Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Transcriptome of graft junction in tomato

PROVIDER: PRJNA528328 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8758620_1.fastq.gz	Fastqsanger.gz
	SRR8758620_2.fastq.gz	Fastqsanger.gz
	SRR8758630_1.fastq.gz	Fastqsanger.gz
	SRR8758630_2.fastq.gz	Fastqsanger.gz
	SRR8758640_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 64

Similar Datasets

Gene regulatory networks for compatible versus incompatible grafts identify a role for SlWOX4 during junction formation

Project description:We performed a transcriptome analysis on the graft junction of tomato and pepper self grafts and heterografts.

2021-09-30 | GSE167482 | GEO

Cell death at the Solanum lycopersicum and Capsicum graft junction is due to genetic incompatibility

Project description:Graft compatibility is the ability of two plants to form cohesive vascular connections. Tomato and pepper grafts are incompatible but the underlying causes of this phenomenon remain unknown. We utilzied a broad array of techniques to profile graft compatibility including viability, biophysical stability, and growth. Cell death in the junction was quantified using trypan blue and TUNNEL assays. Transcriptomic analysis of cell death in the junction was preformed using RNA-sequncing. Finally a meta-transcriptomic analysis was conducted with published datasets to further explore the genetic signature of graft incompatibility.We found that all varieties of pepper tested across two species were incompatible with tomato. Tomato and pepper graft incompatibility is characterized by stem instability, reduced growth, and persistent cell death in the graft junction. We showed that tomato and pepper heterografts have prolonger transcriptional activity, with defense processes highly enrched. We identfied a large subset of NLRs and genes involved in programmed cell death which were upregulated in incompatible tissue. We also identified a set of genes with orthologs in both tomato and pepper which are upregulated in incompatible grafts including biosythesis of steroidal glycoalkaloids. Finally we utilized various biological stressors to explore the genetic signature of grafting. We found a significant overlap in the genetic profile of grafting and plant parsitism. We also identified over 1000 genes uniquely upregulated in incompatible grafting including genes in involved in DNA-damage repair. Based on the broad upregulation of NLRs and genes involved with programmed cell death, prolonged cell death in the junction, and DNA damage, we have determined that tomato and pepper graft incompatibility is likely caused by a form of genetic incompatibility which triggers an autoimmune-like response.

2024-12-19 | GSE256079 | GEO

Graft junction transcriptome between tomato and pepper over time

Project description:Graft junction transcriptome between tomato and pepper over time

| PRJNA544493 | ENA

Solanum lycopersicum

Project description:Transcriptome for tomato graft healing

| PRJNA993391 | ENA

Project description:Tomato graft formation

| PRJNA645644 | ENA

Graft junction transcriptome between tomato and pepper over time

Project description:We report transcripts from tomato:tomato and pepper:pepper self-grafts, and tomato:pepper and pepper:tomato hetergrafts over 4 time points: 24 hours after grafting, 3 days after grafting, 5 day after grafting, and 2 weeks after grafting Examination of 4 graft combinations over 4 time points

2021-08-02 | GSE131700 | GEO

Rootstock induced scion resistance against tobacco mosaic virus is associated with the induction of defense related transcripts and graft transmissible mRNAs

Project description:To investigate graft conferred resistance against viral diseases a novel hetero-grafting system was developed using Nicotiana benthamiana scions grafted onto different tomato rootstocks. RNAseq analysis was used to identify mobile tomato mRNAs within N. benthamiana scions

2023-05-19 | GSE211493 | GEO

A common graft formation pathway in Norway spruce and Arabidopsis thaliana identifies the PAT gene family as conserved regulators of tissue attachment and wound healing [RNAseq: Hornome-Treatment-samples]

Project description:The widespread use of plant grafting has enabled different plants to join and combine their best properties to improve stress tolerance, growth and yields. Grafting is commonly performed between closely related eudicots or gymnosperms where mechanisms permit tissue fusion yet limit success as plants become unrelated. To investigate these aspects, we developed a micrografting method using young conifer tree seedlings that enabled divergent conifer members to successfully graft. Conifer grafts showed rapid connection of phloem and xylem at the junction, while a genome-wide transcriptome analysis of the Picea abies (Norway spruce) healing junction revealed differential expression of thousands of genes including those related to auxin response and cell wall biogenesis. We compared these genes to those induced during Arabidopsis thaliana graft healing and found a common activation of cambium, cell division, phloem and xylem-related genes. A gene regulatory network analysis revealed that PHYTOCHROME A SIGNAL TRANSDUCTION 1 (PAT1) acted as a central hub during Picea grafting and was also induced during Arabidopsis grafting. Arabidopsis mutants lacking PATs failed to attach tissues or successfully graft, while complementing Arabidopsis PAT mutants with the Picea abies PAT1 homolog could rescue tissue attachment and enhance callus formation. Together, our data demonstrate a competency for young tissues to graft to distantly related species and identifies the PAT gene family as conserved regulators of graft healing and tissue regeneration in eudicots and gymnosperms.

2023-10-01 | GSE231632 | GEO

A common graft formation pathway in Norway spruce and Arabidopsis thaliana identifies the PAT gene family as conserved regulators of tissue attachment and wound healing [RNAseq: Grafted-samples]

2023-10-01 | GSE231631 | GEO

The Solanum lycopersicum WRKY3 Transcription Factor Regulates Salt Stress Tolerance In Tomato

Project description:The tomato SlWRKY3 transcription factor was overexpressed in cultivated tomato (Solanum lycopersicum)and transgenic plants transcriptome was compared to that of wild-type plants.

2016-03-15 | GSE74504 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data