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Iac gene expression in the indole-3-acetic acid-degrading soil bacterium Enterobacter soli LF7

ABSTRACT: iac gene expression in the indole-3-acetic acid-degrading soil bacterium Enterobacter soli LF7

PROVIDER: PRJNA463330 | ENA |

REPOSITORIES: ENA

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iac gene expression in the indole-3-acetic acid-degrading soil bacterium Enterobacter soli LF7

Project description:We show for soil bacterium Enterobacter soli LF7 (synonym Enterobacter asburiae LF7a) that possession of a iac (indole 3-acetic acid catabolic) gene cluster is causatively linked to the ability to utilize the plant hormone indole 3-acetic acid (IAA) as a carbon and energy source. Genome-wide transcriptional profiling by mRNA sequencing revealed that these iac genes chromosomally arranged as iacHABICDEFG and coding for the transformation of IAA to catechol, were the most highly induced (>29-fold) among the relatively few (<1%) differentially expressed genes in response to IAA. Also highly induced and immediately downstream of the iac cluster were genes for a Major Facilitator Superfamily protein (mfs) and enzymes of the β-ketoadipate pathway (pcaIJD-catBCA), which channels catechol into central metabolism. This entire iacHABICDEFG-mfs-pcaIJD-catBCA gene set was constitutively expressed in a iacR deletion mutant, confirming the role of iacR, annotated as coding for a MarR-type regulator and located upstream of iacH, as a repressor of iac gene expression. The research described here was funded from grants #2010-03544 and #2013-02075 awarded to JHJL by the United States Department of Agriculture (USDA) National Institute of Food and Agriculture (NIFA) Agriculture and Food Research Initiative (AFRI)

2018-05-05 | GSE114050 | GEO

iac Gene Expression in the Indole-3-Acetic Acid-Degrading Soil Bacterium Enterobacter soli LF7.

Project description: Not available

| S-EPMC6146976 | biostudies-literature

Indole-3-acetic acid degradation in a novel strain Pseudomonas composti LY1

Project description:Indole-3-acetic acid (IAA), knows as common plant hormone, is one of the most distributed indole derivatives in the environment. A novel strain, which was able to use IAA as sole source of carbon and nitrogen, was isolated from farm soil, identified and classified as Pseudomonas composti LY1 based on 16S rRNA sequence and genome analysis. The optimal growth conditions for LY1 with IAA are characterized. Proteome profile of strain LY1 to IAA and citrate were analyzed and compared using label free strategy with LC-MS/MS.

2021-09-08 | PXD014968 | Pride

Transcription profiling of indole-3-acetic acid at physiological concentrations (IAA) treatment of Arabidopsis seedlings

Project description:To demonstrate the analysis of differential expression using CATMA v1 arrays, Arabidopsis seedlings were treated with indole-3-acetic acid at physiological concentrations. The seedlings were germinated in liquid medium, and treated with indole-3-acetic acid for 30, 120 or 240 minutes. Changes in expression patterns were monitored using a complete loop design including an untreated sample (0 minutes). Reciprocal labelling was used rendering a total of eight hybridisations. An additional self-to-self hybridisation for time-point 0 was included. The statistical analysis was based an ANOVA model and indicated that 1123 GSTs were differentially expressed (p < 2.37 x 10-6) in at least one of the three time points following treatment.

2004-05-31 | E-MEXP-65 | biostudies-arrayexpress

Effect of deletion of the ipdc gene, involved in indole-3-acetic acid synthesis, in the biocontrol agent Serratia plymuthica A153

Project description:To explore the role of indole-3-acetic acid (IAA) as signalling molecule in plant-associated bacteria we analyzed the whole transcriptome of S. plymuthica A153 wild type and its Δipdc mutant in vitro

2023-07-24 | GSE226107 | GEO

Bj_indole-3-acetic acid 1 mM vs. non-treatment

Project description:Transcriptional profiling of mid-logarithmic phase cultures exposed to a 1 mM shock treatment of indole-3-acetic acid for 3 hours.

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Characterization of indole-3-acetic acid biosynthesis and the effects of IAA exposure on the proteome of the plant-associated microbe Pantoea sp. YR343

Project description:Pantoea sp. YR343, isolated from the Populus deltoides rhizosphere, is a robust plant root colonizer that produces indole-3-acetic acid (IAA). Genomic and metabolomic analyses predicted that Pantoea sp. YR343 synthesizes IAA primarily using the indole-3-pyruvate pathway. Pantoea sp. YR343 proteomes showed upregulation of IpdC for growth in the presence of tryptophan or IAA versus controls.

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Transcription profiling of 10-day old Arabidopsis seedlings treated for 30, 120 and 240 minutes with the plant hormone indole-3-acetic acid (auxin)Auxin induced effects investigated using bead-purified probe arrays to assess the technology

Project description:21120 Arabidopsis thaliana gene sequence tags were amplified and purified using a novel bead-based strategy (see Publication for more details).This experiment was carried out to demonstrate the use of these arrays for expression profiling of Arabidopsis thaliana.Briefly, 10-day old Arabidopsis seedlings were treated for 30, 120 and 240 minutes with the plant hormone indole-3-acetic acid (auxin) and the effects on gene expression were analysed.

2004-12-31 | E-MEXP-140 | biostudies-arrayexpress

Structure, function and microbial ecology of diverse MarR bacterial regulators of auxin catabolism

Project description:Chemical signaling in the plant microbiome can have drastic effects on microbial community structure, and on host growth and development. Previously, we demonstrated that the auxin metabolic signal interference performed by the bacterial genus Variovorax via a novel auxin degradation locus was essential for maintaining stereotypic root development in an ecologically-relevant bacterial synthetic community. Here, we dissect the Variovorax auxin degradation locus to define the genes necessary and sufficient for indole-3-acetic acid (IAA) degradation and signal interference. We determine the crystal structures and binding properties of the operon’s MarR-family repressor with IAA and other auxins. We identify auxin-degradation operons across the bacterial tree of life and define two distinct types based on gene content and metabolic products: iac-like and iad-like. We solve the structures of MarRs from representatives of each auxin degradation operon type, establishing that each have distinct IAA binding pockets. Comparison of representative IAA degrading strains from diverse bacterial genera show that while all degrade IAA, only strains containing iad-like auxin degrading operons interfere with auxin signaling in a complex synthetic community context. This suggests that iad-like operon containing strains, including Variovorax species, play a key ecological role in modulating auxins in the plant microbiome.

2022-08-11 | GSE210968 | GEO

acetic acid bacteria

Project description:acetic acid bacteria

| PRJNA288385 | ENA