People

T_Mock

Professor (Chair) Thomas Mock

Group Leader | Principal Investigator | Fellow of Higher Education Academy

Email: T.Mock@uea.ac.uk

Biography

I obtained my MSc (1998) in Biology with emphasis on Biological Oceanography at the Christian-Albrechts University in Kiel and the PhD (2003) at Bremen University (Alfred-Wegener Institute for Polar and Marine Research), Germany. Before joining the University of East Anglia (UEA) in 2007, most of my PostDoc research was conducted with a fellowship from the German Academic Exchange Service (DAAD) in the School of Oceanography, University of Washington (E.V. Armbrust lab) in joint cooperation with the Biotechnology Center, University of Wisconsin (M.R. Sussman lab), USA. Before I was promoted to Professor (Personal Chair) in 2014, I was Reader (2012-2014) and had a Research Councils UK (RCUK) Academic Fellowship (2007-2012). I am a member of several genome and metagenome projects with marine microalgae (e.g. diatoms) and bacteria and conducted transcriptome analysis with diatoms using microarrays and expressed sequence tags (ESTs) in order to find the molecular basis of adaptation to environmental conditions. A crucial part of this research is the identification of metabolic pathways (e.g carbon fixation, silicon bioprocesses in diatoms) and their key regulatory components (e.g. DNA-binding proteins) to find mechanisms on how these organisms sense changes in environmental conditions. This fundamental knowledge about microbes from the upper ocean will help to interpret future responses to global change.

Research Interests

Environmental and functional genomics of marine microbial organisms; metagenomics of the upper ocean; physiological adaptation; diatom biology; photosynthesis; polar biology; biochemistry; biological oceanography.

Publications

For publications, please see the publications page.

Nigel Belshaw

Dr Nigel Belshaw

Laboratory Technician
Email: N.Belshaw@uea.ac.uk

Biography

After obtaining a degree in Biochemistry from the University of East Anglia (UEA) I studied for a PhD on the regulation of gene expression in filamentous fungi at the Institute of Food Research (IFR) in the Norwich Research Park. This project and my subsequent research were focussed on the role of chromatin structure and epigenetic modifications as regulators of gene expression. Until recently I led a team at IFR investigating the role of epigenetics in gut disease and the influence of lifestyle factors. In my current role I will be developing and utilising the CRISPR/Cas genome editing tool to understand gene function in the polar diatom Fragilariopsis cylindrus.

Irina Grouneva

Dr Irina Grouneva

Post-Doctoral Researcher
Email: I.Grouneva@uea.ac.uk

Biography

Diatoms have been the main focus of my research for more than ten years. My areas of expertise are physiology, proteomics and molecular biology. I obtained my PhD in Biology at the University of Leipzig, Germany in 2009 and went on to work as a postdoc in the group of Prof. Eva-Mari Aro at the University of Turku, Finland for six years. I moved to Norwich in April 2016 to start work on an exciting new project on gene editing of the ice diatom Fragilariopsis cylindrus in the lab of Professor Thomas Mock at the University of East Anglia (UEA). The objective is to establish the recently developed CRISPR/Cas-mediated gene editing tool in this diatom species. The novelty of this approach lies with the possibility to generate complete knockouts for specific target genes, something that has not been possible in diatoms previously. F. cylindrus is the first fully sequenced psychrophilic eukaryote and can therefore provide invaluable insights into cold-adaptation of eukaryotic photosynthesis.

Research Interests

Diatoms, photosynthesis regulation, light harvesting, proteomics.

Amanda Hopes

Dr. Amanda Hopes

Post-Doctoral Researcher
Email: a.hopes@uea.ac.uk

Biography

I finished my PhD in Thomas Mock’s group in 2017, working on developing new molecular tools for diatoms and investigating the function of a gene potentially involved in regulating silica metabolism in the polar diatom Fragilariopsis cylindrus. During this time, I developed a transformation system for F. cylindrus, CRISPR-Cas using a Golden-Gate approach for gene-editing in the model diatom Thalassiosira pseudonana and started development of an Inverse yeast 1-hybrid system for F. cylindrus.

Prior to my PhD I worked for a biotechnology company for four and half years as a researcher, developing molecular clinical diagnostic tools.

