Mass spectrometry underpinning synthetic biology, industrial biotechnology and world class bioscience
Lead Research Organisation:
University of Sheffield
Department Name: Chemical & Biological Engineering
Abstract
The application of biological mass spectrometry, in particular in the field of proteomics has revolutionised the ability of study a wide range of biological systems and answer important questions. Biological mass spectrometry is of central importance and currently underpins a diverse range of studies, across a wide range of biological systems. Within the Department of Chemical and Biological Engineering (CBE) we have significant expertise in the application of mass spectrometry approaches and have used this technology to answer important questions including; 1) how bacteria defend themselves from viruses 2) protein organisation in photosynthesis 3) how can we optimise cells to produce important products.
The Q Exactive Plus instrument is new to market (released Sept 2013) and provides the opportunity for the University of Sheffield and it's research partners to make a step-change in the scope of research activities. The instruments unique features will accelerate our academic and industrial research.
Underpinning our strong industry connections, the University of Sheffield has recently established an Advanced Biomanufacturing Centre (ABC). Arising from the Dept of Chemical and Biological Engineering, the aim is to develop interdisciplinary industrially-relevant research for biomanufacturing and bioprocessing within the UK bioindustry. The proposed instrument will be a critical asset; underpinning research associated with biomanufacturing and bioprocess development and will underpin an extensive portfolio of current BBSRC funded research, demonstrating the huge value of the equipment.
The Q Exactive Plus instrument is new to market (released Sept 2013) and provides the opportunity for the University of Sheffield and it's research partners to make a step-change in the scope of research activities. The instruments unique features will accelerate our academic and industrial research.
Underpinning our strong industry connections, the University of Sheffield has recently established an Advanced Biomanufacturing Centre (ABC). Arising from the Dept of Chemical and Biological Engineering, the aim is to develop interdisciplinary industrially-relevant research for biomanufacturing and bioprocessing within the UK bioindustry. The proposed instrument will be a critical asset; underpinning research associated with biomanufacturing and bioprocess development and will underpin an extensive portfolio of current BBSRC funded research, demonstrating the huge value of the equipment.
Technical Summary
Within the emerging areas of synthetic biology and industrial biotechnology, the development and application of high-throughput, quantitative biological mass spectrometry (MS) approaches will underpin established and potential research in these critically important areas. However, the demand for increased throughput, unmatched sensitivity and quantitative applications of biological MS will require new instrumentation that is not currently available at the University of Sheffield.
The Q Exactive Plus instrument is new to market (released Sept 2013) and provides the opportunity for the University of Sheffield and it's research partners to make a step-change in the scope of research activities. The instruments unique features, allow for targeted quantification of peptides, small molecules and nucleic acids and delivers high throughput, targeted quantitation combined with high-resolution accurate-mass data, that will accelerate our academic and industrial research. Fast polarity switching, parallel reaction monitoring (PRM), high-resolution accurate-mass selected ion monitoring (HR/AM-SIM) are just some of the techniques we will employ to our systems biology research with enhanced sensitivity and selectivity.
The proposed instrument will underpin an extensive portfolio of current BBSRC funded research, demonstrating the huge value of the equipment. Moreover, this will facilitate new and novel research opportunities and new impacts within industrial biotechnology, synthetic biology, and world leading bioscience. Furthermore, the proposed instrument will be a critical asset in the recently established Advanced Biomanufacturing Centre; underpinning research associated with biomanufacturing and bioprocess development. This will enable a step change in the biological MS workflows and analytical capability for users (academic and industrial), beyond current through-put and quantitation limitations, as a complement to existing assets.
The Q Exactive Plus instrument is new to market (released Sept 2013) and provides the opportunity for the University of Sheffield and it's research partners to make a step-change in the scope of research activities. The instruments unique features, allow for targeted quantification of peptides, small molecules and nucleic acids and delivers high throughput, targeted quantitation combined with high-resolution accurate-mass data, that will accelerate our academic and industrial research. Fast polarity switching, parallel reaction monitoring (PRM), high-resolution accurate-mass selected ion monitoring (HR/AM-SIM) are just some of the techniques we will employ to our systems biology research with enhanced sensitivity and selectivity.
