QUADRAT DTP: Analysing past biodiversity in North-eastern Scotland using DNA metabarcoding and metagenomics


   School of Geosciences

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  Dr L Girdland Flink, Prof Gill Plunkett  No more applications being accepted  Competition Funded PhD Project (Students Worldwide)

About the Project

This fully funded, 42-month PhD project is part of the QUADRAT Doctoral Training Partnership.

Environmental ancient DNA can be used to reconstruct past biodiversity (Parducci 2019). DNA can be extracted from various contexts, including naturally accumulated peat and lake sediments (Giguet-Covex et al. 2014, Parducci 2019), cave sediments and stalagmites (Slon et al. 2017, Stahlschmidt et al. 2019), and even archaeological sites and the natural environments surrounding those sites (Hebsgaard 2009, Giguet-Covex et al. 2014). Ancient environmental DNA can provide insights into past biodiversity and human land use even in the absence of other environmental proxies like pollen and macrofossils (Hebsgaard et al. 2009, Slon et al. 2017, Stahlschmidt et al. 2019).

The main aim of this project is to explore past biodiversity in North-eastern Scotland using metabarcode (e.g., 12S) and metagenomic sequencing of ancient DNA extracted from lake sediments and peat bogs, with special emphasis on the period spanning the 5th to 11th centuries AD (also known as the ‘Dark Ages’). This encompass the Pictish period, which is an emerging research theme in archaeology and paleoenvironmental studies, especially since written historical sources are scarce. The study aligns with ongoing palynological and palaeolimnological research and will provide new insights to the relative abundance of wild and domestic fauna (and possibly floral diversity) across time. This will enable reconstruction of human land-use and long-term impact on native fauna and flora. A second major aim is to test and further develop novel methods for enriching metagenomic sequencing libraries.

The study sites will be decided by the student in consultation with the supervisory team, but we envision that the project will generate data from at least five sites. But they will have the option of accessing cores from archaeological sites anticipated to be analysed for pollen as part of ongoing research projects (e.g., the Leverhulme funded project ‘Coming into the Light: exploring the Dark Age environments of northern Britain’, which is led by Dr Tim Mighall and Dr Samantha Jones in the Department of Geography at the University of Aberdeen), including peat and lake sediment core samples taken near Cluine and Dummiefarline, which are fortified settlements linked to groups native to Scotland (i.e., the Picts). The student is expected to participate in field work (e.g., coring) where possible.

The project offers comprehensive training in state-of-the-art ancient DNA methods and pollen analysis. Where applicable, the student will also be trained in analysing tephrochronology and radiocarbon dating. We also envision that the successful candidate will partake in fieldwork (coring, surveying) where possible.

Pictish archaeology is a key and emerging research theme in the Department of Archaeology at the University of Aberdeen. Ongoing research includes large-scale excavations of Pictish hillforts and settlements, ancient genomics to reveal Pictish genetic ancestry, stable isotope analysis to understand diet and mobility of both humans and domestic animals, and osteological analysis of faunal remains. This project will enhance our understanding of the Pictish period by providing insights to changes over time in land use, as well as their long-term impact on native fauna and flora.

Candidate Background:

The successful applicant should possess basic skills in DNA analysis, including experience with DNA extraction, PCR amplification, and the analysis of DNA sequence data. Preference will be given to applicants who can demonstrate proficiency in metabarcode (e.g., 16S or 12S) analysis.

Candidates should have, or expect to achieve, a minimum of a 2.1 Honours degree (or equivalent) in a relevant subject. Applicants with a minimum of a 2.2 Honours degree may be considered providing they have a Distinction at Masters level.

We encourage applications from all backgrounds and communities, and are committed to having a diverse, inclusive team.

Informal enquiries are encouraged, please contact Dr LINUS GIRDLAND FLINK ([Email Address Removed]) for further information.

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APPLICATION PROCEDURE:

  • Please visit this page for full application information: How To Apply – QUADRAT
  • Please send your completed application form, along with academic transcripts to [Email Address Removed]
  • Please ensure that two written references from your referees are submitted. It is your responsibility to ensure these are provided, as we will not request references on your behalf.
  • Unfortunately, due to workload constraints, we cannot consider incomplete applications.
  • CV's submitted directly through a FindAPhD enquiry WILL NOT be considered.
  • If you require any additional assistance in submitting your application or have any queries about the application process, please don't hesitate to contact us at [Email Address Removed]

 

Biological Sciences (4) Environmental Sciences (13) Geography (17) History & Archaeology (19)

Funding Notes

This opportunity is open to UK and International students (The proportion of international students appointed through the QUADRAT DTP is capped at 30% by UKRI NERC).
Funding covers:
• A monthly stipend for accommodation and living costs, based on UKRI rates (£18,622 for the 23/24 academic year. Stipend rates for the 24/25 academic year have not been set yet)
• Tuition Fees
• Research and training costs
QUADRAT DTP does not provide funding to cover visa and associated healthcare surcharges for international students.

Where will I study?

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