Dr Matthew Wade
Marie Skłodowska-Curie Individual Fellow
- Email: email@example.com
- Telephone: +1 (905) 525-9140 x-26373
- Personal Website: http://scholar.google.co.uk/citations?user=kZsFahQAAAAJ&hl=en
- Address: Room 412 Hamilton Hall
Department of Mathematics & Statistics
I am currently in the outgoing phase of a Marie Skłodowska-Curie Individual Fellowship at McMaster University, Canada:
“DRAMATIC: Development of Relevant Approaches to Mathematically Model Increasingly Complex Microbially-driven Processes”.
My background is in Environmental Engineering with specific focus on wastewater treatment systems, MBR technology and anaerobic digestion/biogas. However, I have experience in a range of disciplines such as mathematical modelling, process monitoring and control, chemometrics, bioinformatics, and computing/software.
I have 4 years experience in implementing and managing European funded research projects, specifically in the environmental field at an international level (Biogas in Europe, Membrane bioreactors in the MENA region, Ballast Water Treatment, Sustainable Textile/Tannery processes in Pakistan).
I previously worked on the BBSRC sLOLA project: Engineering synthetic microbial communities for biomethane production, adLola. The work involved developing a mechanistic understanding of anaerobic digestion processes through mathematical modelling to analyse the inherent stability and performance constraints of simple microbial ecologies. I also spent eight months prior to my Fellowship on the EPSRC funded NUFEB (Frontiers in Engineering Biology) project, where I was part of a collaborative team developing scalable individual-based models incorporating biology, chemistry, physical and hydrodynamic behaviours for application to a range of systems including biofilms, flocs, and anaerobic digestion.
I have also been active as a bioinformatician for the Environmental Engineering group, a role that variously utilises and integrates the disciplines of computing, informatics/statistics and microbiology.
Areas of expertise: mathematical biology, mathematical modelling, anaerobic digestion
B.Eng. Environmental & Ecological Engineering, Newcastle University, 1998
M.Sc. Environmental Engineering, Newcastle University, 2000
Ph.D. Electronic & Electrical Engineering, University of Strathclyde, Glasgow, 2004
2016-2017: Research Associate (EPSRC NUFEB), School of Biology, Newcastle University
2013-2016: Research Associate (BBSRC sLoLa), School of Civil Engineering & Geosciences, Newcastle University
2011-2013: Bioinformatician, School of Civil Engineering & Geosciences, Newcastle University
2010-2011: Research Associate, School of Chemical Engineering & Advanced Materials, Newcastle University
2006-2010: Project Manager, Environmental Dept., ttz-Bremerhaven, Germany
2005-2006: Biochemometrician, Institute of Grassland & Environmental Research, North Wyke, Devon
2004-2005: Research Fellow, Centre for Process Analytics & Control Technology, University of Strathclyde
Programming and Scientific Computing Skills
Languages & Software: MATLAB, Simulink, Maple, QIIME, C , R, Python, LABView, XPP/AUTO, PSpice
Systems & Architecture: CONDOR (Grid computing), Virtual Machines (CloVR), Amazon EC2 (Cloud computing)
Google Scholar: Click here.
As part of my ongoing Marie Skłodowska-Curie Global Fellowship, I am currently undertaking a number of research activities including:
- Analysis of emerging oscillatory behaviour in a simplified ecological model describing an anaerobic microbial process. With Prof. Gail Wolkowicz and Szymon Sobieszek (McMaster University)
- Development of a rigorous mathematical model of the acetogenesis/methanogenesis sub-system of anaerobic digestion, including metabolic switching and linking thermodynamic regulation of growth functions. With Prof. Orkun Soyer (Warwick University), Prof. Isaac Klapper (Temple University), Dr. Tianyu Zhang (Montana State Uni.)
- Development of a 1D PDE/ODE model describing a hybrid MBBR for Partial Nitritation and Anammox (PN/A). The model describes the evolution of a 1D biofilm model as a moving boundary value problem, coupled to a system of ODEs describing the behaviour of the planktonic species in the bulk liquid phase. With Prof. Hermann Eberl (Uni. Guelph), Dr. Alex Rosenthal (Northwestern Uni.)
