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Transcriptome responses in the abscission, distal and proximal regions of the flower pedicel during shedding of flower in Euphorbia pulcherrima

ABSTRACT: Transcriptome responses in the abscission, distal and proximal regions of the flower pedicel during shedding of flower in Euphorbia pulcherrima

PROVIDER: PRJEB23796 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2214540_1.fastq.gz	Fastqsanger.gz
	ERR2214540_2.fastq.gz	Fastqsanger.gz
	ERR2214550_1.fastq.gz	Fastqsanger.gz
	ERR2214550_2.fastq.gz	Fastqsanger.gz
	ERR2214560_1.fastq.gz	Fastqsanger.gz

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Transcriptome responses in the abscission, distal and proximal regions of the flower pedicel during shedding of flower in Euphorbia pulcherrima

Project description:The aim of this study is to assess the global transcriptome changes during the shedding of the flower, which normally takes around 6 or 7 days. We selected four time points (from day 0 to day 6) and three different tissues within the flower bud; distal, abscission and proximal zones with three biological replicates. RNA extraction, library prep and paired end sequencing was performed. Our special interest is try to describe the changes in the abscission zone and the two adjacent tissues in order to get a whole picture of the shedding process. We performed a de novo assembly by Trinity and detected the transcripts and expression changes across spatial and temporal comparisons.

2017-12-31 | E-MTAB-6282 | biostudies-arrayexpress

Transcriptome Analysis using customized AZ microarray on Flower pedicel Abscission and non abscission zones in Tomato (Solanum lycopersicum c.v New Yorker) Plants.

Project description:To extend our previous knowledge from our gene expression studies on Flower pedicel Abscission zone using Affymetrix microarray chip we have employed whole transcriptome analysis by NGS as a discovery platform to identify and add the transcripts to pre-existing database. We designed the Customized AZ Microarray chip with the transcripts obtained from NGS (includes novel transcripts), pre existing Agilent probes, and some additional transcripts from previous databases. The flower pedicel AZ tissue and non abscission(NAZ) pedicel tissues was sampled at six time points (0, 4, 8, 12, 16 and 20 h), following flower removal, and analyzed for their gene expression profiles using the customized AZ microarray.

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Transcriptome analysis using customized AZ microarray on tomato Flower Abscission zone of transgeneic line TAPG::antisense TPRPgene

Project description:To extend our previous knowledge from our gene expression studies on Flower pedicel Abscission zone using Affymetrix microarray chip we have employed whole transcriptome analysis by NGS as a discovery platform to identify and add the transcripts to pre-existing database. We designed the Customized AZ Microarray chip with the transcripts obtained from NGS (includes novel transcripts), pre existing Agilent probes, and some additional transcripts from previous databases. we developed transgenic lines by antisense silenciencing the genes, which are expressed in the AZ to study the functional role in abscission process. In the current stuty we silenced TPRP gene by antisense technology under abscisson promoter (TAPG::antsisense TPRP). The flower pedicel AZ tissue tissue was sampled at six time points (0, 4, 8, 12, 16 and 20 h), following flower removal, and analyzed for their gene expression profiles using the customized AZ microarray.

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Transcriptome analysis using customized AZ microarray on tomato Flower Abscission zone of transgeneic line TAPG::antisense KD gene

Project description:To extend our previous knowledge from our gene expression studies on Flower pedicel Abscission zone using Affymetrix microarray chip we have employed whole transcriptome analysis by NGS as a discovery platform to identify and add the transcripts to pre-existing database. We designed the Customized AZ Microarray chip with the transcripts obtained from NGS (includes novel transcripts), pre existing Agilent probes, and some additional transcripts from previous databases. We developed transgenic lines by antisense silencing the genes, which are expressed in the AZ to study the functional role in abscission process. In the current stuty we silenced KD gene by antisense technology under abscisson promoter (TAPG::antsisense KD). The flower pedicel AZ tissue tissue was sampled at six time points (0, 4, 8, 12, 16 and 20 h), following flower removal, and analyzed for their gene expression profiles using the customized AZ microarray.

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Expression profiling of tomato pre-abscission pedicels

Project description:Organ abscission is a general activity found in plants and its regulation is an important agronomical concern because the trait directly affects the harvesting efficiency of fruits or grains and the yields. Generally, abscission takes place at a specialized cell layer, which is called abscission zones (AZs). So far, investigations on organ abscission have been focused mainly on the cell activities during organ detachment. By contrast, little attention has been paid to the properties of AZ cells at the pre-abscission stage. The pre-abscission cells are at a turning point for initiating abscission; until an abscission initiating signal is provided, the AZ cells keep their physiological state, while once the signal occurs, the cells immediately change their state into the onset of abscission. In this study, to screen the genes involved in the regulation of abscission at the pre-abscission state, we investigated the gene expression profiles of tomato flower pedicels at anthesis. The screening revealed many genes that characterize cell identities in each pedicel region.

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Project description:Euphorbia pulcherrima overview

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Euphorbia pulcherrima

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| PRJNA321655 | ENA

Euphorbia pulcherrima

Project description:Euphorbia pulcherrima Raw sequence reads

| PRJNA532349 | ENA