The KNOTTED-like genes of peach (Prunus persica L. Batsch) are differentially expressed during drupe growth and the class 1 KNOPE1 contributes to mesocarp development

Testone, Giulio; Condello, E.; Giacomo, Elisabetta Di; Nicolodi, Chiara; Caboni, E.; Rasori, Angela; Bonghi, Claudio; Bruno, Leonardo; Bitonti, Maria Beatrice; Giannino, Donato

doi:10.1016/j.plantsci.2015.05.005

Cited by 5 publications

(3 citation statements)

References 71 publications

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“…In addition, KNOPE1 is expressed in cortex and procambium at the primary growth stage of stems and prevents the lignification of primary stems by inhibiting ligninrelated genes (Testone et al, 2012). Subsequent studies found that KNOPE1 could inhibit the expression of PpGA3ox1 to affect gibberellin(GA) homeostasis, thereby regulating peel differentiation (Testone et al, 2015). Peach KNOPE3 (belonging to KNOX class II) may be involved in the regulation of sugar transport processes (Testone et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification of three-amino-acid-loop-extension gene family and their expression profile under hormone and abiotic stress treatments during stem development of Prunus mume

Qiu

Yuan²,

Cong³

et al. 2022

Front. Plant Sci.

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Transcription factors encoded by the three-amino-acid-loop-extension (TALE) gene family play a key role in regulating plant growth and development, and are involved in plant hormone regulatory pathways and responses to various environmental stresses. Researchers are currently studying TALE genes in different species, but Prunus mumeTALE genes have not yet been studied. Therefore, based on the P. mume genome, we found a total of 23 TALE gene family members, which were distributed on eight chromosomes. TALE genes contained the characteristic domains of this family, and could be divided into KNOTTED-like homeobox (KNOX) subfamily and BEL1-like homeobox (BELL) subfamily. They can form heterodimers with each other. Fragment duplication and tandem duplication events were the main reasons for the expansion of P. mumeTALE gene family members and the TALE genes were selected by different degrees of purification. The inter-species collinearity analysis showed that the relationship between P. mume and other four Prunus species was consistent with the distance of origin. Eleven members of P. mumeTALE genes were specifically highly expressed in stem, mainly at the early stage of stem development. The cis-element analysis showed that the promoter of P. mumeTALE genes contained a variety of hormone and abiotic stress response elements, and four TALE genes responded to two kinds of abiotic stresses and four kinds of hormones at the early stage of stem development. In conclusion, this study lays a foundation to explore the role of TALE gene family in P. mume growth and development.

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Section: Introductionmentioning

confidence: 99%

Genome-wide identification of three-amino-acid-loop-extension gene family and their expression profile under hormone and abiotic stress treatments during stem development of Prunus mume

Qiu

Yuan²,

Cong³

et al. 2022

Front. Plant Sci.

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“…The interaction of them affects phytohormone regulation that is related to plant development (Niu & Fu 2022). The heterodimer modulates phytohormone by activating cytokinin and repressing gibberellin (Tadege 2013;Testone et al 2015;Marsch-Martínez & de Folter 2016), which correlates to shoot development (Wybouw & De Rybel 2019;Arro et al 2019). Not only for shoot development, but also KNOX protein linked up to the lignification process in dicot and monocot plants (Townsley et al 2013;Xu et al 2019), the diversity of leaf shape (Gao et al 2015;Wang et al 2022), and a necessary role in starchy storage organs (Dong et al 2019;Rüscher et al 2021).…”

Section: Protein Modelling Of Poh1 Protein and Its Domain Functionmentioning

confidence: 99%

In Silico Analysis of Phalaenopsis Orchid Homeobox1 (POH1) Functional Gene for Shoot Development in Phalaenopsis Orchid

Rasjid,

Kurniawan,

Putri

et al. 2023

J.Tropical Biodiversity Biotechnology

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The most favorite ornamental crop in Indonesia is orchid which benefited as floriculture. Therefore, the quality of this crop must be improved. Biotechnology is appropriate to be used to improve the quality and quantity of orchid plants. To conduct this method, researchers must know what genes function in plant development. In Phalaenopsis orchids, the gene has been identified as homeobox genes called Phalaenopsis Orchid Homeobox1 (POH1). This research aims to conduct in silico analysis of the gene. The materials were retrieved from mRNA and amino acid databases. Then, the materials are aligned, visualized, motif location analysis, motif function discovery, phylogenetic construction, and protein 3D structural modelling. Based on mRNA and amino acid alignment, there are 4 domain regions that are conserved in POH1 and other homologous genes, such as KNOX1, KNOX2, ELK Domain, and Homeobox KN Domain, which roles as a transcription factor involved in plant development. SWISS-MODEL and ColabFold were used in protein modelling of the protein. By ColabbFold modelling, the modelling prediction uses 325 residues, higher than SWISS-MODEL in 59 residues. ColabFold validation by Ramachandra Plot depicts having the most favourite regions is 68.6%, while SWISS-MODEL is 92.3%. Another validation parameter is overall quality factor and QMEAN Score. Protein modelling by ColabFold has overall quality factor 89.252 and QMEAN Score 0.41 ± 0.05. However, SWISS-MODEL 3D prediction has overall quality factor 98.039 and QMEAN score of 0.71 ± 0.11.

