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  Redefining the metabolism of nitrogen cycling microbes using Dual Stable Isotope Probing (LEHTOVIRTA_UBIO22ARIES)


   School of Biological Sciences

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  Dr Laura Lehtovirta-Morley  No more applications being accepted  Competition Funded PhD Project (Students Worldwide)

About the Project

Primary Supervisor - Dr Laura Lehtovitra-Morley

Secondary Supervisor - Professor Matt Hutchings (John Innes Centre)

Supervisory Team - Professor Colin Murrell (University of East Anglia, School of Environmental Sciences)

Scientific background

Nitrification is a central step in the global nitrogen cycle and a key driver of environmental change through its role in greenhouse gas emission and eutrophication. The nitrogen cycle is an essential ecosystem service with major impacts on the Earth’s climate and environments. Ammonia oxidising microorganisms play a critical role in nitrogen cycling in soil ecosystems. Ammonia oxidising microbes are amongst the most numerous living organisms on the planet and catalyse the initial and rate-limiting step in nitrification. Despite the immense importance of nitrifiers in diverse ecosystems, there are major knowledge gaps in our understanding of their metabolism and of their role in breaking down organic nitrogen compounds, such as urea and cyanate. This makes it hard to protect the resilience of ecosystem services and manage nitrogen losses from agricultural ecosystems, and this is a major challenge to global food security. This project will address critical gaps in our understanding of the physiology, ecology and activity of ammonia oxidising microbes in soils.

The project

The student will determine the contribution and metabolism of ammonia oxidising microbes to the turnover of urea and cyanate in the environment. This represents an overlooked, missing link between the global biogeochemical nitrogen and carbon cycles.

Training

The student will receive training in cutting-edge techniques in environmental molecular microbiology, including Dual Stable Isotope Probing, metagenomics, transcriptomics, bioinformatics, enzyme kinetics and microbial physiology. S/he will present their data at departmental seminars, at national and international conferences and at the annual Norwich Science Festival. The student will join the cohort of PhD students at UEA and attend training courses for research and transferable skills. The student will join the thriving molecular microbiology theme at UEA with >40 scientists whose research spans the biogeochemical cycles of nitrogen, carbon and sulphur. The project will be co-supervised by Matt Hutchings (JIC) and Colin Murrell (UEA).

Person specification

This project is suited to candidates with a BSc or MSc degree in Microbiology-, Environmental Sciences- and Biochemistry-related disciplines.

For more information on the supervisor for this project, please visit the UEA website www.uea.ac.uk

The start date is 1 October 2022



Funding Notes

This project is funded by ARIES NERC DTP and will start on 1st October 2022.

Successful candidates who meet UKRI’s eligibility criteria will be awarded a NERC studentship covering fees, stipend (£15,609 p.a. for 2021-22) and research funding. International applicants (EU and non-EU) are eligible for fully-funded UKRI studentships.

ARIES students benefit from bespoke graduate training and £2,500 for external training, travel and conferences.

ARIES is committed to equality, diversity, widening participation and inclusion. Academic qualifications are considered alongside non-academic experience. Our recruitment process considers potential with the same weighting as past experience.

For information and full eligibility visit https://www.aries-dtp.ac.uk

References

1) Lehtovirta-Morley LE, Ross J, Hink L, Weber, EB, Gubry-Rangin C, Thion C, Prosser JI, Nicol GW (2016) Isolation of ‘Candidatus Nitrosocosmicus franklandus’, a novel ureolytic soil archaeal ammonia oxidiser with tolerance to high ammonia concentration. FEMS Microbiol Ecol 92:fiw057.
2) Prudence SMM, Newitt JT, Worsley SF, Macey MC, Murrell JC, Lehtovirta-Morley LE, Hutchings MI (2021) Soil, senescence and exudate utilisation: characterisation of the Paragon var. spring bread wheat root microbiome. Environmental Microbiome 16:12.
3) Lehtovirta-Morley LE, Stoecker K, Vilcinskas A, Prosser JI, Nicol GW (2011) Cultivation of an obligately acidophilic ammonia oxidizer from a nitrifying acid soil. PNAS 108:15892-15897.
4) Radajewski S, Ineson P, Parekh NR, Murrell JC (2000) Stable-isotope probing as a tool in microbial ecology. Nature 403: 646-649.
5) Kitzinger K, Padilla CC, Marchant HK et al. (2019) Cyanate and urea are substrates for nitrification by Thaumarchaeota in the marine environment. Nat Microbiol 4: 234–243.

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