Analysis of the barley leaf transcriptome under salinity stress using mRNA-Seq

• Autorzy: Ziemann M , Kamboj A. , Hove R. M. , Loveridge S. , El-Osta A. , Bhave M.
• Języki publikacji: EN

Abstrakty

EN

Salinity is a threat to crops in many parts of the world, and together with drought, it is predicted to be a serious constraint to food security. However, understanding the impact of this stressor on plants is a major challenge due to the involvement of numerous genes and regulatory pathways. While transcriptomic analyses of barley (Hordeum vulgare L.) under salt stress have been reported with microarrays, there are no reports as yet of the use of mRNA-Seq. We demonstrate the utility of mRNA-Seq by analysing cDNA libraries derived from acutely salt-stressed and unstressed leaf material of H. vulgare cv. Hindmarsh. The data yielded[50 million sequence tags which aligned to 26,944 sequences in the Unigene reference database. To gain maximum information, we performed de novo assembly of unaligned reads and discovered[3,800 contigs, termed novel tentative consensus sequences, which are either new, or significant improvements on current databases. Differential gene expression screening found 48 significantly up-regulated and 62 significantly down-regulated transcripts. The work provides comprehensive insights into genome-wide effects of salinity and is a new resource for the study of gene regulation in barley and wheat. Further, the bioinformatics workflow may be applicable to other non-model plants to establish their transcriptomes and identify unique sequences.

• Wydawca: -
• Czasopismo: Acta Physiologiae Plantarum
• Rocznik: 2013
• Tom: 35
• Numer: 06
• Opis fizyczny: p.1915-1924,fig.,ref.

Twórcy

autor

Ziemann M

• Baker IDI Heart and Diabetes Institute, Melbourne, VIC 3004, Australia

autor

Kamboj A.

• Environment and Biotechnology Centre, Faculty of Life and Social Sciences, Swinburne University of Technology, PO Box 218, Hawthorn, VIC 3122, Australia

autor

Hove R. M.

• Environment and Biotechnology Centre, Faculty of Life and Social Sciences, Swinburne University of Technology, PO Box 218, Hawthorn, VIC 3122, Australia

autor

Loveridge S.

• Baker IDI Heart and Diabetes Institute, Melbourne, VIC 3004, Australia

autor

El-Osta A.

• Baker IDI Heart and Diabetes Institute, Melbourne, VIC 3004, Australia

autor

Bhave M.

• Environment and Biotechnology Centre, Faculty of Life and Social Sciences, Swinburne University of Technology, PO Box 218, Hawthorn, VIC 3122, Australia

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