Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome profiling of banana in response to growth-promoting rhizobacteria

ABSTRACT: We report the banana transcriptome profile in response to two distinct growth-promoting rhizobacteria, Bacillus amyloliquefaciens and Pseudomonas fluorescens. The goal of our study is to identify plant genes differentially regulated by rhizobacteria-plant interaction along time. At the same time, we show that despite these two rhizobacteria regulate distinct sets of genes, the same functional categories has been over-represented, such as transcription factor activity, response to stress and metabolic processes.

ORGANISM(S): Musa acuminata

PROVIDER: GSE80495 | GEO | 2016/04/21

SECONDARY ACCESSION(S): PRJNA319058

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Musa acuminata and rhizobacteria Pseudomonas fluorescens and Bacillus amyloliquefaciens

Project description:Musa acuminata and rhizobacteria Pseudomonas fluorescens and Bacillus amyloliquefaciens

| PRJNA236098 | ENA

Transcriptomics of Bacillus amyloliquefaciens SQR9 to maize root exudates

Project description:Root exudates play an important role in plant-microbe interaction. The transcriptional profilings of plant growth-promoting rhizobacteria Bacillus amyloliquefaciens SQR9 in response to maize root exudates under static condition, were investigated by an Illumina RNA-seq for understanding the regulatory roles of the root exudates.

2014-11-01 | GSE54987 | GEO

High throughput sequencing of the small RNAs from banana cv. Rasthali (AAB group)

Project description:Small RNAs comprise a group of non coding RNAs which play significant role in the genetic regulation of growth and development in plants. The most important members of this family are the small inhibiting RNAs (siRNAs) and microRNAs (miRNAs). They are processed by the DICER like proteins in plants and incorporated into the RNA induced silencing complex to silence the cognate mRNAs by sequence specific cleavage. High throughput sequencing strategies have enabled the identification of complete gamut of small RNA sequences present in a plant tissue at a particular point of time enabling the study of their biological significance in different plant tissues. The small RNA profile of each plant shows few plant conserved sequences, few species specific sequences and few novel RNA sequences characteristic of each cultivar. Here we have performed high throughput sequencing of small RNA population derived from leaves of an elite edible Indian cultivar of banana cv. Rasthali (‘Silk’ subgroup with AAB genotype) to identify the microRNAs and other important small RNAs being expressed in the leaves of banana cv Rasthali. Generation of complete small RNA profile of banana cv. Rasthali for comparison with similar databases

2015-02-07 | E-GEOD-65728 | biostudies-arrayexpress

Volatiles of two growth-inhibiting rhizobacteria commonly enroll AtWRKY18 function

Project description:Volatiles of certain rhizobacteria can cause growth inhibitory effects on plants/ Arabidopsis thaliana. How these effects are initiated and which mechanisms are enrolled is not yet understood. Obviously the plant can survive/live with the bacteria in the soil, which suggest the existance of a regulatory mechanism/network that provide the possibility for coexistance with the bacteria. To shed light on this regulatory mechanism/network we performed a microarray anlaysis of Arabidopsis thaliana co-cultivated with two different rhizobacteria strains. In this study we used the ATH1 GeneChip microarray to investigate the transcriptional response of 4 to 5 days old Arabidopsis thaliana seedlings at 6 h, 12 h and 24 h exposure to volatiles of the rhizobacteria Serratia plymuthica HRO-C48 or Stenotrophomonas maltophilia R3089. Seedlings from Arabidopsis thaliana were harvested at different time points at exposure to volatiles of two different strains of bacteria. Samples were taken at the start of the experiment (T0) and after 6, 12 and 24 hours (T6, T12, T24 respectively). Two biological replicates from pooled seedlings (from 5 plates, from the respective time points) were used for RNA extraction and hybridization on Affymetrix microarrays (ATH1 GeneChip; GEO accsession GPL198).

2012-01-25 | E-GEOD-35325 | biostudies-arrayexpress

High throughput sequencing of the small RNAs from banana cv. Rasthali (AAB group)

2015-02-07 | GSE65728 | GEO

Volatiles of two growth-inhibiting rhizobacteria commonly enroll AtWRKY18 function

2012-01-25 | GSE35325 | GEO

High throughput sequencing of the small RNAs from banana cv. Grand Naine (AAA group)

Project description:Small RNAs especially small inhibiting RNAs (siRNAs) and microRNAs (miRNAs) play essential role in the regulation of gene expression in plants. These non coding RNAs are processed by the DICER like proteins into 21-24 nucleotides single stranded molecules that guide the activity of RNA induced silencing complex. This complex along with the processed small RNA identifies the cognate mRNA and brings about sequence specific mRNA degradation thereby silencing the gene expression. The small RNA profile is unique for each plant tissue at a given point of time. High throughput sequencing method allows the study of differential expression of these small RNAs. Deep sequencing of small RNAs derived from the leaves of an elite cultivar of banana cv. Grand Naine (‘Cavendish’ subgroup with AAA genotype) was carried out. Generation of complete small RNA profile of banana cv. Grand Naine for comparison with similar databases

2015-02-07 | E-GEOD-65727 | biostudies-arrayexpress

Banana viruses

Project description:Banana plant infected with viruses Genome sequencing and assembly

| PRJNA777477 | ENA

Banana

Project description:Banana Metagenome

| PRJNA867127 | ENA

Transcription profiling by array of Bacillus amyloliquefaciens FZB42 wildtype and sigD- mutants grown in media supplemented with soil extract

Project description:Bacillus amyloliquefaciens FZB42 is a well-studied Gram-positive plant growth-promoting rhizobacteria. In this work we aim to study the effect of the effect of sigD deletion on the transcriptome of FZB42. The transcritomes were compared by two-color microarray of the sigD- mutant and the wildtype of B. amyloliquefaciens FZB42 grown in 1C medium supplemented with soil extract (SE). This submission includes data from two independent experiments with three biological replicates. Here a biological replicate means the bacterial culture from one flask used for RNA preparation. The samples were collected by two performers. The experiments were varied in sample performer, the date of the experiment.

2017-06-20 | E-MTAB-4876 | 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