The proposed instrument will underpin an extensive portfolio of current BBSRC funded research, demonstrating the huge value of the equipment. Moreover, this will facilitate new and novel research opportunities and new impacts within industrial biotechnology, synthetic biology, and world leading bioscience. Furthermore, the proposed instrument will be a critical asset in the recently established Advanced Biomanufacturing Centre; underpinning research associated with biomanufacturing and bioprocess development. This will enable a step change in the biological MS workflows and analytical capability for users (academic and industrial), beyond current through-put and quantitation limitations, as a complement to existing assets.
Planned Impact
The aim of this proposal is to purchase a new mass spectrometer. The primary impact of the proposal will result from the research that we propose to carry out in the immediate future. Furthermore, it is expected that further impact will result from new and novel research opportunities and new impacts within industrial biotechnology, synthetic biology, and world leading bioscience areas.
The projects that focus on the areas of Industrial Biotechnology/ Synthetic Biology are of direct relevance to UK bioindustry and a wide range of the proposed research will be of fundamental importance to pharmaceutical / biopharmaceutical industries, with more immediate impact than those addressing more fundamental science. The proposed equipment will support projects aimed at developing biological medicines including protein therapeutics produced by E. coli and mammalian cells in culture. It will also support projects related to the identification and characterisation of oligonucleotide therapeutics. As part of the proposed research, methods will be generated that can be implemented immediately to reduce time and costs spent in the creation of biomanufacturing systems - this represents a clear economic benefit and increased capability and competitiveness for UK bioindustry.
In addition, the equipment will underpin a number of projects relating to more fundamental science that are likely to have more longer term impact, however will benefit those pharmaceutical companies including those developing novel antifungal agents and Health professionals preventing and managing C. albicans infection. In order to generate suitable therapeutics for treatment of disorders involving mRNA export it will be essential to understand the specific roles of target proteins in this process. This study will greatly expand our knowledge in this area and identify new potential targets for future therapeutic interventions involving mRNA export diseases. The understanding of photosynthesis is of fundamental importance as the basis of life on Earth, but also has the potential to impact upon the search for a sustainable energy future.
The new mass spectrometer will facilitate training in cutting edge mass spectrometry and inter-disciplinary science. As part of the Advanced Biomanufacturing Centre at the University of Sheffield, the aim is to develop interdisciplinary industrially-relevant research for biomanufacturing and bioprocessing within the UK bioindustry. The proposed instrument will be a critical asset underpinning research associated with biomanufacturing and bioprocess development. We will provide highly skilled PhD students and PDRAs capable of working in this inter-disciplinary environment throughout the UK. The new instrument will attract new users from other Universities and Industry who will benefit from the excellent training environment.
The projects that focus on the areas of Industrial Biotechnology/ Synthetic Biology are of direct relevance to UK bioindustry and a wide range of the proposed research will be of fundamental importance to pharmaceutical / biopharmaceutical industries, with more immediate impact than those addressing more fundamental science. The proposed equipment will support projects aimed at developing biological medicines including protein therapeutics produced by E. coli and mammalian cells in culture. It will also support projects related to the identification and characterisation of oligonucleotide therapeutics. As part of the proposed research, methods will be generated that can be implemented immediately to reduce time and costs spent in the creation of biomanufacturing systems - this represents a clear economic benefit and increased capability and competitiveness for UK bioindustry.
In addition, the equipment will underpin a number of projects relating to more fundamental science that are likely to have more longer term impact, however will benefit those pharmaceutical companies including those developing novel antifungal agents and Health professionals preventing and managing C. albicans infection. In order to generate suitable therapeutics for treatment of disorders involving mRNA export it will be essential to understand the specific roles of target proteins in this process. This study will greatly expand our knowledge in this area and identify new potential targets for future therapeutic interventions involving mRNA export diseases. The understanding of photosynthesis is of fundamental importance as the basis of life on Earth, but also has the potential to impact upon the search for a sustainable energy future.