Following my PhD I started a short- term NRP Post-Doc investing protein regulation in T. pseudonana through ribosome profiling and adapting codon usage using CRISPR-driven homologous recombination developed in the Mock lab.

I have just started my second Post-Doc with Thomas researching the molecular underpinnings of adaptive evolution in polar diatoms.

Research Interests

Functional genomics; molecular biology; diatoms/algae; silica metabolism; gene and protein regulation, evolution, polar biology.

Publications

Hopes, A., Nekrasov, V., Belshaw, N., Grouneva, I., Kamoun, S., Mock, T. 2017. Genome Editing in Diatoms Using CRISPR-Cas to Induce Precise Bi- allelic Deletions. Bio-protocol, 7(23).

Hopes, A., Thomas, D.N. and Mock, T., 2017. Polar Microalgae: Functional Genomics, Physiology, and the Environment. In Psychrophiles: From Biodiversity to Biotechnology (pp. 305-344). Springer International Publishing.

Hopes, A., Nekrasov, V., Kamoun, S. and Mock, T., 2016. Editing of the urease gene by CRISPR-Cas in the diatom Thalassiosira pseudonana. Plant methods, 12(1), p.49.

Hopes A., Mock, T. 2015. Evolution of Microalgae and Their Adaptations in Different Marine Ecosystems. eLS (DOI: 10.1002/9780470015902.a0023744).

Hopes A. & Mock T. (2014) Diatoms: Glass-dwelling dynamos. Microbiology Today :41(1), 20-23.

 

Dr. Andrew Toseland

Post-Doctoral Researcher
Email: Andrew.Toseland@earlham.ac.uk

Biography

My degree in Software Engineering at UWE Bristol focused on Object Oriented design and programming in Java. My main interests lay in Computer Science topics, particularly machine learning, which was the focus of my final year project. My PhD is focused on a computational analysis of marine eukaryote metatranscriptome data using Perl and published bioinformatics tools to develop an analysis pipeline.

Research Interests

Eukaryotic marine metatranscriptomics; genome assembly; high-throughput sequencing.

Selected publications:

Toseland A., Daines S. J., Clark J. R., Kirkham A., Strauss J., Uhlig C., Lenton T. M., Valentin K., Pearson G. A., Moulton V., Mock T. (2013) The impact of temperature on marine phytoplankton resource allocation and metabolism. Nature Climate Change
(DOI: 10.1038/nclimate1989)

Toseland A., Moxon S., Mock T., Moulton V. (2014) Metatranscriptomes from diverse microbial communities: assessment of data reduction techniques for rigorous annotation. BMC Genomics (DOI: 10.1186/1471-2164-15-901)

 

Kara Martin

Kara Martin

PhD Student
Email: K.Martin@uea.ac.uk
Primary Supervisor: Professor Vincent Moulton (School of Computing)
Secondary Supervisor: Professor Thomas Mock
Dr Richard Leggett (The Genome Analysis Centre)

Biography

Bioinformatics approaches for assessing the impact of temperature on eukaryotic phytoplankton

I graduated from the University College Dublin (UCD) with a degree in Science, majoring in Microbiology in 2011. My final year project was 'Investigating the role of sigma factor in physiology of Rhodococcus equi.' I then went to pursue a masters and graduated with a MSc. in Bioinformatics from University of Leicester in 2012. My final year project for my masters was 'In silico mining for microsatellites'. I gained research experience in bioinformatics at the National Institute for Cellular Biotechnology (NICB). The role involved statistical analysis of microarray data generated from colorectal cancer samples conducted within the R/Bioconductor software environment.

I am currently in my first year of my PhD. My project is "Bioinformatics approaches for assessing the impact of temperature on eukaryotic phytoplankton".

Ana Bermejo Martinez

Ana Bermejo Martínez

PhD Student
Email: A.Bermejo-Martinez@uea.ac.uk
Primary Supervisor: Dr Jonathan Todd (School of Biological Sciences)
Secondary Supervisors: Dr Janneke Balk (School of Biological Sciences)
Dr Cristobal Uauy (School of Biological Sciences)
Professor Thomas Mock

Biography

I studied Biology at the University of Santiago de Compostela, where I majored in Molecular Biology and Biotechnology. My interest in the application of Biotechnology in the environment drove me to study for an MSc in Biotechnology for a Sustainable Future at the University of East Anglia (UEA). My Master's research project in the group of Dr Jonathan Todd focused on how Thalossiosira pseudonana, a model marine diatom, synthesises glycine betaine, the most abundant osmolyte in nature.