- Development and mathematical study of a 0D impulsive system of the hybrid MBBR with state-dependent impulses. With Prof. Gail Wolkowicz and Tyler Meadows (McMaster University), Dr. Kris Villez (EAWAG), Dr. Michele Laureni (Uni. Delft)
- Development of a toy model describing the resource competition between canonical nitrifiers (AOB -> NOB) and recently discovered oligotrophic complete ammonia oxidisers (Commamox). The model will be a test case to explore the putative evolutionary invasion traits of Commamox using an adaptive dynamics approach. With Dr. Christina Cobbold (Uni. Glasgow)
I was involved in the mathematical modelling of anaerobic digestion processes in the framework of the BBSRC sLOLA funded project "Engineering synthetic microbial communities for biomethane production".
The work involved the development and analysis of simplified ODE type mathematical models of sub-processes (or motifs) describing microbial interactions in an anaerobic context. These motifs describe typical ecological phenomena at the microbial level, such as syntrophy, competition, and mutualism.
The stability of these systems are elucidated by solving the models analytically and describing their general character in relation to the parameters of the system. However, for increasingly complex models with three or more organisms, numerical analysis is required and only local stability may be adequately described for some steady-states. Nevertheless, this provides the opportunity observe emergent properties of the system given perturbations in the operational conditions, or from a synthetic biology perspective, to understand the importance of the microbes themselves in determining process behaviour.
Coupling this analysis with parameter sensitivity studies, and linking information gained from modern molecular techniques and metabolic modelling work, it is anticipated that the performance of anaerobic digestion processes can be tailored based on a greater understanding of the microbial community.
Invited speaker at MODEMIC-INRA, Montpellier, France, 2015 - Biomethane Community Modelling: Understanding the dynamics, stability and sensitivity of anaerobic digestion.
Invited speaker at "Microbial Ecology and Mathematical Modelling" Bernouilli Workshop, CIB/EPFL, Lausanne, 2014.
Invited speaker at Newcastle University-Shell Symposium, Newcastle, 2013 - Bioinformatics; making sense of hyperdiverse microbial systems.
Contributed to the Indo-UK Bioinformatics Workshop, India Institute of Technology, Delhi, 2012
Invited speaker at SWIG - Sensors for Anaerobic Digestion, Burnley, 2012 - Analysing anaerobic digestion processes with high-throughput sequencing
Invited speaker at The Spring AD Research & Development Forum, York, 2012 - Delving deeper: next generation insights into anaerobic digestion
Invited speaker at 2nd Annual Analytical Spectroscopy and Environmental Monitoring Workshop, Aberystwyth, 2005 - Development of MATLAB Graphical User Interfaces as Generic Tools for Data Analysis at IGER
Invited speaker at CPACT Theme 1 Meeting (Monitoring of Chemical Processes), Glasgow, 2004 - On-line Batch Reactor Monitoring & Control Using Process Analytical Measurements
Invited speaker at Advanced Control Technology Club Event (Profiting from Improved Efficiency in the Process Industries), BP, Grangemouth, 2003 - Improving Plant Efficiency in the Wastewater Industry
Invited speaker at 22nd Advanced Control Technology Club Plenary Meeting (Data Driven Modelling and System Identification), Glasgow, 2003 - Data Analysis and Knowledge Recovery Using Principal Component Analysis
4th Asian Control Conference, Singapore (2002): Session Chair (PID Control) & Session Co-Chair (Process & Chemical Systems I)
Publication reviewer for Emerald Engineering Publishing (2007-Present)
Publication reviewer for Bioresource Technology, Biochemical Engineering Journal and the IEEE Transactions on Neural Networks
EPSRC: NUFEB - Newcastle University Frontiers in Engineering Biology (Current). Website
Newcastle University Institute of Sustainability Responsive Mode: EXPAND - Exploring the global dynamics of anaerobic digestion processes (2014-2015). (Project Leader).
BBSRC sLOLA: Engineering synthetic microbial communities for biomethane production (2013-2017). Website.
Marie Curie Network Project: AD-WINE (2011-2015). High performance anaerobic digesters for the treatment of medium sized wineries effluents. Website.
WRAP - Driving Innovation in Anaerobic Digestion (Optimisation): A rapid and low-cost method for assessing AD plant health through identification of functional microbial communities (2012). Website (Project Leader).
TSB: Advanced Secondary Pharmaceutical Manufacturing (2010-2011). Process modelling, monitoring and control of continuous tablet manufacture.
EC SWITCH-Asia Project: SCI-Pak (2009-2011). Sustainable and Cleaner Production in the Manufacturing Industries of Pakistan. (Project Leader).
Intelligent Energy Europe: Farmagas (2009-2011). Biogas Production from Agricultural Wastes in European Farms.