The new mass spectrometer will facilitate training in cutting edge mass spectrometry and inter-disciplinary science. As part of the Advanced Biomanufacturing Centre at the University of Sheffield, the aim is to develop interdisciplinary industrially-relevant research for biomanufacturing and bioprocessing within the UK bioindustry. The proposed instrument will be a critical asset underpinning research associated with biomanufacturing and bioprocess development. We will provide highly skilled PhD students and PDRAs capable of working in this inter-disciplinary environment throughout the UK. The new instrument will attract new users from other Universities and Industry who will benefit from the excellent training environment.
Organisations
- University of Sheffield (Lead Research Organisation)
- AstraZeneca (Collaboration)
- QUEEN MARY UNIVERSITY OF LONDON (Collaboration)
- Syngenta International AG (Collaboration)
- Porton Biopharma Ltd (Collaboration)
- University of South Bohemia (Collaboration)
- Australian National University (ANU) (Collaboration)
- Thermo Fisher Scientific (United Kingdom) (Collaboration)
- Wageningen University & Research (Collaboration)
- GlaxoSmithKline (GSK) (Collaboration)
- UNIVERSITY OF CAMBRIDGE (Collaboration)
- GreenLight Biosciences, Inc. (Collaboration)
Publications
Al-Majdoub ZM
(2020)
Mass spectrometry-based abundance atlas of ABC transporters in human liver, gut, kidney, brain and skin.
in FEBS letters
Bischof LF
(2018)
Early Response of Sulfolobus acidocaldarius to Nutrient Limitation.
in Frontiers in microbiology
Chen GE
(2021)
How the O2-dependent Mg-protoporphyrin monomethyl ester cyclase forms the fifth ring of chlorophylls.
in Nature plants
Chen GE
(2016)
Two Unrelated 8-Vinyl Reductases Ensure Production of Mature Chlorophylls in Acaryochloris marina.
in Journal of bacteriology
Chidgey JW
(2017)
PufQ regulates porphyrin flux at the haem/bacteriochlorophyll branchpoint of tetrapyrrole biosynthesis via interactions with ferrochelatase.
in Molecular microbiology
Close ED
(2016)
Nucleic acid separations using superficially porous silica particles.
in Journal of chromatography. A
Cole J
(2021)
Pneumolysin Is Responsible for Differential Gene Expression and Modifications in the Epigenetic Landscape of Primary Monocyte Derived Macrophages.
in Frontiers in immunology
Cole J
(2019)
Comparison of data-acquisition methods for the identification and quantification of histone post-translational modifications on a Q Exactive HF hybrid quadrupole Orbitrap mass spectrometer.
in Rapid communications in mass spectrometry : RCM
Cole J
(2016)
The therapeutic potential of epigenetic manipulation during infectious diseases.
in Pharmacology & therapeutics
Couto N
(2019)
Quantification of Proteins Involved in Drug Metabolism and Disposition in the Human Liver Using Label-Free Global Proteomics
in Molecular Pharmaceutics
Couto N
(2021)
Label-Free Quantitative Proteomics and Substrate-Based Mass Spectrometry Imaging of Xenobiotic Metabolizing Enzymes in Ex Vivo Human Skin and a Human Living Skin Equivalent Model
in Drug Metabolism and Disposition
Evans C
(2022)
Metastasising Fibroblasts Show an HDAC6-Dependent Increase in Migration Speed and Loss of Directionality Linked to Major Changes in the Vimentin Interactome
in International Journal of Molecular Sciences
Farmer DA
(2019)
The ChlD subunit links the motor and porphyrin binding subunits of magnesium chelatase.
in The Biochemical journal
Flannery S
(2023)
STN7 is not essential for developmental acclimation of Arabidopsis to light intensity
in The Plant Journal
Flannery SE
(2021)
Developmental acclimation of the thylakoid proteome to light intensity in Arabidopsis.
in The Plant journal : for cell and molecular biology
Flannery SE
(2021)
Comparative proteomics of thylakoids from Arabidopsis grown in laboratory and field conditions.
