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Identification of gene functions associated to active and dormant buds in Arabidopsis.

ABSTRACT: In Arabidopsis, axillary buds may become dormant in response to a far-red rich light or to increased apical dominance. BRANCHED1 (BRC1) is required for this response. Transcriptional profiling studies of wild-type and brc1 mutant buds allowed the identification of sets of BRC1-dependent genes including a group of ABA-related genes upregulated in dormant buds. By using BRC1 inducible lines we demonstrate that 2 of these ABA response factors, ABF3 and ABI5, are positively regulated in axillary buds by BRC1 after induction. To get further insight into the genetic control of the growth-to-dormancy transition in buds we have also compared this transcriptomic data with 2 additional "active vs dormant bud" transcriptomic data sets and found "core" co-regulated gene networks tightly associated to each condition.

SUBMITTER: Gonzalez-Grandio E

PROVIDER: S-EPMC4092316 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature

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Identification of gene functions associated to active and dormant buds in Arabidopsis.

González-Grandío Eduardo E Cubas Pilar P

Plant signaling & behavior 20140211 2

In Arabidopsis, axillary buds may become dormant in response to a far-red rich light or to increased apical dominance. BRANCHED1 (BRC1) is required for this response. Transcriptional profiling studies of wild-type and brc1 mutant buds allowed the identification of sets of BRC1-dependent genes including a group of ABA-related genes upregulated in dormant buds. By using BRC1 inducible lines we demonstrate that 2 of these ABA response factors, ABF3 and ABI5, are positively regulated in axillary bud ...[more]

PMID: 24518068

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Project description:BackgroundMycobacterium tuberculosis, the causative agent of tuberculosis (TB), infects approximately 2 billion people worldwide and is the leading cause of mortality due to infectious disease. Current TB therapy involves a regimen of four antibiotics taken over a six month period. Patient compliance, cost of drugs and increasing incidence of drug resistant M. tuberculosis strains have added urgency to the development of novel TB therapies. Eradication of TB is affected by the ability of the bacterium to survive up to decades in a dormant state primarily in hypoxic granulomas in the lung and to cause recurrent infections.MethodsThe availability of M. tuberculosis genome-wide DNA microarrays has lead to the publication of several gene expression studies under simulated dormancy conditions. However, no single model best replicates the conditions of human pathogenicity. In order to identify novel TB drug targets, we performed a meta-analysis of multiple published datasets from gene expression DNA microarray experiments that modeled infection leading to and including the dormant state, along with data from genome-wide insertional mutagenesis that examined gene essentiality.ResultsBased on the analysis of these data sets following normalization, several genome wide trends were identified and used to guide the selection of targets for therapeutic development. The trends included the significant up-regulation of genes controlled by devR, down-regulation of protein and ATP synthesis, and the adaptation of two-carbon metabolism to the hypoxic and nutrient limited environment of the granuloma. Promising targets for drug discovery were several regulatory elements (devR/devS, relA, mprAB), enzymes involved in redox balance and respiration, sulfur transport and fixation, pantothenate, isoprene, and NAD biosynthesis. The advantages and liabilities of each target are discussed in the context of enzymology, bacterial pathways, target tractability, and drug development.ConclusionBased on our bioinformatics analysis and additional discussion of in-depth biological rationale, several novel anti-TB targets have been proposed as potential opportunities to improve present therapeutic treatments for this disease.

Dataset Information

Identification of gene functions associated to active and dormant buds in Arabidopsis.

Publications

Identification of gene functions associated to active and dormant buds in Arabidopsis.

Similar Datasets

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