After my masters, I became a Senior Research Technician in the research groups of Dr Jonathan Todd and Professor Thomas Mock. My project involved dimethylsulphoniopropionate (DMSP) synthesis in phytoplankton, as well as continuing the work on glycine betaine synthesis from my Master's project.

In my current PhD project, I am taking a step further in the glycine betaine synthesis research in diatoms, as well as using these new findings for the improvement of key agricultural crops.‬‬

Emma Langan

PhD Student
Email: emma.langan@uea.ac.uk
Primary Supervisor: Professor Thomas Mock
Secondary Supervisors: Dr Richard Leggett (Earlham Institute)
Professor Vincent Moulton (School of Computing)
Dr Clara Manno (British Antarctic Survey)

Biography

I studied Infectious Diseases with a focus on microbiology at the University of Edinburgh and graduated in 2015.  My honours project was genetic identification of zoonotic trypanosomiasis strains in cattle, which sparked my interest in genomics and bioinformatics.  I completed an MSc in Bioinformatics, also at the University of Edinburgh, in 2017.  My MSc research project mainly involved genome assembly and analysis, I also created a genomic database and browser and performed DNA sequencing using the Nanopore MinION portable real-time long read sequencer.  In October 2017 I moved to Norwich to begin a PhD at the UEA.  My project is focussed on using the Nanopore MinION for real-time metagenomic sequencing of polar ocean samples to monitor polar microbe populations.

Shiri Graff van Creveld

Visiting PhD Student (EMBO Short-term fellowship) from Weizmann Institute of Science, Vardi Group, Israel

Email:  shiri.graff@weizmann.ac.il

Biography

After graduating in molecular biochemistry in the Technion (Israel Institute of Technology) my love to the sea drove me to peruse an MSc, and then a PhD studying marine diatoms in the lab of Assaf Vardi’s at the Weizmann Institute of Science (Israel).

I am interesting in diatom’s response to stress, how they perceive and response to the ever-changing marine environment. In particular, I am studying the role of redox in cell fate regulation in marine diatom’s response to environmental stresses. I received a short-term-EMBO fellowship to come to the lab Professor Thomas Mock at the University of East Anglia, in order to adapt the CRISPR/Cas9 tool for gene editing in the model diatom Phaeodactylum.

Research Interests

Programmed cell death, stress response, redox signaling, functional genetics; marine microbiology; diatoms; protein structure-function.

Publications

Graff van Creveld, S., Rosenwasser, S., Schatz, D., Koren, I., and Vardi, A. (2015). Early perturbation in mitochondria redox homeostasis in response to environmental stress predicts cell fate in diatoms. ISME J. 9, 385–395.

Graff van Creveld, S., Rosenwasser, S., Levin, Y., and Vardi, A. (2016). Chronic iron limitation confers transient resistance to oxidative stress in marine diatoms. Plant Physiol. 172, 968–979.

Rosenwasser, S., Graff van Creveld, S., Schatz, D., Malitsky, S., Tzfadia, O., Aharoni, A., Levin, Y., Gabashvili, A., Feldmesser, E., and Vardi, A. (2014). Mapping the diatom redox-sensitive proteome provides insight into response to nitrogen stress in the marine environment. Proc. Natl. Acad. Sci. U. S. A. 111, 2740–2745.

Rosenwasser, S., Ziv, C., Graff van Creveld, S., and Vardi, A. (2016). Virocell Metabolism: Metabolic Innovations During Host–Virus Interactions in the Ocean. Trends Microbiol. 24, 821–832.

Volpert, A., Graff van Creveld, S., Rosenwasser, S., and Vardi, A. (2018). Diurnal fluctuations in chloroplast GSH redox state regulate susceptibility to oxidative stress and cell fate in a bloom-forming diatom. J. Phycol. 0–2. (DOI: 10.1111/jpy.12638).