in Plant direct
Flores C
(2019)
The alternative sigma factor SigF is a key player in the control of secretion mechanisms in Synechocystis sp. PCC 6803.
in Environmental microbiology
Gervais D
(2015)
Structural Characterisation of Non-Deamidated Acidic Variants of Erwinia chrysanthemi L-asparaginase Using Small-Angle X-ray Scattering and Ion-Mobility Mass Spectrometry.
in Pharmaceutical research
Hadfield TL
(2016)
AOAC SMPR(®) 2016.006.
in Journal of AOAC International
Hitchcock A
(2016)
Biosynthesis of Chlorophyll a in a Purple Bacterial Phototroph and Assembly into a Plant Chlorophyll-Protein Complex.
in ACS synthetic biology
Hoffmann L
(2019)
Structure and interactions of the archaeal motility repression module ArnA-ArnB that modulates archaellum gene expression in Sulfolobus acidocaldarius.
in The Journal of biological chemistry
Hollingshead S
(2016)
Synthesis of Chlorophyll-Binding Proteins in a Fully Segregated ?ycf54 Strain of the Cyanobacterium Synechocystis PCC 6803.
in Frontiers in plant science
Hough J
(2022)
Strategies for the production of dsRNA biocontrols as alternatives to chemical pesticides.
in Frontiers in bioengineering and biotechnology
Description | This grant was used to fund a new mass spectrometer to underpin a broad range of BBSRC research and facilitate new research opportunities focussing on synthetic biology, industrial biotechnology and world leading bioscience. The instrument has been successfully utilised to underpin a wide number of important research projects focussing on synthetic biology, industrial biotechnology and world leading bioscience. Research carried out on the instrument established new networks, collaborations and partnerships and increased our research capability. In addition data generated on this instrument has resulted in a number of publications. The funding has also enabled collaborations to be established with Industry in the areas of Industrial Biotechnology/Synthetic Biology highlighting the importance to pharmaceutical / biopharmaceutical sector. Research on the instrument is essential for a number of collaborations including GSK, MedImmune, Syngenta, Lonza andPorton Biopharma. We have developed and utilised a wide number of new analytical methods on the instrument. In addition we have trained a large number of researchers in the operation, maintenance and data analysis on the new instrument. |
Exploitation Route | Research performed on the instrument supported by this award is of direct and immediate relevance to bioindustrial partners in the Bioprocessing Research Industry Club (BRIC). In addition data generated and methods developed utilising this instrument have published (see publications). Furthermore findings have been presented at important academic conferences in both the UK and USA. |
Sectors | Agriculture Food and Drink Energy Environment Healthcare Manufacturing including Industrial Biotechology Pharmaceuticals and Medical Biotechnology |
Description | Research supported by this grant for a new mass spectrometer was used underpin a broad range research including synthetic biology, industrial biotechnology and world leading bioscience. The one year award has only recently finished and much of the economic/societal impact is expected over the next few years relating to this award. The award has facilitated knowledge exchange, collaborations and potential translation of research outcomes and technology developed. In particular a number of research projects resulted in Industrial impact in collaboration with UK bioindustry including the pharmaceutical / biopharmaceutical sector. The instrument facilitated further engagement and the development of interdisciplinary industrially-relevant research for biomanufacturing and bioprocessing within the UK bioindustry. |
First Year Of Impact | 2016 |
Sector | Agriculture, Food and Drink,Energy,Healthcare,Manufacturing, including Industrial Biotechology,Pharmaceuticals and Medical Biotechnology |
Impact Types | Societal Economic |
Description | BBSRC industrial CASE studentship |
Amount | £95,042 (GBP) |
Funding ID | BB/N504099/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 08/2015 |
End | 09/2019 |
Description | Development of a robust process analytical platform for the synthesis, purification and characterization of dsRNA |
