Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcript profiling of transgenic rice lines where the OsMADS26 gene is over-expressed or down growing cultivated in standard or osmotic stress condition

ABSTRACT: Functional analyses of MADS-box transcription factors in plants have unraveled their role in major developmental programs (e.g; flowering and floral organ identity), in stress-related developmental processes such as abscission, fruit ripening and senescence and the role of some of them in stress response regulation was reported. The aim of this study was to decipher the genes that are under the control of the OsMADS26 transcription factor in rice in standard or osmotic stress condition. Transcriptome analysis in over-expressor and down-regulated OsMADS26 rice transgenic lines revealed that several major regulators of biotic and abiotic stress responses are mis-regulated compared to control plants, suggesting that OsMADS26 acts as an upstream negative regulator of stress-associated genes. Transgenic plants over-expressing or down-regulated (by RNA interference) for OsMADS26 were obtained and used to study the impact of this transcription factor on gene regulation in plants cultivated in standard or osmotic stress (100 mM manitol) condition.

ORGANISM(S): Oryza sativa

SUBMITTER: Pascal Gantet

PROVIDER: E-GEOD-52640 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

OsMADS26 Negatively Regulates Resistance to Pathogens and Drought Tolerance in Rice.

Khong Giang Ngan GN Pati Pratap Kumar PK Richaud Frédérique F Parizot Boris B Bidzinski Przemyslaw P Mai Chung Duc CD Bès Martine M Bourrié Isabelle I Meynard Donaldo D Beeckman Tom T Selvaraj Michael Gomez MG Manabu Ishitani I Genga Anna-Maria AM Brugidou Christophe C Nang Do Vinh V Guiderdoni Emmanuel E Morel Jean-Benoit JB Gantet Pascal P

Plant physiology 20150930 4

Functional analyses of MADS-box transcription factors in plants have unraveled their role in major developmental programs (e.g. flowering and floral organ identity) as well as stress-related developmental processes, such as abscission, fruit ripening, and senescence. Overexpression of the rice (Oryza sativa) MADS26 gene in rice has revealed a possible function related to stress response. Here, we show that OsMADS26-down-regulated plants exhibit enhanced resistance against two major rice pathogen ...[more]

PMID: 26424158

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Project description:Backgropund:In a major paradigm shift in the last decade, the knowledge about a whole class of non-coding RNAs known as miRNAs has emerged, which have proved these to be important regulators of a wide range of cellular processes by the way of modulation of gene expression. It is reported that some of these miRNAs are modified by addition or deletion of nucleotides at their ends, after biogenesis. However, the biogenesis and functions of these modifications are not well studied in eukaryotes, especially in plants. In this study, we examined the miRNA modifications in different tissues of the various plants, namely rice, tomato and Arabidopsis and identified some common features of such modifications. Results:We have analyzed different aspects of miRNA modifications in plants. To achieve this end, we developed a PERL script to find the modifications in the sequences using small RNA deep sequencing data. The modification occurs in both mature and passenger (star) strands, as well as at both the 5' and 3' ends of miRNAs. Interestingly, we found a position-specific nucleotide biased modification, as evident by increased number of modification at the 5' end with the presence of Cytosine (nucleotide 'C') at the 3âend of the miRNA sequence. The level of modifications is not strictly dependent on the abundance of miRNA. Our study showed that the modification events are independent of plant species, tissue and physiological conditions. Our analysis also indicates that the RNAi enzyme, namely, the RNA dependent RNA polymerase 6 (RDR6) may not have any role in Arabidopsis miRNA modifications. Some of these modified miRNAs are bound to AGO1, suggesting their possible roles in biological processes. Conclusions:This is a first report that reveals that 5' nucleotide additions are preferred for mature miRNA sequences with 3â terminal âCâ nucleotide. Our analysis also indicates that the miRNAs modifications involving addition of nucleotides to the 5â or 3â end are independent of RDR6 activity and are not restricted by plant species, physiological conditions and tissue types. The results also indicate that such modifications might be important for biological processes. small RNA profiles of Healthy and ToLCV infected tomato leaves were generated by deep sequencing using Illumina GAII.

Dataset Information

Transcript profiling of transgenic rice lines where the OsMADS26 gene is over-expressed or down growing cultivated in standard or osmotic stress condition

Publications

OsMADS26 Negatively Regulates Resistance to Pathogens and Drought Tolerance in Rice.

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