EC 7th Framework Project: NanoBak (2009-2011). Modelling and simulation tasks for a novel climatic chamber with an Innovative, energy saving Nano-Aerosol Humidification system for the manufacture of high quality Bakery products.
EC 6th Framework Project: AGROBIOGAS (2006-2009). An integrated approach to biogas production with agricultural waste. Website (Scientific Coordinator).
EC 6th Framework Project: BaWaPla (2006-2009). Sustainable Ballast Water Management Plant. Website (Project Coordinator).
EC 6th Framework Project: PURATREAT (2006-2008). New energy efficient approach to the operation of Membrane Bioreactors for Decentralised Wastewater Treatment. Website (Project Coordinator).
EC COST Action 624 "Optimal Management of Wastewater Systems" – Working Group No. 1 "Plant Operation" (2002-2003)
EC 5th Framework Project: Smart Control of Wastewater Treatment Systems (SMAC) (2001-2004).
Awards & Certificates
Integrated Urban Water Quality Management certificate, Technical University of Denmark (2002)
The Metal Industry Committee of the Industry Applications Society Certificate of Appreciation (2003)
Asia Pro-Eco e-course on "Capacity Building for Ecological Sanitation in India" certificate, International Ecological Engineering Society (2007)
Other Expertise and Interests
Anaerobic Digestion (from microbiology to process)
Process monitoring and control
Wastewater Treatment Systems
Engineering Biology through Molecular Microbial Ecology CPD short course (Module CME8109), 2011-2015. More information
Partnership in Automation and Control Training (PACT) Integrated Graduate Development Scheme: Mathematics & Matlab (Module CME836), 2010-2014.
Implementation of Mathematical Techniques to Bioprocess Systems, (EngD Module CME8517), 2010-2013.
- Petropoulos E, Dolfing J, Yu Y, Wade MJ, Bowen EJ, Davenport RJ, Curtis TP. Lipolysis of domestic wastewater in anaerobic reactors operating at low temperatures. Environmental Science: Water Research & Technology 2018, 4(7), 1002-1013.
- Heidrich ES, Dolfing J, Wade MJ, Sloan WT, Quince C, Curtis TP. Temperature, inocula and substrate: Contrasting electroactive consortia, diversity and performance in microbial fuel cells. Bioelectrochemistry 2018, 119, 43-50.
- Sari T, Wade MJ. Generalised approach to modelling a three-tiered microbial food-web. Mathematical Biosciences 2017, 291, 21-37.
- Vignola M, Werner D, Wade MJ, Meynet P, Davenport RJ. Medium shapes the microbial community of water filters with implications for effluent quality. Water Research 2017, 129, 499-508.
- Wade MJ, Oakley J, Harbisher S, Parker NG, Dolfing J. MI-Sim: A MATLAB package for the numerical analysis of microbial ecological interactions. PLoS One 2017, 12, 0173249.
- Wade MJ, Pattinson RW, Parker NG, Dolfing J. Emergent behaviour in a chlorophenol-mineralising three-tiered microbial `food web'. Journal of Theoretical Biology 2016, 389, 171-186.
- Petropoulous E, Cuff G, Huete E, Garcia G, Wade MJ, Spera D, Aloisio L, Rochard J, Torres A, Weichgrebe D. Investigating the feasibility and the limits of high rate anaerobic winery wastewater treatment using a hybrid-EGSB bio-reactor. Process Safety and Environmental Protection 2016, 102, 107-118.
- McCann CM, Wade MJ, Gray ND, Roberts JA, Hubert CRJ, Graham DW. Microbial Communities in a High Arctic polar desert landscape. Frontiers in Microbiology 2016, 7, 419.
- Wade MJ, Harmand J, Benyahia B, Bouchez T, Chaillou S, Cloez B, Godon JJ, Moussa Boudjemaa B, Rapaport A, Sari T, Arditi R, Lobry C. Perspectives in Mathematical Modelling for Microbial Ecology. Ecological Modelling 2016, 321, 64-74.
- Robinson G, Caldwell GS, Wade MJ, Free A, Jones CLW, Stead SM. Profiling bacterial communities associated with sediment-based aquaculture bioremediation systems under contrasting redox regimes. Scientific Reports 2016, 6, 38850.
- Wade MJ, Curtis TP, Davenport RJ. Modelling Computational Resources for Next Generation Sequencing Bioinformatics Analysis of 16S rRNA Samples. arXiv, 2015. Available at: http://arxiv.org/abs/1503.02974.
