Use this URL to cite or link to this record in EThOS: http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.582308
Title: Small RNA-mediated regulation, adaptation and stress response in barley archaeogenome
Author: Smith, Oliver
Awarding Body: University of Warwick
Current Institution: University of Warwick
Date of Award: 2012
Availability of Full Text:
Access from EThOS:
Full text unavailable from EThOS. Restricted access.
Access from Institution:
Abstract:
Small RNA are short, 18-25 nt molecules that regulate gene expression in plants and animals. Two main types, microRNA (miRNA) and short interfering RNA (siRNA) perform this regulation by transcript silencing, translation inhibition, DNA methylation and chromatin remodeling. This thesis is an investigation into small RNA activity in archaeological plant material, specifically barley grain from Qasr Ibrim, a multi-period archaeological site in southern Egypt. It is of particular interest due to its unusual phenotype, suggestive of stunted development that is unexpected in a staple, domesticated cultivar, and the unusual level of DNA and RNA preservation attributable to the extremely arid climate at the site. The research presented here is a comparative analysis of small RNA profiles and epigenetic states of Qasr Ibrim barley and modern, unstressed counterparts. It concludes that differential microRNA and epigenetic profiles are the result of stress response, adaptation, dormancy and / or viral infection unique to the archaeological grain. The primary method of investigation was generation of small RNA sequence data using the Illumina GAIIx platform. This was followed by extensive bioinformatic analysis (RNA diagenesis patterns, miRNA prediction, siRNA target prediction and small genome in silico reconstruction) the results of which were in turn validated experimentally (genomic methylation states, locus-specific methylation analysis and direct miRNA detection). The research represents a twofold contribution to knowledge: first, proof-of-principle that biologically meaningful archaeological RNA can be extracted despite its relative instability to DNA, and second that a unique miRNA profile and epigenetic state is detectable in this particular cultivar of archaeological barley.
Supervisor: Not available Sponsor: Not available
Qualification Name: Thesis (Ph.D.) Qualification Level: Doctoral
EThOS ID: uk.bl.ethos.582308  DOI: Not available
Keywords: QH426 Genetics ; QP Physiology
Share: