This thesis considers the nature of pottery and its wider roles in the Highlands and Northern Isles of Scotland from 2500-1800 BC. The period under study represents a key moment in British prehistory with the introduction of metallurgy and wide-ranging changes in society. Since the inception of early Bronze Age studies pottery has played an important role in examinations of identity and chronology. As identified by several scholars there has been a recurrent emphasis on a select number of interpretive themes and regions such as Wessex and Aberdeenshire. This has marginalised certain areas creating an imbalance in our understanding of the tempo and dynamics of change during the period. Recent reviews have begun to address this issue, highlighting the importance of regional studies to our overall understanding of change in the later 3rd millennium. At present, there is no synthesis of ceramic material from the Highlands and Northern Isles that considers the diverse array of pot types and the contexts in which they are found. In response, this thesis aims to characterise the range of ceramic types, their contexts and associations. Through the course of this thesis a series of detailed regional datasets and interpretations are constructed. This is coupled with a review of the longer-term ceramic sequence across the study area, situating the advent of novel pot types within the existing ceramic repertoire. Secondly, this thesis examines the dynamics of ceramic similarity and difference, and what this reveals about regional preferences and identities alongside broader intra and supra regional networks. Drawing on recent relational approaches this thesis explores how ceramic categories came into being, persisted and dissipated at a range of scales. These approaches highlight the fluid nature of change and the need to consider pots as elements of wider assemblages. Through this examination it is possible to detect distinct trends in regional ceramics, allowing for the construction of narratives that extend beyond defining visual similarities, contributing towards understanding the wider significance of similarity and difference.

Arts and Humanities Research Council, through a Collaborative Doctoral Partnership studentship / The full text will be available at the end of the embargo period

Traditionally archaeology has referred to the anthropic sediments accumulated around prehistoric settlements with the blanket term ‘midden’. This is now recognised as an inadequate term to describe the complex formation processes and functions represented in these sediments. This thesis reviewed the body of evidence accumulated over the past century of research into Neolithic and Bronze Age settlements on the islands of the Scottish North Atlantic seaboard and extrapolated the many occurrences of ‘midden’. Several contexts emerged for these sediments including interior floors, hearths, exterior occupational surfaces, dumped deposits, building construction materials and abandonment infill. In addition, ‘midden’ is described added to cultivated soils to form fertile anthrosols. The way in which prehistoric communities exploited this material for agriculture and construction has been described through geoarchaeological research which implied that to past communities ‘midden’ was a valuable resource. This led to the formation of a model based upon a human ecodynamics framework to hypothesise sediment formation pathways. Rescue excavation at the Links of Noltland, Westray provided an opportunity to conduct a holistic landscape and fine resolution based study of Neolithic and Bronze Age settlement to test this model. The research incorporated auger survey, archaeological and geoarchaeological excavation, thin section micromorphology and SEM EDX analyses. Sediments identified in literature review and recovered from the field site were described using this toolkit and set within a cultural and environmental context. Results demonstrate that anthropic materials were incorporated into all contexts examined. Discrete burning and maintenance activities were found to have taken place during the gradual accumulation of open-air anthropic sediments whilst incorporation of fuel residues and hearth waste into floors lead to the gradual formation of ‘living floors’ inside structures. An unexpected discovery was evidence of animal penning within late Neolithic/Early Bronze Age settlement and the in situ burning of stabling waste. Three types iv | P a g e of land management strategy which relied upon the input of anthropic sediments were evidenced and the range and extent of anthropic inclusions in the landscape recorded. Spatial interpolation of auger survey data utilised a new sub-surface modelling technique being developed by the British Geological Survey to explore soil stratigraphic relationships in 3D. SEM EDX analysis supported micromorphological analysis providing chemical data for discrete inclusions and assisting in the identification of herbivore dun ash and the Orcadian funerary product ‘cramp’. SEM EDX analysis was also applied to fine organo-mineral material for statistical testing of nutrient loadings across context groups. It was found that anthropic sediments were enriched in macro and intermediate plant nutrients Mg, P, K, S and Ca compared to geological controls, and the application of anthropic material to cultivated soils improved soil fertility for the three observed land management practices. The versatility of anthropic sediments was explored through discussion of context groups based upon the results of this research and the potential significance of this material to prehistoric communities is explored.

Studying genetic diversity in natural and domestic populations is of major importance in evolutionary biology. The recent advent of next generation sequencing (NGS) technologies has dramatically changed the scope of these studies, enabling researchers to study genetic diversity in a whole-genome context. This thesis details examples of studies using NGS data to: (i) characterize evolutionary forces shaping the genome of the Atlantic herring, (ii) detect the genetic basis of speciation and domestication in the rabbit, and, (iii) identify mutations associated with skeletal atavism in Shetland ponies. The Atlantic herring (Clupea harengus) is the most abundant teleost species inhabiting the North Atlantic. Herring has seasonal reproduction and is adapted to a wide range of salinity (3-35‰) throughout the Baltic Sea and Atlantic Ocean. By using NGS data and whole-genome screening of 20 populations, we revealed the underlying genetic architecture for both adaptive features. Our results demonstrated that differentiated genomic regions have evolved by natural selection and genetic drift has played a subordinate role. The European rabbit (Oryctolagus cuniculus) is native to the Iberian Peninsula, where two rabbit subspecies with partial reproductive isolation have evolved. We performed whole genome sequencing to characterize regions of reduced introgression. Our results suggest key role of gene regulation in triggering genetic incompatibilities in the early stages of reproductive isolation. Moreover, we studied gene expression in testis and found misregulation of many genes in backcross progenies that often show impaired male fertility. We also scanned whole genome of wild and domestic populations and identified differentiated regions that were enriched for non-coding conserved elements. Our results indicated that selection has acted on standing genetic variation, particularly targeting genes expressed in the central nervous system. This finding is consistent with the tame behavior present in domestic rabbits, which allows them to survive and reproduce under the stressful non-natural rearing conditions provided by humans. In Shetland ponies, abnormally developed ulnae and fibulae characterize a skeletal deformity known as skeletal atavism. To explore the genetic basis of this disease, we scanned the genome using whole genome resequencing data. We identified two partially overlapping large deletions in the pseudoautosomal region (PAR) of the sex chromosomes that remove the entire coding sequence of the SHOX gene and part of CRLF2 gene. Based on this finding, we developed a diagnostic test that can be used as a tool to eradicate this inherited disease in horses.