Amount | £300,000 (GBP) |
Organisation | Syngenta International AG |
Sector | Private |
Country | Switzerland |
Start | 07/2014 |
End | 07/2017 |
Title | Mass Spectrometry method histone PTMs |
Description | Optimised mass spectrometry based method using a QExactive HF Orbitrap mass spectrometer for the quantification and identification of histone PTMs |
Type Of Material | Technology assay or reagent |
Year Produced | 2019 |
Provided To Others? | Yes |
Impact | We have used this method to perform a comprehensive analysis of histone PTMs in Chinese Hamster Ovary cells in collaboration with Prof David James at the University of Sheffield. |
URL | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6519233/ |
Title | Purification and characterisation of dsRNA using ion pair reverse phase chromatography and mass spectrometry. |
Description | Here we have developed analytical methods that enable the rapid purification of dsRNA from associated impurities from bacterial cells in conjunction with downstream analyses. We have optimised TRIzol extractions in conjunction with a single step protocol to remove contaminating DNA and ssRNA, using RNase T1/DNase I digestion under high-salt conditions in combination with solid phase extraction to purify the dsRNA. In addition, we have utilised and developed IP RP HPLC for the rapid, high resolution analysis of the dsRNA. Furthermore, we have optimised base-specific cleavage of dsRNA by RNase A and developed a novel method utilising RNase T1 for RNase mass mapping approaches to further characterise the dsRNA using liquid chromatography interfaced with mass spectrometry. |
Type Of Material | Technology assay or reagent |
Year Produced | 2017 |
Provided To Others? | Yes |
Impact | This research method has been adopted by Industrial collaborators Syngenta |
Title | RNASwift |
Description | RNASwift is an inexpensive, versatile method for the rapid extraction of RNA. RNASwify does not use hazardous chemicals including phenol, chloroform and formamide which are often used in traditional RNA extraction methods. RNASwift is versatile; the same simple reagents can be used to rapidly extract RNA from a variety of different cells including bacterial, yeast and mammalian cells. In addition to the extraction of total RNA, the RNASwift method can also be used to extract double stranded RNA from genetically modified E. coli in higher yields compared to alternative methods. |
Type Of Material | Technology assay or reagent |
Year Produced | 2016 |
Provided To Others? | Yes |
Impact | The methods has been adopted by a wide number of users including industrial including Syngenta and Greenlight bioscience. This approach has economic benefits to the users and societal benefits. |
URL | https://www.sciencedirect.com/science/article/pii/S0003269716302196?via%3Dihub |
Title | PRIDE PXD002638 |
Description | Mass spectrometry raw data deposited at PRIDE relating to the publication Hitchcock A, Jackson PJ, Chidgey JW, Dickman MJ, Hunter CN, Canniffe DP. Biosynthesis of Chlorophyll a in a Purple Bacterial Phototroph and Assembly into a Plant Chlorophyll-Protein Complex. ACS Synth Biol. 2016 May 24 PubMed: 27171912 |
Type Of Material | Database/Collection of data |
Year Produced | 2016 |
Provided To Others? | Yes |
Impact | Mass spectrometry data used in the following publication Hitchcock A, Jackson PJ, Chidgey JW, Dickman MJ, Hunter CN, Canniffe DP. Biosynthesis of Chlorophyll a in a Purple Bacterial Phototroph and Assembly into a Plant Chlorophyll-Protein Complex. ACS Synth Biol. 2016 May 24 PubMed: 27171912 |
URL | https://www.ebi.ac.uk/pride/archive/projects/PXD002638 |
Title | PRIDE PXD007825 |
Description | Mass spectrometry raw deposited in PRIDE for the following publication Kaneva IN, Longworth J, Sudbery PE, Dickman MJ.Quantitative Proteomic Analysis in Candida albicans Using SILAC-Based Mass Spectrometry.DOI: 10.1002/pmic.201700278 |
Type Of Material | Database/Collection of data |
Year Produced | 2018 |
Provided To Others? | Yes |
Impact | Mass spectrometry raw data used in the following publication Kaneva IN, Longworth J, Sudbery PE, Dickman MJ.Quantitative Proteomic Analysis in Candida albicans Using SILAC-Based Mass Spectrometry.DOI: 10.1002/pmic.201700278 |
