Exploring the function of the grape regulators VvMYB5a and MYB5b by heterologous expression in anthocyanin petunia mutants
Ontology highlight
ABSTRACT:
ORGANISM(S): Petunia axillaris Petunia x hybrida
PROVIDER: GSE48058 | GEO | 2013/12/19
SECONDARY ACCESSION(S): PRJNA208825
REPOSITORIES: GEO
Similar Datasets
Project description:To obtain insights about the roles of VvMYB5a and VvMYB5b, here we perform complementation analyses using petunia regulatory mutants impaired in pigment accumulation in flower epidermis, proven to be a valid tool for gene functional studies. We created three transgenic petunia lines overexpressing VvMYB5a, VvMYB5b and VvMYBA1 and we compared petal transcriptomes of each overexpressors with the untransformed one.
2013-12-19 | E-GEOD-48058 | biostudies-arrayexpress
Project description:To better understand how diurnal transcriptional regulation contributes to day/night cycles of volatile emission from the petunia flower, RNA extracted from corolla in the morning (7AM) and evening (7PM) was sequenced to determine genes differentially expressed at the two time points.
2023-10-24 | GSE230802 | GEO
Project description:Senescence represents the last stage of flower development. Phosphorylation is one of the key post-translational modifications that regulate protein functions in diverse biological pathways and contexts. Generally, kinases may be more required than phosphatases during plant growth and development. However, little is known about global phosphorylation change during flower senescence. In this work, we quantitatively investigated the petunia phosphoproteome following ethylene or air treatment. In total, 2170 phosphosites in 1184 protein groups were identified, among which 2059 sites in 1124 proteins were quantified. Treatment with ethylene resulted in 711 down-regulated and only 117 up-regulated phosphosites using a 1.5-fold threshold (P<0.05), showing that ethylene negatively regulates global phosphorylation levels and that phosphorylation of lots of proteins was not necessary during flower senescence. Our results show that protein dephosphorylation may play an important role of in ethylene-induced corolla senescence in petunia and that phosphatases may be more required than kinases during flower senescence. In addition, our results show that ethylene regulates ethylene and ABA signaling transduction pathways via phosphorylation level, and plant mRNA splicing machinery was a major target of ethylene-induced dephosphorylation. Moreover, ethylene treatment increases the number of alternative splicing of precursor RNAs in petunia corollas.
2022-02-15 | PXD005599 | Pride
Project description:To better understand how diurnal transcriptional regulation contributes to day/night cycles of volatile emission from the petunia flower, cross-linked chromatin from corolla in the morning (7AM) and evening (7PM) was immunoprecipitated with antibodies against 4 histone marks associated with trancriptional activity to determine islands enriched for the marks in morning and evening.
2023-11-08 | GSE230857 | GEO
Project description:We report the application of sequencing-by-synthesis technology for high-throughput profiling of small RNAs involved in Chalcone synthase A (CHS-A) sense cosuppression in petunia. Sense cosuppression is a classical form of eukaryotic post-transcriptional gene silencing. It was first reported in transgenic petunia, where a transgene overexpressing the host Chalcone Synthase-A (CHS-A) gene caused the degradation of the homologous transcripts and the loss of flower pigmentation. Though sense cosuppression is recognized as an RNA silencing mechanism, little evidence has been yet provided demonstrating its association with the generation of individual small interfering RNAs (siRNAs) that are the assumed determinants. In this work, the deep sequencing of small RNAs in cosuppressed transgenic petunia and WT petunia respectively allowed for the identication of siRNAs that vastly predominate in the silenced flower and guide prominent cleavage events in CHS-A mRNA. Examination of 2 small RNA populations from WT and cosuppressed petunia petals respectively
2009-09-27 | E-GEOD-13764 | biostudies-arrayexpress
Project description:We report the application of sequencing-by-synthesis technology for high-throughput profiling of small RNAs involved in Chalcone synthase A (CHS-A) sense cosuppression in petunia. Sense cosuppression is a classical form of eukaryotic post-transcriptional gene silencing. It was first reported in transgenic petunia, where a transgene overexpressing the host Chalcone Synthase-A (CHS-A) gene caused the degradation of the homologous transcripts and the loss of flower pigmentation. Though sense cosuppression is recognized as an RNA silencing mechanism, little evidence has been yet provided demonstrating its association with the generation of individual small interfering RNAs (siRNAs) that are the assumed determinants. In this work, the deep sequencing of small RNAs in cosuppressed transgenic petunia and WT petunia respectively allowed for the identication of siRNAs that vastly predominate in the silenced flower and guide prominent cleavage events in CHS-A mRNA.
