Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Solanum lycopersicum

ABSTRACT: Changes in transcript abundance in the shoot apex highlight chloroplast development

PROVIDER: PRJNA396540 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR5883801.fastq.gz	Fastqsanger.gz
	SRR5883802.fastq.gz	Fastqsanger.gz
	SRR5883803.fastq.gz	Fastqsanger.gz
	SRR5883804.fastq.gz	Fastqsanger.gz
	SRR5883805.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 9

Similar Datasets

Tomato (Solanum lycopersicum) plants overexpressing cryptochrome 2 reveals modified expression of chloroplast genome

Project description:In this study we analyzed the effects of CRY2 over-expression on chloroplast genome transcription of tomato, by developing and using a tiling array. This array containing about 90,000 overlapping probes (5-nt resolution) is a versatile tool for global functional studies of tomato cp genome. We profiled transcription in leaves of wild-type (WT) and CRY2-overexpressing (CRY2-OX) plants grown in a diurnal cycle, to generate a comprehensive map of plastid transcription and to monitor potential specific modulations of chloroplast transcriptome induced by the overexpression of CRY2.

2016-06-24 | E-MTAB-1757 | biostudies-arrayexpress

smallRNA-seq of Solanum lycopersicum cv M82 WT versus Solanum lycopersicum cv Lukullus bearing the sulfurea epiallele

Project description:3 sRNA-seq bioreps of WT and sulfurea samples. The aim of this experiment was to compare sRNA abundance at between the two genotypes with particular interest on SlTAB2 (Solyc02g005200) which has been previously associated with paramutation in the sulfurea background.

2021-06-21 | E-MTAB-10556 | biostudies-arrayexpress

PREMATURE INTERNODE ELONGATION 1 coordinates internode elongation in response to florigenic signals at the shoot apex of rice

Project description:Flowering of several plant species is induced by exposure to specific photoperiods that promote the expression of florigenic proteins in the leaves and their subsequent translocation to the shoot apex, where they commit the meristem to a reproductive fate. Transition to reproductive growth at the apex is often accompanied by stem elongation, to expose flowers above the leaves and facilitate fertilization. However, how growth and inflorescence formation are coupled and how photoperiodic signals coordinate these processes at the apex is still unclear. We studied these mechanisms in rice, a short day plant. Here, we show that HEADING DATE 3a (Hd3a) and RICE FLOWERING LOCUS T 1 (RFT1), encoding components of the rice florigenic signal, are sufficient to repress expression of PREMATURE INTERNODE ELONGATION 1 (PINE1) at the shoot apex during the transition to flowering, thus promoting culm elongation. PINE1 encodes a nuclear C2H2 zinc finger transcriptional repressor that controls the mRNA abundance of GA3ox2, a gibberellin (GA) biosynthetic gene. These data uncover the existence of a regulatory network coordinating multiple aspects of phase transition, and indicate that GA-induced growth and activity of florigenic proteins at the shoot apex need to be strictly coupled.

2018-11-30 | GSE90493 | GEO

Solanum lycopersicum

Project description:Transcript profiling of tomato mutants producing anthocyanins in the fruit

| PRJNA121815 | ENA

Transcription profiling of Arabidopsis shoots, roots and cell cultures

Project description:Microarray analysis of the changes in transcript abundance in cell culture and shoot

2008-07-19 | E-ATMX-31 | biostudies-arrayexpress

Expression analysis of shoots in Olea europaea cultivar ‘Arbequina’ collected at different growth time

Project description:Genetic changes involved in the juvenile-to-adult transition in the shoot apex of Olea europaea L. occurs years before the first flowering.

2013-11-09 | GSE52213 | GEO

WOX11 recruits a histone H3K27me3 demethylase to promote gene expression during shoot development in rice

Project description:WUSCHEL-related homeobox (WOX) genes are key regulators of meristem activity and plant development, the chromatin mechanism of which to reprogram gene expression remains unclear. Histone H3K27me3 is a chromatin mark of developmentally repressed genes. How the repressive mark is removed from specific genes during plant development is largely unknown. Here, we show that WOX11 interacts with the H3K27me3 demethylase JMJ705 to activate gene expression during shoot development in rice. Genetic analysis indicates that WOX11 and JMJ705 cooperatively control shoot growth and commonly regulate the expression of a set of genes involved in meristem identity, chloroplast biogenesis, and energy metabolism in the shoot apex. Loss of WOX11 led to increased H3K27me3 and overexpression of JMJ705 decreased the methylation levels at a subset of common targets. JMJ705 is associated with most of the WOX11-binding sites found in the tested common targets in vivo, regardless of presence or absence of the JMJ705-binding motif. Furthermore, wox11 mutation reduced JMJ705-binding to many targets genome-wide. The results suggest that recruitment of JMJ705 to specific developmental pathway genes is promoted by DNA-binding transcription factors and that WOX11 functions to stimulate shoot growth through epigenetic reprogramming of genes involved in meristem development and energy-generating pathways.

2018-01-21 | GSE104306 | GEO

The vegetative transcriptome of Arabidopsis thaliana

Project description:Plants grow continuously and undergo numerous changes in their vegetative morphology and physiology during their life span. The molecular basis of these changes is largely unknown. To provide a more comprehensive picture of shoot development in Arabidopsis, microarray analysis was used to profile the mRNA content of shoot apices of different ages, as well as leaf primordia and fully-expanded leaves from 6 different positions on the shoot, in early-flowering and late-flowering genotypes. This extensive dataset provides a new and unexpectedly complex picture of shoot development in Arabidopsis. At any given time, the pattern of gene expression is different in every leaf on the shoot, and reflects the activity at least 6 developmental programs. Three of these are specific to individual leaves (leaf maturation, leaf aging, leaf senescence), two occur at the level of the shoot apex (vegetative phase change, floral induction), and one involves the entire shoot (shoot aging). Our results demonstrate that vegetative development is a much more dynamic process that previously imagined, and provide new insights into the underlying mechanism of this process.

2019-11-30 | GSE122691 | GEO

Solanum lycopersicum

Project description:Transcriptome analysis of the shoot apical meristem (SAM) of WT tomato and the late termination (ltm) mutant [exp1]

| PRJNA376110 | ENA

Solanum lycopersicum

Project description:Transcriptome analysis of the shoot apical meristem (SAM) of WT tomato and the late termination (ltm) mutant [exp2]

| PRJNA376118 | ENA