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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Affy_petaldvt_lyon_rose: Flower/Petal initiation and development in roses

ABSTRACT: affy_petaldvt_lyon_rose. The objective is to identify genes involved in petal development in rose. We aim at identifying genes whose expression correlates with flower opening and scent emission. In this study, we used a microarray approach to compare the transcriptome of a scented rose flower (PF) versus non-scented rose flower (RF). Samples (petal tissues) were collected at the same time early in the afternoon. Total RNA was extracted using the Plant RNA kit (Macherey Nagel), and then used to hybridize Rosa-Affymetrix microarrays. Keywords: scented vs non-scented flowers 4 arrays - rose. Scented and non-scented flowers, 2 replicates each.

ORGANISM(S): Rosa hybrid cultivar

SUBMITTER: sandrine balzergue

PROVIDER: E-GEOD-18357 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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affy_cinetique_lyon_rose: Flower/Petal initiation and development in roses

Project description:affy_cinetique_lyon_rose. The objective is to identify genes involved in petal development and senescence. R. chinensis cv Old Blush (OB) was used for the following reasons: it is a diploid Chinese rose that participated in the generation of modern roses (recurrent flowering, scent, etc.). The objective here is to identify genes whose expression is associated with different flower development stages, from floral meristem to senescing flower. These genes are putative candidates involved in floral initiation, development and senescence. All samples were collected at the same time early in the afternoon. Meristems and early flower development stages were dissected under a microscope. Total RNA was extracted from harvested tissues using the Plant RNA kit (Macherey Nagel), and then used to hybridize Rosa-Affymetrix microarrays. Keywords: time course 12 arrays - rose 6 developmental stages, 2 replicates each.

2011-08-31 | E-GEOD-18342 | biostudies-arrayexpress

affy_duplicature_lyon_rose. Double flower phenomenon: Control of petal number in roses

Project description:affy_duplicature_lyon_rose. The objective is to identify the genes involved in petal doubling in rose. In this study we are using two rosa gallica genotypes: wild-type (simple flower rose) and Cardinal de Richelieu (double flower rose), and two rosa hybrida genotypes : Souvenir de la Malmaison, which has about 110 petal, and its bud sport cultivar, Souvenir de St Anne’s. In this study, we used a microarray approach to compare the transcriptome of double flower rose (CDR) versus simple flower rose (G). The objective is to identify genes whose expression is associated with the double flower phenotype. These genes are putative candidates involved in the control of petal organ number per flower. Floral buds were dissected under a microscope and pooled in eppendorf tubes. Tissue samples were harvested at the same time during 3 weeks in April 2007. Total RNA was extracted from the pools of flowers using the Plant RNA kit (Macherey Nagel), and then used to hybridize Rosa-Affymetrix microarrays. Keywords: genotype comparison 8 arrays - rose. 4 genotypes, 2 replicates each.

2011-08-31 | E-GEOD-18353 | biostudies-arrayexpress

affy_petaldvt_lyon_rose: Flower/Petal initiation and development in roses

Project description:affy_petaldvt_lyon_rose. The objective is to identify genes involved in petal development in rose. We aim at identifying genes whose expression correlates with flower opening and scent emission. In this study, we used a microarray approach to compare the transcriptome of a scented rose flower (PF) versus non-scented rose flower (RF). Samples (petal tissues) were collected at the same time early in the afternoon. Total RNA was extracted using the Plant RNA kit (Macherey Nagel), and then used to hybridize Rosa-Affymetrix microarrays. Keywords: scented vs non-scented flowers

2011-09-01 | GSE18357 | GEO

affy_duplicature_lyon_rose. Double flower phenomenon: Control of petal number in roses

2011-09-01 | GSE18353 | GEO

affy_cinetique_lyon_rose: Flower/Petal initiation and development in roses

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Expression profiles of water deficit stress (WDS) regulated genes in rose petals

Project description:Water deficit stress (WDS) is a crucial factor that causes the inhibition of petal expansion and abnormal flower opening in rose. The regulatory mechanisms of petal expansion by WDS at transcriptional level were investigated by analysis expression profiles under WDS. Analysis used total RNA samples of petals taken from flowers treated by WDS comparison to those from control flowers. Transcriptome dynamics during treatment time responsive to WDS.

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Transcriptome and gene expression analysis during flower blooming in Rosa chinensis ‘Pallida’

Project description:Rosa chinensis ‘Pallida’ (Rosa L.) is one of the most important ancient rose cultivars originating from China. It contributed the ‘tea scent’ trait to modern roses. However, little information is available on the gene regulatory networks involved in scent biosynthesis and metabolism in Rosa. In this study, the transcriptome of R. chinensis ‘Pallida’ petals at different developmental stages, from flower buds to senescent flowers, was investigated using Illumina sequencing technology. De novo assembly generated 89,614 clusters with an average length of 428 bp. Based on sequence similarity search with known proteins, 62.9% of total clusters were annotated. Out of these annotated transcripts, 25,705 and 37,159 sequences were assigned to gene ontology and clusters of orthologous groups, respectively. The dataset provides information on transcripts putatively associated with known scent metabolic pathways. Digital gene expression (DGE) was obtained using RNA samples from flower bud, open flower and senescent flower stages. Comparative DGE and quantitative real time PCR permitted the identification of five transcripts encoding proteins putatively associated with scent biosynthesis in roses. The study provides a foundation for scent-related genes discovery in roses.

2015-01-01 | GSE54486 | GEO

Proteome and Ubiquitome Changes during Rose Petal Senescence

Project description:Petal senescence involves numerous programmed changes in biological and biochemical processes. Ubiquitination plays a critical role in protein degradation, a hallmark of organ senescence. Therefore, we investigated changes in the proteome and ubiquitome of senescing rose (Rosa hybrida) petals to better understand their involvement in petal senescence. Of 3859 proteins quantified in senescing petals, 1198 were up-regulated and 726 were down-regulated during senescence. We identified 2208 ubiquitinated sites including 384 with increased ubiquitination in 298 proteins and 1035 with decreased ubiquitination in 674 proteins. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses revealed that proteins related to peptidases in proteolysis and autophagy pathways were enriched in the proteome, suggesting that protein degradation and autophagy play important roles in petal senescence. In addition, many transporter proteins accumulated in senescing petals, and several transport processes were enriched in the ubiquitome, indicating that transport of substances is associated with petal senescence and regulated by ubiquitination. Moreover, several components of the brassinosteroid (BR) biosynthesis and signaling pathways were significantly altered at the protein and ubiquitination levels, implying that BR plays important roles in petal senescence. Our data provide a comprehensive view of rose petal senescence at the posttranslational level.

2020-05-27 | PXD016490 | Pride

Expression profiles of water deficit stress (WDS) regulated genes in rose petals

2013-01-09 | GSE33217 | GEO

affy_floral_rose-Study of floral initiation and recurrent blooming in rose

Project description:affy_floralangers_rose - affy_floral_rose - - Which genes are induced during floral initiation? - Are the genes involved in floral initiation identical between our 3 genotypes? - Which genes are involved in the control of recurrent blooming in rose? - Which genes are diferentially expressed between buds that will become floral and buds that will remain vegetative?-This project aims to find in rose genes involved in flowering control (floral initiation and recurrent flowering). First, the floral initiation will be observed in 3 genotypes. Then we will check if same genes are regulated within genotypes for this process. Concerning recurrent blooming, we will compare flower bud versus vegetative buds in non-recurrent conditions and finally bud from non-recurrent and recurrent genotypes. Keywords: time course 26 arrays - rose

2011-08-31 | E-GEOD-17370 | biostudies-arrayexpress

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