- McCann CM, Gray ND, Tourney J, Davenport RJ, Wade MJ, Finlay N, Hudson-Edwards KA, Johnson KL. Remediation of a historically Pb contaminated soil using a model natural Mn oxide waste. Chemosphere 2015, 138, 211-217.
- McCann CM, Gray ND, Tourney J, Davenport RJ, Wade M, Finlay N, Husdon-Edwards KA, Johnson KL. Natural MnOx wastes as a novel remediation technology for Pb contaminated soils. In: 247th ACS National Meeting and Exposition. 2014, Dallas, TX, USA: American Chemical Society.
- Wade MJ. Delving Deeper: Next Generation Insights in Anaerobic Digestion. In: Spring AD Research & Development Forum. 2012, York, UK.
- Wade M, Heidrich ES. Next Generation Sequencing: From DNA to Data to Decision-Making. In: Molecular Microbial Ecology Meeting. 2011, Portsmouth, UK.
- Frandsen TQ, Wade M, Grassi G, Senechal S, Gali-Serra A, Astala S. AGROBIOGAS - An integrated approach for biogas production with agricultural waste. In: 17th European Biomass Conference. 2009, Hamburg, Germany: ETA-Florence Renewable Energies.
- Wade MJ, Frandsen TQ, Mata-Alvarez J, Gali A, Senechal S. An integrated approach for biogas production with agricultural waste. In: Nordic Association of Agricultural Scientists, NJF Seminar 428. 2009, Viborg, Denmark.
- Bino MJ, Al-Beiruti SJ, Wade MJ. Potential for MBR applications for wastewater treatment in the Middle East and North African region. In: Final MBR-Network Workshop. 2009, Berlin, Germany.
- Wade MJ, Schories G. Innovative decentralised wastewater treatment concepts. In: IWA National Young Water Professionals Conference. 2007, Berlin, Germany.
- Wade MJ. Data Mining and Knowledge Discovery for Process Monitoring and Control by X.Z. Wang. International Journal of Adaptive Control and Signal Processing 2006, 20(7), 353-355.
- Hobbs PJ, Wade MJ, Williams J, Dhanoa D. Managing manure by a greater understanding of its metabolic profile? Adopting new technologies. In: 12th RAMIRAN International Conference. 2006, Aarhus, Denmark: Danish Institute of Agricultural Sciences.
- Sanchez A, Wade MJ, Katebi MR. A Software Platform for Real-Time Control and Monitoring of a Wastewater Treatment Plant. Transactions of the Institute of Measurement and Control 2005, 27(3), 153-172.
- Wade MJ, Sanchez A, Katebi MR. On Real-time Control and Process Monitoring of Wastewater Treatment Plants: Real-time Process Monitoring. Transactions of the Institute of Measurement and Control 2005, 27(3), 173-193.
- Wade MJ, Balderud J. Using Multivariate Regression Techniques to Analyse the Performance of a Steam Heated Drying Process. In: IEEE International Conference on Industrial Electronics and Control Applications ICIECA 2005. 2005, Quito, Ecuador: IEEE Operations Center.
- Gernaey KV, Wade MJ, Jorgensen SB. An Application of Recursive Principal Component Analysis to a Continuous Biological Phosphorus Removal Process. In: 9th International Symposium on Computer Applications in Biology. 2004, Nancy, France.
- Wade MJ, Johnson MA. Towards Automatic Real-Time Controller Tuning and Robustness. In: Industry Applications Conference, 2003. 38th IAS Annual Meeting. 2003, Salt Lake City, USA: IEEE.
- Wade MJ, Katebi MR. A Generic Sensor Model for Wastewater Treatment Plant Control. In: IEEE International Conference on Control Applications. 2002, Glasgow, UK: IEEE.
- Mahathanakiet K, Johnson MA, Sanchez A, Wade MJ. Iterative Feedback Tuning and an Application to a Wastewater Treatment Plant. In: 4th Asian Control Conference. 2002, Singapore.
- Wade MJ, Katebi MR. Principal Component Analysis for Sensor Validation in Wastewater Treatment Systems. In: 1st Scientific & Technical Conference on Technology, Automation and Control of Wastewater and Drinking Water Systems. 2002, Gdansk, Poland.
- Wade MJ, Katebi MR, Johnson MA, Brady L. The Generic Control Structure of Wastewater Treatment Systems. In: 4th Asian Control Conference. 2002, Singapore.