Bioinformatics Seminar
Time:
Venue: Na
12 December 2017
NaUniversity of Melbourne
William HoSchool of BioScience
Salinity-induced Alteration of Root-omics in Barley (Hordeum vulgare L.);Due to increases in soil salinity in the temperate region optimal for cultivation ; barley (Hordeum vulgare L.) has been suffered from substantial yield loss in Australia during the last decade. To understand the impact of high salinity in different cultivars of barley ; de novo transcriptome assemblies of a malting cultivar (cv. Clipper) and a landrace (cv. Sahara) with known contrasting responses to salinity during their seedling stage were generated. However ; stemmed from the relatively low level of functional annotations (~23%) of the assemblies in the previous study ; gene-clusters enriched and differential transcripts identified upon salt stress were not conclusive. In this study ; taking advantage of the newly available barley reference genome (cv. Morex) with substantial improvement in genomic coverage and sequencing depth ; more than 78% of the transcripts were functionally annotated. With more than 90% transcript-mapping efficiency achieved ; limma-based generalized linear models were then applied to statistically assess treatment- ; root zone- ; and cultivar-specific differentially expressed genes. From this analysis ; we pinpoint contrasting enrichment of gene ontology categories related to secondary metabolism and lipid metabolism between the root-elongation and/or -maturation zone of Clipper and Sahara seedlings. Together with the integrated pathway analyses of the corresponding metabolomes and lipidomes obtained from the same sample-set ; we propose that cv. Clipper could adopt a more effective mechanism to cope with the ambient high salt conditions. The availability of this integrated root-omics dataset will serve as a valuable resource for identifying valuable traits to assist breeding programmes of barley research community in future.;;;;