Title | PRIDE Project PXD003139 |
Description | Mass spectrometry raw data sets deposited at PRIDE for data used in Chen GE, Hitchcock A, Jackson PJ, Chaudhuri RR, Dickman MJ, Hunter CN, Canniffe DP. Two unrelated 8-vinyl reductases ensure production of mature chlorophylls in Acaryochloris marina. J Bacteriol. 2016 Feb 22 |
Type Of Material | Database/Collection of data |
Year Produced | 2016 |
Provided To Others? | Yes |
Impact | N/A |
URL | https://www.ebi.ac.uk/pride/archive/projects/PXD003139 |
Title | PRIDE Project PXD003149 |
Description | Mass spectrometry raw data deposited at PRIDE relating to Hollingshead S, Kopecná J, Armstrong DR, Bucinská L, Jackson PJ, Chen GE, Dickman MJ, Williamson MP, Sobotka R, Hunter CN. Synthesis of Chlorophyll-Binding Proteins in a Fully Segregated ?ycf54 Strain of the Cyanobacterium Synechocystis PCC 6803. Front Plant Sci. 2016 Mar 17;7:292. eCollection 2016 |
Type Of Material | Database/Collection of data |
Year Produced | 2016 |
Provided To Others? | Yes |
Impact | Mass spectrometry data was used in the following publication- Hollingshead S, Kopecná J, Armstrong DR, Bucinská L, Jackson PJ, Chen GE, Dickman MJ, Williamson MP, Sobotka R, Hunter CN. Synthesis of Chlorophyll-Binding Proteins in a Fully Segregated ?ycf54 Strain of the Cyanobacterium Synechocystis PCC 6803. Front Plant Sci. 2016 Mar 17;7:292. eCollection 2016 |
URL | https://www.ebi.ac.uk/pride/archive/projects/PXD003149 |
Description | Collaboration with Greenlight Bioscience, Boston USA |
Organisation | GreenLight Biosciences, Inc. |
Country | United States |
Sector | Private |
PI Contribution | Provided technical expertise, research direction and consultancy. Contributed to transfer of technology and methods developed in my laboratory to the industrial partner |
Collaborator Contribution | Provided experimental samples/systems for study at the University of Sheffield |
Impact | Multidisciplinary encompassing biological engineering, biomanufacturing, analytical chemistry and agritechnology. Outcomes included transfer of technology developed in my laboratory to the industrial partner. The company is now using the methods/technology we developed for their applications enabling solutions, increasing throughput and economic benefits to the company. |
Start Year | 2017 |
Description | Collaboration with Medimmune |
Organisation | AstraZeneca |
Department | MedImmune |
Country | United Kingdom |
Sector | Private |
PI Contribution | We have initiated a collaboration with Medimmune, providing expertise and advice for future research plans within Medimmune. We have discussed potential research opportunites using the technology we have developed and applications to analyse current materials being developed at Medimmune. |
Collaborator Contribution | The industrial partners are providing materials to be sent to Sheffield to be analysed |
Impact | Multi-disciplinary project across the physical-life science interface. Disciplines included manufacturing, analytical chemistry and life science. Production of RNA therapeutics/medicines and characterisation using bioanalytical tools. |
Start Year | 2018 |
Description | Collaboration with Paul Hurd, Queen Mary University London |
Organisation | Queen Mary University of London |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | As part of this award we developed new tools for the analysis of histone PTMs. Based on this method this helped develop a collaboration with Dr Paul Hurd and QM London to apply this method to his biological system of interest. |
Collaborator Contribution | Partners provided material that was analysed by our new methods. |
Impact | Multidisciplinary collaboration across the physical -life science interface. We have developed novel analytical methods that are used in collaboration with our Dr Hurd to analyse histone PTMs in honeybees and bumblebees |
Start Year | 2015 |
Description | International collaboration with Wageningen University, The Netherlands |
Organisation | Wageningen University & Research |
Country | Netherlands |
Sector | Academic/University |
