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Salinity tolerance and transcriptomics in rice

Hossain, Mohammad Rashed (2014)
Ph.D. thesis, University of Birmingham.

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Abstract

Morpho-physiological characterization and whole genome transcript profiling of rice genotypes that belongs to sub-species Indica, Japonica and wild relatives were carried out under salt stress. The existence of qualitatively different mechanisms of salt tolerance across the genotypes was identified. Multivariate analysis was applied to categorize the genotypes according to their level of tolerance. Modified SAM analysis elucidated the trait specific expression of genome wide transcripts. Gene ontology enrichment analysis identified the genes involved in different molecular functions such as signal transduction, transcription factor and ion homeostasis etc. Gene network analysis identified the regulatory network of genes that are active in different tissues. The differential expression of transcripts of four tolerant and two susceptible Indica genotypes under stress were further analysed. The candidate genes for different biological processes and molecular functions are identified and discussed. Highly induced stimulus responsive gene Os01g0159600 (OsLEA1a) and Os05g0382200 (Nhx) can be mentioned for instance. The differentially expressed genes that are located within the salt stress related QTLs were also identified. The transcriptomics data were also used to predict the salinity tolerance of genotypes using OSC-PLSDA model. The combined physiological and transcriptomic approach of this study gives a complementary whole organism assessment of plants responses to salt stress.

Type of Work:Ph.D. thesis.
Supervisor(s):Ford-Lloyd, Brian and Pritchard, Jeremy
School/Faculty:Colleges (2008 onwards) > College of Life & Environmental Sciences
Department:School of Biosciences
Subjects:QH426 Genetics
S Agriculture (General)
Institution:University of Birmingham
ID Code:5092
This unpublished thesis/dissertation is copyright of the author and/or third parties. The intellectual property rights of the author or third parties in respect of this work are as defined by The Copyright Designs and Patents Act 1988 or as modified by any successor legislation. Any use made of information contained in this thesis/dissertation must be in accordance with that legislation and must be properly acknowledged. Further distribution or reproduction in any format is prohibited without the permission of the copyright holder.
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