Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Metabolite and transcript profiling of VvERF045 OE transgenic lines elucidate the role of this transcription factor in the grapevine ripening physiology

ABSTRACT: We report the transcriptomic profile of L15, a transgenic line overexpressing VvERF045, and the WT as a reference. The main aim is to understand the function of this transcription factor in the overall plant though the differences in the transcript abundance (RNA-seq) and metabolite production. Total RNA from L15 and WT was sequenced with an average genome coverage of more than 100X. Transcripts representing very different biological processes were grouped into ten major categories: protein phosphorilation, wax biosynthesis process, response to andogenous stimulus, cotyledonal vascular tissue/pattern formation, drug transmembrane transport stress, jasmonic acid biosynthesis, response to salt stress, defense response to bacterium, negative regulation. This transcription factor regulates genes involved in many different responses such as drought, sanility and defense suggesting it covers a key role into the plant, moreover into those processes also typical in ripening. Total RNA profile of WT and overexpressing VvERF045 transgenic line were generated by deep sequencing, in triplicate paired end with IlluminaHiSep2000. Each biological replicate is derived from pools from five independent in vitro grapevine plants.

ORGANISM(S): Vitis vinifera

SUBMITTER: Carmen Leida

PROVIDER: E-GEOD-77240 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Accumulating information indicates that plant disease resistance signaling pathway frequently interact with other pathways regulating developmental processes or abiotic stress responses. However, the molecular mechanisms of these types of crosstalk remain poorly understood in most cases. Here we report that OsWRKY13, an activator of rice resistance to both bacterial and fungal pathogens, functions as a convergent point of the crosstalk between pathogen-induced salicylate-dependent defense pathway and at least five other physiological pathways. Genome-wide analysis of the expression profiling of OsWRKY13-overexpressing lines showed that OsWRKY13 directly or indirectly regulates the expression of more than 500 genes, which are potentially involved in different physiological processes according to the classification of Gene Ontology database. Comparing the expression patterns of genes functioning in known pathways or cellular processes upon pathogen infection and the phenotypes between OsWRKY13-overexpressing and susceptible wild-type plants, we find that OsWRKY13 is also regulator of other physiological processes during pathogen infection. OsWRKY13-involved disease resistance pathway synergistically interacts with glutathione/glutaredoxin system and flavonoid biosynthesis pathway via OsWRKY13 to monitor redox homeostasis and may enhance the biosynthesis of antimicrobial flavonoid phytoalexins. Meanwhile, OsWRKY13-invloved disease resistance pathway antagonistically interacts with SNAC1-mediated abiotic-stress defense pathway, JA signaling pathway, and terpenoid metabolism pathway via OsWRKY13 to suppress salt and cold defense responses as well as may retard rice growth and development. Experiment Overall Design: To determine the genes directly or indirectly regulated by OsWRKY13 genome-widely, we performed the microarray analysis using the Affymetrix Genechip Rice Genome Array containing total 57381 probe sets. Two independent OsWRKY13-overexpressing rice lines, D11UM 1-1 and D11UM 7-2 (Qiu et al., 2007), and wild-type Mudanjiang 8, which was susceptible to Xoo and M. grisea, were used for the analyses.The experiment was repeated three times.

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Metabolite and transcript profiling of VvERF045 OE transgenic lines elucidate the role of this transcription factor in the grapevine ripening physiology

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