2009-09-28 | GSE13764 | GEO
Project description:Petunia floral scent production and emission is highly regulated, with a major role for the transcription factor ODORANT1 (ODO1) in directing activation of volatile biosynthesis. Using ChIP-seq of tagged ODO1 protein from petunia flowers, and RNA-seq of wild-type and odo1i RNAi flowers, the ODORANT1-regulated gene network of petunia is described, which extends to branches involved in phenylpropanoid intermediate production and S-adenosyl-methionine biosynthesis to potentiate production and emission of volatiles. Analysis of direct targets of regulation has also enabled the identification of an ODO1 binding motif.
2021-11-22 | GSE189280 | GEO
Project description:Petunia is an excellent model system, especially for genetic, physiological and molecular studies. Thus far, however, genome-wide expression analysis has been rarely applied because of the lack of sequence information. We applied next-generation sequencing to generate, through de novo read assembly, a large catalogue of transcripts for Petunia axillaris and Petunia inflata. On the basis of the transcriptome of each species, comprehensive microarray chips for gene expression analysis were established and used for the analysis of global- and organ-specific gene expression in both species. In addition, microarray analysis was applied to explore the molecular basis of the seed coat defects in Petunia hybrida mutants, homozygous for a null allele of the AN11 gene, encoding a WDR transcription regulator. Among the transcripts differentially expressed in an11 seeds compared to wild type, many expected targets of AN11 were found but also several interesting new candidates that might play a role in morphogenesis of the seed coat. Our results validate the combination of next-generation sequencing with microarray analyses strategies to identify the transcriptome of two petunia species without previous knowledge of their genome, and to develop comprehensive chips as useful tools for the analysis of gene expression in P. axillaris, P. inflata and P. hybrida.
2012-02-29 | GSE28120 | GEO
Project description:Petunia is an excellent model system, especially for genetic, physiological and molecular studies. Thus far, however, genome-wide expression analysis has been rarely applied because of the lack of sequence information. We applied next-generation sequencing to generate, through de novo read assembly, a large catalogue of transcripts for Petunia axillaris and Petunia inflata. On the basis of the transcriptome of each species, comprehensive microarray chips for gene expression analysis were established and used for the analysis of global- and organ-specific gene expression in both species. In addition, microarray analysis was applied to explore the molecular basis of the seed coat defects in Petunia hybrida mutants, homozygous for a null allele of the AN11 gene, encoding a WDR transcription regulator. Among the transcripts differentially expressed in an11 seeds compared to wild type, many expected targets of AN11 were found but also several interesting new candidates that might play a role in morphogenesis of the seed coat. Our results validate the combination of next-generation sequencing with microarray analyses strategies to identify the transcriptome of two petunia species without previous knowledge of their genome, and to develop comprehensive chips as useful tools for the analysis of gene expression in P. axillaris, P. inflata and P. hybrida. The manuscript describes the creation by next generation sequencing of a large catalogue of the transcriptome of the two Petunia species, that are considered to represent the natural material from which the breeders selected their varieties. This submission represents the transcriptome component of study. The high throughput sequencing data were submitted to SRA (accession numbers: SRA027293, SRP004866.1, SRX036999.2, SRX036998.2).
2012-02-29 | E-GEOD-28120 | biostudies-arrayexpress
Project description:Acetyl-coenzyme A (acetyl-CoA) is a central metabolite and the acetyl source for protein acetylation. The formation of cytosolic acetyl-CoA is catalyzed by ATP-citrate lyase (ACL) from citrate. However, the effects of acetyl-CoA on protein acetylation were not well known. In this study, four genes, PhACLA1, PhACLA2, PhACLB1, PhACLB2, encoding ACLA and ACLB submits in petunia (Petunia hybrida) were identified. VIGS-mediated PhACLA1-A2 and PhACLB1-B2 silencing leads to abnormal leave and flower development and reduced total anthocyanins content, while silencing of any single PhACL gene did not result in visible phenotype change. We quantitatively investigated the petunia proteome, acetylome, and the association between them in petunia corollas treated with pTRV2-PhACLB1-B2 and pTRV2. In total, 6200 protein groups were identified from petunia, among which 5343 proteins were quantified. A total of 345 proteins were up-regulated and 182 proteins were down-regulated (with a threshold of 1.2-fold) in PhACLB1-B2-silenced plant compared with the control (P <0.05). A total of 2210 lysine acetylation sites in 1148 protein groups were identified, among which 1744 sites in 921 proteins were accurately quantified (Additional file 2: Table S7). We subsequently used the quantification results of the global proteome to normalize the acetylome quantification data. From these, 68 sites in 54 lysine acetylation proteins were quantified as up-regulated targets and 40 sites in 38 lysine acetylation proteins were quantified as down-regulated targets at a threshold of 1.2 (P < 0.05). The global proteome and acetylome were negatively correlated, implying that proteome expression levels were negatively regulated by acetylation in PhACLB1-B2-silenced plants compared with the control.
2020-06-24 | PXD015480 | Pride