Auxin decreases chromatin accessibility through the TIR1/AFBs auxin signaling pathway in proliferative cells

Hasegawa, Junko; Sakamoto, Takuya; Fujimoto, Shinsaku; Yamashita, Tomoe; Suzuki, Takamasa; Matsunaga, Sachihiro

doi:10.1038/s41598-018-25963-y

Cited by 24 publications

(25 citation statements)

References 63 publications

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“…In Arabidopsis mutant, chromatin conformation was severely affected by very low mRNA expression level of AtFAS1, causing reduced heterochromatin content, as well as loss of telomere and 45S rDNA [34][35][36][37] . Additionally, FAS1 was reported to participate in auxin-mediated TIR1/ AFBs signaling-responsive chromatin accessibility pathway 38 . From comparative transcriptome analysis, we found an enhanced TIR1/AFBs signaling transduction in male flowers compared to female flowers in all three seasons.…”

Section: Discussionmentioning

confidence: 99%

DNA methylome and transcriptome landscapes revealed differential characteristics of dioecious flowers in papaya

et al. 2020

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Separate sexes in dioecious plants display different morphology and physiological characteristics. The differences between the two sexes lie in their highly differentiated floral characteristics and in sex-related phenotype, which is genetically determined and epigenetically modified. In dioecious papaya (Carica papaya L.), global comparisons of epigenetic DNA methylation and gene expressions were still limited. We conducted bisulfite sequencing of early-stage flowers grown in three seasons (spring, summer and winter) and compared their methylome and transcriptome profiles to investigate the differential characteristics of male and female in papaya. Methylation variances between female and male papaya were conserved among three different seasons. However, combined genome-scale transcriptomic evidence revealed that most methylation variances did not have influence on the expression profiles of neighboring genes, and the differentially expressed genes were most overrepresented in phytohormone signal transduction pathways. Further analyses showed diverse stress-responsive methylation alteration in male and female flowers. Male flower methylation was more responsive to stress whereas female flower methylation varied less under stress. Early flowering of male papaya in spring might be associated with the variation in the transcription of CpSVP and CpAP1 coinciding with their gene-specific hypomethylation. These findings provide insights into the sex-specific DNA methylation and gene expression landscapes of dioecious papaya and a foundation to investigate the correlation between differentiated floral characteristics and their candidate genes.

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Section: Discussionmentioning

confidence: 99%

DNA methylome and transcriptome landscapes revealed differential characteristics of dioecious flowers in papaya

et al. 2020

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“…Recent developments in fluorescent marker design in both maize (Wu et al, 2013;Krishnakumar et al, 2015) and rice (Yang et al, 2017), specifically the development of fluorescent auxin biosensors (Mir et al, 2017;Yang et al, 2017), have greatly improved molecular and functional characterization approaches of auxin genes in monocots. Functional studies will further profit from newly developed biochemical inhibitors that, in addition to the currently available auxin transport inhibitors, now enable various aspects of auxin biosynthesis and signaling to be inhibited (Hasegawa et al, 2018;Ma et al, 2018). In addition, recent developments of the orthogonal convexconcave auxin-TIR1 pair (Torii et al, 2018) and synthetic auxin yeast systems (Havens et al, 2012;Pierre-Jerome et al, 2013, 2014 will allow for further investigation of conservation and diversification of auxin signaling, bypassing issues of redundancy.…”

Section: Conclusion and Future Perspectivesmentioning

confidence: 99%

Auxin EvoDevo: Conservation and Diversification of Genes Regulating Auxin Biosynthesis, Transport, and Signaling

et al. 2019

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The phytohormone auxin has been shown to be of pivotal importance in growth and development of land plants. The underlying molecular players involved in auxin biosynthesis, transport, and signaling are quite well understood in Arabidopsis. However, functional characterizations of auxin-related genes in economically important crops, specifically maize and rice, are still limited. In this article, we comprehensively review recent functional studies on auxin-related genes in both maize and rice, compared with what is known in Arabidopsis, and highlight conservation and diversification of their functions. Our analysis is illustrated by phylogenetic analysis and publicly available gene expression data for each gene family, which will aid in the identification of auxin-related genes for future research. Current challenges and future directions for auxin research in maize and rice are discussed. Developments in gene editing techniques provide powerful tools for overcoming the issue of redundancy in these gene families and will undoubtedly advance auxin research in crops.

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“…Flower buds were fixed in Farmer's fixative at 25°C for 12 h. The preparation of nuclei and hybridization of DNA with FISH probes were performed as described previously [43]. The DNA probes were synthesized as follows.…”

Section: Fish Analysismentioning

confidence: 99%

Plant condensin II is required for the correct spatial relationship between centromeres and rDNA arrays

Sakamoto

Sugiyama

Yamashita

et al. 2019

Nucleus

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Plants possess the structural maintenance of chromosome (SMC) protein complexes cohesin, condensin, and SMC5/6, which function in fundamental biological processes such as sister chromatid cohesion, chromosome condensation and segregation, and damaged DNA repair. Recently, increasing evidence in several organisms has suggested that condensin is involved in chromatin organizations during interphase. In Arabidopsis thaliana , condensin II is localized in the nucleus throughout interphase and is suggested to be required for keeping centromeres apart and the assembly of euchromatic chromosome arms. However, it remains unclear how condensin II organizes chromatin associations. Here, we first showed the high possibility that the function of condensin II as a complex is required for the disassociation of centromeres. Analysis of the rDNA array distribution revealed that condensin II is also indispensable for the association of centromeres with rDNA arrays. Reduced axial compaction of chromosomes and impaired genome integrity in condensin II mutants are not related to the disruption of chromatin organization. In contrast, the axial compaction of chromosomes by condensin II produces the force leading to the disassociation of heterologous centromeres in Drosophila melanogaster . Taken together, our data imply that the condensin II function in chromatin organization differs among eukaryotes.

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Auxin decreases chromatin accessibility through the TIR1/AFBs auxin signaling pathway in proliferative cells

Cited by 24 publications

References 63 publications

DNA methylome and transcriptome landscapes revealed differential characteristics of dioecious flowers in papaya

DNA methylome and transcriptome landscapes revealed differential characteristics of dioecious flowers in papaya

Auxin EvoDevo: Conservation and Diversification of Genes Regulating Auxin Biosynthesis, Transport, and Signaling

Plant condensin II is required for the correct spatial relationship between centromeres and rDNA arrays

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