Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of GmMYB176 interactome in soybean by Co-immunoprecipitation and LC-MS/MS

ABSTRACT: GmMYB176 is an R1 MYB transcription factor that regulates multiple genes in the isoflavonoid biosynthetic pathway thereby affecting isoflavonoid level in soybean roots. While GmMYB176 is important for isoflavonoid synthesis, it is not sufficient for the function and requires additional cofactor (s). The aim of this study was to identify GmMYB176 interactome for the regulation of isoflavonoid biosynthesis in soybean. GmMYB176 interactome was identified by Co-Immunoprecipitation using two YFP-tagged proteins baits, N’-GmMYB176-YFP-C’ and N’-YFP-GmMYB176-C’. GmMYB176 interacting proteins were identified by LC-MS/MS.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Glycine Max

TISSUE(S): Root

SUBMITTER: Arun Kumaran Anguraj Vadivel

LAB HEAD: Sangeeta Dhaubhadel

PROVIDER: PXD023931 | Pride | 2021-02-03

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	GmMYB176-YFP_2_A.mgf	Mgf
	GmMYB176-YFP_2_A.raw	Raw
	GmMYB176-YFP_2_A.t.xml	Xml
	GmMYB176-YFP_2_B.mgf	Mgf
	GmMYB176-YFP_2_B.raw	Raw

Items per page:

1 - 5 of 54

Similar Datasets

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

Proteomic and morphological effect of nanosilver on soybean under flooding stress

Project description:Flooding stress has a negative impact on the soybean cultivation in early growth stages. In order to understand the effect of nanosilver on the soybean growth under flooding stress, quantitative proteomics technique was used.

2016-12-14 | PXD001579 | Pride

Analysis of soybean DNA methylomes shows CHH hypermethylation enhances gene expression in cotyledons of developing seeds [methylome]

Project description:Cytosine methylation is an important mechanism for dynamical regulation of gene expression and transposon mobility during plant developmental processes. Recently, the variation of DNA methylation has been described between wild type and DNA methylation-related mutants in Arabidopsis thaliana. However, the elaborate representation of soybean DNA methylomes remains lacking. Here, we described the epigenome maps of soybean root, stem, leaf, and cotyledon of developing seed at a single-base resolution. We confirmed the transcription start sites of genes using high-throughput sequencing and reported the DNA methylation patterns in gene and transposon regions. The correlation between gene expression and DNA methylation was revealed through transcriptome sequencing. We found CHH methylation may function in promotion of gene expression and ten cotyledon-preferred genes were identified CHH hypermethylated in cotyledon. Small RNA library sequencing showed that DNA methylation was enhanced by small RNAs not by strand-specific way, and the variation of DNA methylation between the organs was highly related with expression of small RNAs. methylomes of roots, stems, leaves, and cotyledons of developing seeds

2012-10-30 | E-GEOD-34849 | 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

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

Analysis of soybean DNA methylomes shows CHH hypermethylation enhances gene expression in cotyledons of developing seeds [small RNA]

Project description:Cytosine methylation is an important mechanism for dynamical regulation of gene expression and transposon mobility during plant developmental processes. Recently, the variation of DNA methylation has been described between wild type and DNA methylation-related mutants in Arabidopsis thaliana. However, the elaborate representation of soybean DNA methylomes remains lacking. Here, we described the epigenome maps of soybean root, stem, leaf, and cotyledon of developing seed at a single-base resolution. We confirmed the transcription start sites of genes using high-throughput sequencing and reported the DNA methylation patterns in gene and transposon regions. The correlation between gene expression and DNA methylation was revealed through transcriptome sequencing. We found CHH methylation may function in promotion of gene expression and ten cotyledon-preferred genes were identified CHH hypermethylated in cotyledon. Small RNA library sequencing showed that DNA methylation was enhanced by small RNAs not by strand-specific way, and the variation of DNA methylation between the organs was highly related with expression of small RNAs. small RNA profiling of roots, stems, leaves, and cotyledons of developing seeds

2012-10-30 | E-GEOD-34853 | biostudies-arrayexpress

Analysis of soybean DNA methylomes shows CHH hypermethylation enhances gene expression in cotyledons of developing seeds [mRNA]

Project description:Cytosine methylation is an important mechanism for dynamical regulation of gene expression and transposon mobility during plant developmental processes. Recently, the variation of DNA methylation has been described between wild type and DNA methylation-related mutants in Arabidopsis thaliana. However, the elaborate representation of soybean DNA methylomes remains lacking. Here, we described the epigenome maps of soybean root, stem, leaf, and cotyledon of developing seed at a single-base resolution. We confirmed the transcription start sites of genes using high-throughput sequencing and reported the DNA methylation patterns in gene and transposon regions. The correlation between gene expression and DNA methylation was revealed through transcriptome sequencing. We found CHH methylation may function in promotion of gene expression and ten cotyledon-preferred genes were identified CHH hypermethylated in cotyledon. Small RNA library sequencing showed that DNA methylation was enhanced by small RNAs not by strand-specific way, and the variation of DNA methylation between the organs was highly related with expression of small RNAs. mRNA-Seq of roots, stems, leaves, and cotyledons of developing seeds

2012-10-30 | E-GEOD-34852 | biostudies-arrayexpress

Biophoton emission is involved in reactive oxygen species as well as mitochondrial proteins

Project description:Mitochondrial Proteomics under flooding stress in roots of soybean plants

2016-08-10 | PXD001477 | Pride

Human-Soybean Allergies: Elucidation of the Seed Proteome & Comprehensive PPI Prediction

Project description:In this work, a total of eight proteins have been identified (six specific to the human proteome and two specific to the soybean proteome) that are supported by literature to be involved in human health, specifically related to immunological and neurological pathways. Our approach involved the use of the Protein-protein Interaction Prediction Engine (PIPE4) algorithm which was specifically developed for complex inter- and cross-species prediction schemas to generate the comprehensive interactome between H. sapiens and G. max. A literature-curated list of human proteins known to be associated with the Human Allergy Response and a second literature-curated list of soybean proteins known to be associated with Soybean Allergens were used to identify candidate proteins whose interactions may be consequential to human health. This study, beyond generating the most comprehensive human-soybean interactome to date, elucidated a soybean seed interactome and identified several proteins putatively consequential to human health.

2023-03-22 | PXD023875 | Pride

Comparative expression analysis of roots of two soybean cultivars with contrasting drought-tolerant phenotype under well-watered and dehydration conditions.

Project description:To understand the responses of plants to environmental stresses will help mitigate the problems via creating stress-tolerant crop cultivars. We have carried out comparative expression analysis of roots of two soybean varieties Williams 82 and DT2008 that have constrasting drought-responsive phenotype under dehydration and well-watered (control) conditions. Affymetrix’s whole Soybean Gene Expression Microarray (66K) was used. The Williams 82 and DT2008 soybean plants were grown for 14 days in the vermiculite soil under greenhouse conditions. The whole plants of 14-d-old plants were detached and exposed to dehydration on KimTowel papers for 0 (well-watered, control), 2 and 10 h. All roots of independent 14-d-old plants were collected. Total RNA was prepared and used for the microarray hybridization. Three independent biological replicates were used for each plant sample.

2015-07-02 | E-GEOD-65553 | 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