Role of <i>BASIC PENTACYSTEINE</i> transcription factors in a subset of cytokinin signaling responses

Shanks, Carly; Hecker, Andreas; Cheng, Chia Yi; Brand, Luise H.; Collani, Silvio; Schmid, Markus; Schäller, G.; Wanke, Dierk; Harter, Klaus; Kieber, Joseph J.

doi:10.1111/tpj.13962

Cited by 46 publications

(63 citation statements)

References 82 publications

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“…Expression of BPC genes occurs widely, but to different extents, in various organs. These genes play important roles in regulating the vegetative and reproductive development (Kooiker et al, 2005; Monfared et al, 2011; Simonini et al, 2012; Simonini and Kater, 2014; Mu et al, 2017; Shanks et al, 2018). Our results indicate that besides the core TFs (e.g.…”

Section: Discussionmentioning

confidence: 99%

Global Dynamic Molecular Profiles of Stomatal Lineage Cell Development by Single-Cell RNA Sequencing

Liu

Zhou

Guo

et al. 2020

Preprint

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30The regulation of stomatal lineage cell development has been extensively investigated. 31 However a comprehensive characterization of this biological process based on 32 single-cell transcriptome analysis has not yet been reported. Here, we performed 33 RNA-seq on over 12,844 individual cells from the cotyledons of five-day-old 34 Arabidopsis seedlings. We identified 11 cell clusters corresponding mostly to cells at 35 specific stomatal developmental stages with a series of new marker genes. 36 Comparative analysis of genes with the highest variable expression in these cell 37 clusters revealed three transcriptional networks that regulate the development of 38 mesophyll and guard cells, as well as the differentiation from protodermal to guard 39 mother cells. We investigated the developmental dynamics of marker genes via 40 pseudo-time analysis which revealed potential interactions between them. The 41 identification of several novel marker genes suggests new regulatory mechanisms 42 during development of stomatal cell lineage. 43 44 45 46 47 48 49 50 51 52 3 / 37 53 54 55 75 MacAlister et al., 2007; Pillitteri et al., 2007). To specify each cell state differentiation, 76 SPCH, MUTE, and FAMA form heterodimers with two paralogous bHLH-leucine 77 zipper (bHLH-LZ) transcription factors, SCREAM (SCRM) and SCRM2 (Kanaoka et 78 al., 2008). In addition, two partially redundant R2R3 MYB transcription factors, 79 FOUR LIPS (FLP) and MYB88, control stomatal terminal differentiation 80 independently of FAMA (GMC to GCs) (Lai et al., 2005; Ohashi-Ito and Bergmann, 81 2006). Two secreted cysteine-rich peptides, EPIDERMAL PATTERNING FACTOR1 82 4 / 37 (EPF1) and EPF2, are expressed at later and earlier stages of stomatal development, 83 respectively. These peptides are perceived by the cell-surface receptors, ERECTA 84 (ER)-family leucine-rich repeat receptor kinases (LRR-RKs), ER-LIKE1 (ERL1) and 85 ERL2, resulting in inhibition of stomatal development (Shpak et al., 2005; Hara et al., 86 2007; Hunt and Gray, 2009b; Lee et al., 2012). The receptor-like protein TOO 87 MANY MOUTHS (TMM) modulates the signaling strength of ER-family receptor 88kinases in a domain-specific manner (Nadeau and Sack, 2002; Lee et al., 2012). 89 Genetic evidence suggests that these signals are mediated via a mitogen-activated 90 protein kinase (MAPK) cascade, which eventually downregulates the transcription 91 factors responsible for initiating stomatal lineage via direct phosphorylation 92 (Bergmann et al., 2004; Lampard et al., 2008; Lampard et al., 2009; Kim et al., 2012). 93 Stomagen (also known as EPF-LIKE9) peptide promotes stomatal development by 94 competing with EPF2 for binding to ER (Sugano et al., 2010; Zhang et al., 2014; 95 Hronkova et al., 2015). One homeodomain-leucine zipper IV (HD-ZIP IV) protein, 96 HOMEODOMAIN GLABROUS2 (HDG2), acts as a key epidermal component 97 promoting stomatal differentiation (Peterson et al., 2013). It is highly expressed in 98 meristemoids, and a hdg2 mutant exhibits delayed meristemoid-to-GM...

