Generation and Characterisation of a Reference Transcriptome for Phalaris (Phalaris aquatica L.)

Agronomy

Michelle C. Drayton¹  Luke W. Pembleton¹  Noel O. I. Cogan¹  Rebecca C. Baillie¹  German C. Spangenberg¹  John W. Forster¹  Sukhjiwan Kaur¹  Richard A. Culvenor²  Kevin F. Smith³ 

[1] Agriculture Victoria, AgriBio, the Centre for AgriBioscience, 5 Ring Road, Bundoora, Victoria 3083, Australia;CSIRO Agriculture Flagship, Canberra, Australian Capital Territory 2601, Australia;Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Melbourne, Victoria 3010, Australia;

关键词: RNA-Seq;    harding grass;    de novo assembly;    sequence annotation;    tissue-specific gene expression;    P. tuberosa;    Poaceae;   

DOI  :  10.3390/agronomy7010014

来源: DOAJ

【 摘 要 】

Phalaris aquatica is a cool-season perennial grass species that is extensively cultivated in Australia, with additional usage in other areas of the world. Phalaris displays a number of desirable agronomic characteristics, although unfavourable traits include excessive seed shattering, sensitivity to aluminium toxicity, and several toxicosis syndromes. Varietal development has to date been based on traditional selection methods, but would benefit from the application of genomics-based approaches, which require the development of large-scale sequence resources. Due to a large nuclear DNA content, methods that target the expressed component of the genome and reduce the complexity of analysis are most amenable to current sequencing technologies. A reference unigene set has been developed by transcriptome sequencing of multiple tissues from a single plant belonging to the variety Landmaster. Comparisons have been made to gene complements from related species, as well as reference protein databases, and patterns of gene expression in different tissues have been evaluated. A number of candidate genes relevant to removal of undesirable attributes have been identified. The reference unigene set will provide the basis for detailed studies of differential gene expression and identification of candidate genes for potential transgenic deployment, as well as a critical resource for genotypic analysis to support future genomics-assisted breeding activities for phalaris improvement.

【 授权许可】

Unknown