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“…homeobox 12 (ATHB12) (Hur et al, 2015), NGATHA (NGA) (Ballester et al, 2015), ABCB19 (an ATP‐binding cassette membrane protein required for polar auxin transport) (Wu et al, 2016), myosins (motor proteins) (Peremyslov et al, 2015), BRI1‐EMS‐SUPPRESSOR1 (BES1) (Jiang et al, 2015), RLP44 (a receptor‐like protein) (Wolf et al, 2014), PSKR1 (a leucine‐rich repeat receptor kinase for phytosulfokine) (Ladwig et al, 2015), Cotton ( Gossypium hirsutum L.) Golgi‐Related 2 and 3 (CGR2 and ‐3) (Weraduwage et al, 2016), SPIRAL1 (SPR1, the microtubule plus‐end tracking protein) (Nakajima et al, 2004; Galva et al, 2014), augmin complex (Liu et al, 2014), SNARE (soluble N‐ethylmaleimide‐sensitive factor attachment protein receptor)/AtVAM3/AtVTI11/SYP121/122 (Yano et al, 2003; Löfke et al, 2015), SEC11/KEULE (Karnik et al, 2015), ZmABA8ox1b (Li et al, 2016), and ADP‐ribosylation factor (ZmArf2) (Wang et al, 2016a). By contrast, several factors were shown to control organ growth by negatively regulating cell expansion, including BIGPETALp (BPEp), RPT2a (Szécsi et al, 2006; Kurepa et al, 2009; Sonoda et al, 2009), MULTIPASS (OsMPS, an R2R3‐type MYB transcription factor [TF]) (Schmidt et al, 2013), PEROXIDASE71 (AtPRX71) (Raggi et al, 2015), Sl‐IAA17 (Aux and IAA transcriptional repressor) (Su et al, 2014), KNOPE1 (KNOTTED‐like) (Testone et al, 2015), AtKINESIN‐13A (AtKIN13A) (Fujikura et al, 2014), and rapid alkalinization factor (RALF) (Pearce et al, 2001; Bergonci et al, 2014).…”

mentioning

confidence: 99%

Phenotypic Characterization, Fine Mapping, and Altered Expression Profiling of Roses1 Mutation That Affects Organ Size and Water Loss Through Regulating Stomatal Density in Rice

et al. 2018

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Organ size is an important agronomic trait that directly affects the biomass of rice (Oryza sativa L.), thus identification and characterization of genes involved in organ size control would contribute to basic biology, as well as provide target genes for genetic manipulation of rice yield potential. Although organism or organ size is of pivotal importance, the molecular and genetic mechanisms underlying it remain far from understood. Here we report the isolation and characterization of reduced organ size with early senescence1 (roses1) mutant in rice. The roses1 mutant was obtained by ethyl methanesulfonate mutagenesis, and genetic analysis revealed that roses1 mutation is controlled by a single recessive nuclear gene. Distinct reduction in the size of organs in roses1 mutant plants was attributed to decreased cell number and cell size detected by histological analysis and the early leaf senescence with green and pale brown stripes, probably due to elevated stomata density detected by microscopy analysis. The ROSES1 gene was isolated by using map‐based cloning strategy, encoding a BEL1‐like homeobox transcription factor containing a plant‐specific peroxidase (POX) domain of unknown function. The β‐glucuronidase (GUS) activity driven by the ROSES1 promoter was strongly detected at the root meristem and elongation zone, shoot meristem, node, intercalary meristem of internode, leaf, inflorescence branch, and developing caryopsis and embryo. Differential gene expression analysis revealed potential regulatory networks involved in organ size control and stomata functioning that could be affected by the expression of the ROSES1 protein.

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The KNOTTED-like genes of peach (Prunus persica L. Batsch) are differentially expressed during drupe growth and the class 1 KNOPE1 contributes to mesocarp development

Cited by 5 publications

References 71 publications

Genome-wide identification of three-amino-acid-loop-extension gene family and their expression profile under hormone and abiotic stress treatments during stem development of Prunus mume

Genome-wide identification of three-amino-acid-loop-extension gene family and their expression profile under hormone and abiotic stress treatments during stem development of Prunus mume

<i>In Silico</i> Analysis of <i>Phalaenopsis Orchid Homeobox1</i> (<i>POH1</i>) Functional Gene for Shoot Development in <i>Phalaenopsis</i> Orchid

Phenotypic Characterization, Fine Mapping, and Altered Expression Profiling of Roses1 Mutation That Affects Organ Size and Water Loss Through Regulating Stomatal Density in Rice

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