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Section: Discussionmentioning

confidence: 99%

Global Dynamic Molecular Profiles of Stomatal Lineage Cell Development by Single-Cell RNA Sequencing

Liu

Zhou

Guo

et al. 2020

Preprint

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“…Moreover, BBR/BPC and GRAS were identified as candidate TFs which can directly bind the promoters of GAoxs . The BBR/BPC family is a poorly characterized plant transcription factor family of GAGA BINDING PROTEINS [ 55 , 56 ]. GRAS TFs are major players in GA signaling and some GRAS TFs were demonstrated to be involved in root development [ 57 , 58 ].…”

Section: Discussionmentioning

confidence: 99%

Comprehensive Analysis of Cucumber Gibberellin Oxidase Family Genes and Functional Characterization of CsGA20ox1 in Root Development in Arabidopsis

Sun

Pang

Yan

et al. 2018

IJMS

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Cucumber (Cucumis sativus L.) is an important vegetable crop worldwide and gibberellins (GAs) play important roles in the regulation of cucumber developmental and growth processes. GA oxidases (GAoxs), which are encoded by different gene subfamilies, are particularly important in regulating bioactive GA levels by catalyzing the later steps in the biosynthetic pathway. Although GAoxs are critical enzymes in GA synthesis pathway, little is known about GAox genes in cucumber, in particular about their evolutionary relationships, expression profiles and biological function. In this study, we identified 17 GAox genes in cucumber genome and classified them into five subfamilies based on a phylogenetic tree, gene structures, and conserved motifs. Synteny analysis indicated that the tandem duplication or segmental duplication events played a minor role in the expansion of cucumber GA2ox, GA3ox and GA7ox gene families. Comparative syntenic analysis combined with phylogenetic analysis provided deep insight into the phylogenetic relationships of CsGAox genes and suggested that protein homology CsGAox are closer to AtGAox than OsGAox. In addition, candidate transcription factors BBR/BPC (BARLEY B RECOMBINANT/BASIC PENTACYSTEINE) and GRAS (GIBBERELLIC ACID-INSENSITIVE, REPRESSOR of GAI, and SCARECROW) which may directly bind promoters of CsGAox genes were predicted. Expression profiles derived from transcriptome data indicated that some CsGAox genes, especially CsGA20ox1, are highly expressed in seedling roots and were down-regulated under GA3 treatment. Ectopic over-expression of CsGA20ox1 in Arabidopsis significantly increased primary root length and lateral root number. Taken together, comprehensive analysis of CsGAoxs would provide a basis for understanding the evolution and function of the CsGAox family.

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“…Cytokinins regulate gene transcription in target organs and developmental stages through a wide range of transcription factors (TF) [ 22 ]. One of the largest groups of plant TFs involved in cytokinin-dependent regulation is the family of NAC (for NAM, ATAF, and CUC) TFs.…”

Section: Introductionmentioning

confidence: 99%

Different sets of TaCKX genes affect yield-related traits in wheat plants grown in a controlled environment and in field conditions

et al. 2020

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Background TaCKX wheat gene family members (GFMs) encode the enzyme cytokinin oxidase/dehydrogenase (CKX), which irreversibly degrades cytokinins. The genes are important regulators of cytokinin content and take part in growth and development, with a major impact on yield-related traits. The goal of this research was to test whether these genes might be differentially expressed in the field compared to laboratory conditions and consequently differently affect plant development and yield. Results We compared expression and crosstalk of the TaCKX GFMs and TaNAC2-5A gene in modern varieties grown in a growth chamber (GC) and in the field and looked for differences in their impact on yield-related traits. The TaNAC2-5A gene was included in the research since it was expected to play an important role in co-regulation of these genes. The range of relative expression levels of TaCKX GFMs and TaNAC2-5A gene among tested cultivars was from 5 for TaCKX8 to more than 100 for TaCKX9 in the GC and from 6 for TaCKX8 to 275 for TaCKX10 in the field. The range was similar for four of them in the GC, but was much higher for seven others and TaNAC2-5A in the field. The TaCKX GFMs and TaNAC2-5A form co-expression groups, which differ depending on growth conditions. Consequently, the genes also differently regulate yield-related traits in the GC and in the field. TaNAC2-5A took part in negative regulation of tiller number and CKX activity in seedling roots only in controlled GC conditions. Grain number and grain yield were negatively regulated by TaCKX10 in the GC but positively by TaCKX8 and others in the field. Some of the genes, which were expressed in seedling roots, negatively influenced tiller number and positively regulated seedling root weight, CKX activity in the spikes, thousand grain weight (TGW) as well as formation of semi-empty spikes. Conclusions We have documented that: 1) natural variation in expression levels of tested genes in both environments is very high, indicating the possibility of selection of beneficial genotypes for breeding purposes, 2) to create a model of an ideotype for breeding, we need to take into consideration the natural environment.

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Role of BASIC PENTACYSTEINE transcription factors in a subset of cytokinin signaling responses

Cited by 46 publications

References 82 publications

Global Dynamic Molecular Profiles of Stomatal Lineage Cell Development by Single-Cell RNA Sequencing

Global Dynamic Molecular Profiles of Stomatal Lineage Cell Development by Single-Cell RNA Sequencing

Comprehensive Analysis of Cucumber Gibberellin Oxidase Family Genes and Functional Characterization of CsGA20ox1 in Root Development in Arabidopsis

Different sets of TaCKX genes affect yield-related traits in wheat plants grown in a controlled environment and in field conditions

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