Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-Seq analysis of Medicago truncatula hairy root lines treated with methyl jasmonate

ABSTRACT: In hairy roots of the model legume Medicago truncatula the saponin production can be elicited by methyl jasmonate treatment. To identify genes potentially involved in saponin biosynthesis or its regulation we carried out transcript profiling by RNA-Seq of M. truncatula hairy roots treated with 100 μM of methyl jasmonate (dissolved in ethanol) for two or 24 hours. As control, M. truncatula hairy roots treated with an equivalent amount of ethanol were profiled.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Medicago truncatula

SUBMITTER: Alain Goossens

PROVIDER: E-MTAB-8697 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

TSAR1 and TSAR2 activate triterpene saponin production in Medicago truncatula

Project description:We identified two novel transcription factors ‘Triterpene Saponin Activation Regulator’ (TSAR) 1 and 2 that each activate a specific branch of saponin synthesis in M. truncatula. Therefore we generated three independent TSAR1 and three independent TSAR2 overexpression (OE) hairy root lines. As a control we raised three independent hairy root lines expressing a non-functional GUS gene. By qRT-PCR analyses and metabolite profiling of these lines, we found that TSAR1 OE leads to accumulation of non-haemolytic saponins whereas TSAR2 instigates accumulation of haemolytic saponins. To identify additional targets of TSAR1 and TSAR2 we carried out a genome-wide transcript profiling study by RNA-Seq.

2017-02-15 | E-MTAB-3532 | biostudies-arrayexpress

The effect of loss of Makibishi1-(MKB1) function on the transcriptome of Medicago truncatula hairy roots

Project description:RNA-Seq analysis on Medicago truncatula hairy roots, either control lines or lines silenced for the Makbishi1 (MKB1) gene, grown in either mock conditions or elicited with the plant stress hormone methyl jasmonate for 4 hours

2022-05-07 | E-MTAB-11668 | biostudies-arrayexpress

Transcription profiling of hairy roots of M. trunculata transformed with TT2

Project description:M. truncatula was transformed with TT2 (transparent testa2 from Arabidopsis) using Agrobacterium rhizogene and the transgenic hairy roots were used for gene profiling in comparison with empty vector control.

2008-11-26 | E-MEXP-1115 | biostudies-arrayexpress

A modular system regulates specialized metabolite pathway branch choice in the medicinal plant Catharanthus roseus.

Project description:This dataset belongs to a set of three RNA-Seq experiments that were carried out to study the regulation of monoterpenoid indole alkaloid production in the medicinal plant Catharanthus roseus. For this dataset, C. roseus hairy roots overexpressing the well-known MIA biosynthesis regulator ORCA3 were analyzed by RNA-Seq. As control, C. roseus hairy roots expressing GUS were used. Each analyzed sample consisted of an independent hairy root line; three hairy root lines per construct were analyzed.

2020-09-07 | E-MTAB-9514 | biostudies-arrayexpress

Rhizogenic Agrobacterium protein RolB interacts with the TOPLESS and NINJA repressor proteins to reprogram plant jasmonate signaling (GUS overexpression)

Project description:RNA sequencing was performed on tomato hairy root lines transformed with a GUS overexpression construct, 24 h after mock and jasmonate (JA) treatment. This set-up allowed us to map the gene targets of JA in tomato hairy roots after 24h.

2022-07-08 | E-MTAB-11876 | biostudies-arrayexpress

Transcription profiling of Medicago truncatula TTG1 over-expressing hairy root

Project description:Transcriptomics analysis of MtTTG1 over-expressing hairy root in the background of Medicago truncatula genotype Jemalong A17.

2009-08-14 | E-MEXP-1758 | biostudies-arrayexpress

RNA-seq of soybean hairy roots in which GmMYB176 transcription factor was silenced or overexpressed

Project description:GmMYB176, an R1 MYB transcription factor regulates isoflavonoid biosynthesis in soybean. In the current experiment, GmMYB176 was silenced (GmMYB176-Si) or overexpressed (GmMYB176-OE) in soybean hairy roots and their effect on transcriptome was studied. RNA-Seq analyses of GmMYB176-Si and GmMYB176-OE along with control non-transformed soybean hairy roots revealed that alteration of gene expression of GmMYB176 affects gene regulation of hundreds of genes in soybean.

2019-05-01 | E-MTAB-7379 | biostudies-arrayexpress

Rhizogenic Agrobacterium protein RolB interacts with the TOPLESS and NINJA repressor proteins to reprogram plant jasmonate signaling (rolB overexpression)

Project description:RNA sequencing was performed to compare the gene expression in tomato hairy root lines transformed with the inducible rolB, rolBmEAR2 or GFP overexpression constructs, 24 h after mock and β-estradiol treatments. This set-up allowed us to map the general RolB targets as well as the specific targets of the RolB-mediated inhibition of the TPL function.

2022-07-08 | E-MTAB-11880 | biostudies-arrayexpress

Gene expression during early stages of arbuscular mycorrhizal root formation in Medicago truncatula.

Project description:Arbuscular mycorrhiza (AM) interactions between plants and Glomeromycota fungi primarily support phosphate aquisition of most terrestrial plant species. To unravel gene expression during early stages of Medicago truncatula root colonization by AM fungi, we used genome-wide transcriptome profiling based on mycorrhizal root fragments enriched for early fungal infection stages. We used Medicago GeneChips to detail the global programme of gene expression in response to early stages of colonization by arbuscular mycorrhizal fungi and identified genes differentially expressed during these early stages. Medicago truncatula GFP-HDEL hairy roots (genotypes A17 and DMI3) were grown in vertically-oriented petri dishes, incubated at 26M-BM-0C and inoculated with 8 Gigaspora margarita spores, which were positioned between the lateral roots. G.margarita spores germinated in 2 to 4 days. Hyphopodia were observed after 5-6 days. Root fragments which reacted to the fungal contact were collected and frozen. Non-inoculated control root fragments were harvested at a comparable age.

2012-03-27 | E-GEOD-34617 | biostudies-arrayexpress

The phenylpropanoid pathway is controlled at different branches by a set of R2R3 MYB C2 repressors in grapevine

Project description:A set of grapevine R2R3 MYB repressors negatively regulate the expression of genes involved in different branches of the phenylpropanoid pathway For the genetic transformation of Vitis vinifera cv Maccabeu, the in vitro plantlets were grown for 90 days under light and temperature controlled. For overexpression of VvMYBC2-L3 in Vitis vinifera cv Maccabeu hairy roots, the cDNA sequence was transferred into the binary vector pH2GW7 by site-specific recombination. The construct was then inserted into Agrobacterium tumefaciens A4 by electroporation and used for the grapevine transformation. The induction and culture of transgenic HRs in grapevine were performed as described by Torregrosa and Bouquet (1997), with modifications reported in Cutanda-Perez et al. (2009).

2014-09-30 | E-GEOD-58742 | biostudies-arrayexpress

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