Histone H3K9 demethylase JMJ25 epigenetically modulates anthocyanin biosynthesis in poplar

Fan, Di; Wang, Xinqiang; Tang, Xiaofeng; Xiao, Ye; Ren, Sha; Wang, Denghui; Luo, Keming

doi:10.1111/tpj.14092

Cited by 55 publications

(24 citation statements)

References 87 publications

(117 reference statements)

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“…In poplar, few studies on gene editing by CRISPR/Cas9 have been published in the last four to five years [22,23,30,50,51,52,53]. All studies have in common that CRISPR/Cas9 has successfully been applied to insert a mutation in one or more genes for knockout (KO) of the poplar target gene.…”

Section: Discussionmentioning

confidence: 99%

“…[53] knocked out all NST/SND orthologs and confirmed their central role in the secondary cell wall (SCW) formation in wood fibres, xylem ray parenchyma cells and phloem fibers in hybrid aspen. [50] discovered an epigenetic mechanism that modified anthocyanin biosynthesis in poplar. Following knockout of a histone H3K9 demethylase gene JMJ25 , MYB182 expression is altered leading to a change of the histone methylation status in the chromatin.…”

Section: Discussionmentioning

confidence: 99%

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Evaluating the Efficiency of gRNAs in CRISPR/Cas9 Mediated Genome Editing in Poplars

Brügmann¹,

Deecke²,

Fladung³

2019

IJMS

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CRISPR/Cas9 has become one of the most promising techniques for genome editing in plants and works very well in poplars with an Agrobacterium-mediated transformation system. We selected twelve genes, including SOC1, FUL, and their paralogous genes, four NFP-like genes and TOZ19 for three different research topics. The gRNAs were designed for editing, and, together with a constitutively expressed Cas9 nuclease, transferred either into the poplar hybrid Populus × canescens or into P. tremula. The regenerated lines showed different types of editing and revealed several homozygous editing events which are of special interest in perennial species because of limited back-cross ability. Through a time series, we could show that despite the constitutive expression of the Cas9 nuclease, no secondary editing of the target region occurred. Thus, constitutive Cas9 expression does not seem to pose any risk to additional editing events. Based on various criteria, we obtained evidence for a relationship between the structure of gRNA and the efficiency of gene editing. In particular, the GC content, purine residues in the gRNA end, and the free accessibility of the seed region seemed to be highly important for genome editing in poplars. Based on our findings on nine different poplar genes, efficient gRNAs can be designed for future efficient editing applications in poplars.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Evaluating the Efficiency of gRNAs in CRISPR/Cas9 Mediated Genome Editing in Poplars

Brügmann¹,

Deecke²,

Fladung³

2019

IJMS

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“…6D). In rice, JMJ706 regulates transcription factor expression required for spikelet development, floral morphology and organ number (Sun and Zhou, 2008) Arabidopsis JMJ16 represses leaf senescence (Liu et al, 2019) and JMJ25 functions in poplar to remove H3K9me2 marks and modulate anthocyanin biosynthesis (Fan et al, 2018).…”

Section: Resultsmentioning

confidence: 99%

Gene expression in isolated cowpea (Vigna unguiculata L. Walp) cells from meiosis to seed initiation

Gursanscky

Mazurkiewicz

Juranić

et al. 2020

Preprint

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Molecular knowledge of pathways regulating seed formation in legumes, remains scarce. Thirteen isolated cell-type transcriptomes were developed, spanning temporal events of male and female gametogenesis and seed initiation, to examine pathways involved in cowpea seed formation. In situ hybridization confirmed localization of in silico identified cell-specific genes, verifying transcriptome utility. Cowpea and Arabidopsis reproductive cells showed some conservation in regulators enabling cell-type expression as some cowpea cell-specific genes promoters and their Arabidopsis homologs directed expression to identical reproductive cell-types in transgenic plants. In silico analyses revealed gene expression similarities and differences with genes in pathways regulating reproductive events in other plants. Meiosis-related genes were expressed at mitotic stages of gametogenesis and during sporophytic development in cowpea. Plant hormone pathways showing preferential expression at particular reproductive stages were identified. Expression of epigenetic pathways, resembling those found in Arabidopsis, including microRNA mediated gene silencing, RNA directed DNA methylation and histone modification were associated with particular stages of male and female gametophyte development, suggesting roles in gametogenic cell specification and elaboration. Analyses of cell-cycle related gene expression in mature cowpea female gametophytes, indicated that the egg and central cell were arrested at the G1/S and G2/M cell cycle phases, respectively, prior to fertilization. Pre-fertilization female gametophyte arrest was characterized by barely detectable auxin biosynthesis gene expression levels, and elevated expression of genes involved in RNA-mediated gene silencing and histone modification. These transcriptomes provide a useful resource for additional interrogation to support functional analyses for development of higher yielding cowpea and syntenic legume crops. One sentence summary Transcriptomes from cowpea reproductive cell-types isolated in temporal sequence from meiosis to seed initiation revealed cell-type gene expression profiles enabling comparison with gene expression pathways known to function in cell specification and reproductive development in other plants.

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“…For example, DNA methylation of the MdMYB1 promoter region affects the transcript levels of MdMYB1 and determines anthocyanin content in skin of two apple cultivars (Ma et al , 2018). Also, a histone H3K9 demethylase, JMJ25, directly affects the transcript levels of MYB182 , an anthocyanin repressor, to modulate anthocyanin biosynthesis in poplar (Fan et al , 2018). In morning glory, flower color variation can be caused by transposon insertions or excisions into anthocyanin biosynthetic or regulatory genes (Inagaki et al , 1994; Hoshino et al , 2001; Morita et al , 2014, 2015).…”

Section: Discussionmentioning

confidence: 99%

CmMYB#7, an R3 MYB transcription factor, acts as a negative regulator of anthocyanin biosynthesis in chrysanthemum

Xiang

Liu

et al. 2019

Journal of Experimental Botany

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‘Jimba’, a well-known white flowered chrysanthemum cultivar, occasionally and spontaneously produces red colored petals under natural cultivation, but there is little information about the molecular regulatory mechanism underlying this process. We analysed the expression patterns of 91 MYB transcription factors in ‘Jimba’ and ‘Turning red Jimba’ and identified an R3 MYB, CmMYB#7, whose expression was significantly decreased in ‘Turning red Jimba’ compared with ‘Jimba’, and confirmed it is a passive repressor of anthocyanin biosynthesis. CmMYB#7 competed with CmMYB6, which together with CmbHLH2 is an essential component of the anthocyanin activation complex, for interaction with CmbHLH2 through the bHLH binding site in the R3 MYB domain. This reduced binding of the CmMYB6–CmbHLH2 complex and inhibited its ability to activate CmDFR and CmUFGT promoters. Moreover, using transient expression assays we demonstrated that changes in the expression of CmMYB#7 accounted for alterations in anthocyanin content. Taken together, our findings illustrate that CmMYB#7 is a negative regulator of anthocyanin biosynthesis in chrysanthemum.

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Histone H3K9 demethylase JMJ25 epigenetically modulates anthocyanin biosynthesis in poplar

Cited by 55 publications

References 87 publications

Evaluating the Efficiency of gRNAs in CRISPR/Cas9 Mediated Genome Editing in Poplars

Evaluating the Efficiency of gRNAs in CRISPR/Cas9 Mediated Genome Editing in Poplars

Gene expression in isolated cowpea (Vigna unguiculata L. Walp) cells from meiosis to seed initiation

CmMYB#7, an R3 MYB transcription factor, acts as a negative regulator of anthocyanin biosynthesis in chrysanthemum

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