcs signaling system was largely dependent on another two-component system, PhoQ/P. Considering the fact that the PhoQ/P signaling system responds to external magnesium, we obtained evidence which supports the view that there is a signaling network that connects the Rcs system with the PhoQ/P system, which coordinately regulates extracellular polysaccharide synthesis in response to the external concentrations of divalent cations.

Published
2003

42. The yhhP gene encoding a small ubiquitous protein is fundamental for normal cell growth in Escherichia coli

Author

Yamashino, Takafumi, Isomura, Mototoshi, Ueguchi, Chiharu, and Mizuno, Takeshi

Subjects
Bacterial proteins -- Research, Escherichia coli -- Physiological aspects, Bacteria -- Growth, Biological sciences
Abstract

The yhhP gene of Escherichia coli encodes a 81-residue protein that contributes to the stability of the sigma-s, a stress-induced sigma factor. Analysis of deletion mutants reveals that this protein is essential to the general physiology of Escherichia. Organisms deficient in yhhP fail to thrive in standard laboratory rich media and assume filamentous morphology. This protein has homologs in a wide range of bacterial species.

Published
1998

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