PI Contribution | During the course of this study and the work developed facilitated the collaboration with international partners at the Laboratory of Microbiology, Department of Agrotechnology and Food Sciences, Wageningen University, Wageningen, The Netherlands. This work enabled the collaboration on the CRISPR/Cas system using the developed methodology of the funded research. The collaboration with the Wageningen group facilitated the application and development of novel approaches for the direct purification of RNA from RNA/protein complexes prior to MS analysis. The collaboration enabled the development of novel analytical techniques (in Sheffield) to study the relevant biological system (Wageningen). This resulted in a number of publications from the collaborative work. |
Collaborator Contribution | Collaborators provided materials for analysis using our analytical methods. |
Impact | Publications doi: 10.1042/BJ20131474 doi: 10.1093/nar/gkx1264; doi:10.1073/pnas.1111854108; doi: 10.1038/nsmb.2019; doi: 10.1126/science.1159689. |
Start Year | 2008 |
Description | Research Collaboration with GSK |
Organisation | GlaxoSmithKline (GSK) |
Department | Research and Development GSK |
Country | United Kingdom |
Sector | Private |
PI Contribution | Development of 2DLC methods for the analysis of therapeutic oligonucleotides. |
Collaborator Contribution | Industrial partner provides research supervision and direction, In addition industrial partner provides samples for use in the research projects |
Impact | PhD CASE studentship award (BBSRC) (BB/K501086/1) Nucleic acid separations using superficially porous silica particles. Close ED, Nwokeoji AO, Milton D, Cook K, Hindocha DM, Hook EC, Wood H, Dickman MJ. J Chromatogr A. 2016 Apr 1;1440:135-44. doi: 10.1016/j.chroma.2016.02.057. Multidisciplinary collaboration across life science/physical science interface |
Start Year | 2012 |
Description | Research collaboration with Australian National Laboratory |
Organisation | Australian National University (ANU) |
Department | College of Medicine, Biology & Environment (CMBE) |
Country | Australia |
Sector | Academic/University |
PI Contribution | Development and application of novel bioseparations and mass spectrometry analysis. Applications to a number of different biological systems including identification and quantification of histone PTMs and RNA modifications |
Collaborator Contribution | Collaborators provided samples for LC MS analysis. |
Impact | Extensive histone post-translational modification in honey bees Dickman MJ, Kucharski R, Maleszka R, Hurd PJ. Insect Biochem Mol Biol. 2013 Feb;43(2):125-37. doi: 10.1016/j.ibmb.2012.11.003. Epub 2012 Nov 20. Multidisciplinary collaboration across the physical sciences (bioanalytical) and life sciences (honeybee biology and environment) |
Start Year | 2010 |
Description | Research collaboration with Gurdon Institute, University of Cambridge |
Organisation | University of Cambridge |
Department | Gurdon Institute |
Country | United Kingdom |
Sector | Charity/Non Profit |
PI Contribution | As part of this collaboration we performed mass spectrometry analysis on wide range of samples, including quantitative proteomic analysis using SILAC. The collaboration utilised the MS equipment on the grant and additional data and bioinformatic analysis. |
Collaborator Contribution | Research partners generated the samples using affinity pulldowns using designed nucleic acids probes with specific nucleic acid modifications. |
Impact | This is a multidisciplinary collaboration across the physical science-life science interface. |
Start Year | 2014 |
Description | Research collaboration with Porton Biopharma LTD |
Organisation | Porton Biopharma LTD |
Country | United Kingdom |
Sector | Private |
PI Contribution | Provided analytical support including HPLC and mass spectrometry analysis. |
Collaborator Contribution | Provided appropriated samples and research discussions. |
Impact | Structural Characterisation of Non-Deamidated Acidic Variants of Erwinia chrysanthemi L-asparaginase Using Small-Angle X-ray Scattering and Ion-Mobility Mass Spectrometry. Gervais D, King D, Kanda P, Foote N, Elliott L, Brown P, Lee NO, Thalassinos K, Pizzey C, Rambo R, Minshull TC, Dickman MJ, Smith S. Pharm Res. 2015 Nov;32(11):3636-48. doi: 10.1007/s11095-015-1722-2. Epub 2015 Jun 4. |
Start Year | 2015 |
Description | Research collaboration with Roman Sobotka (University of South Bohemia, Czech Republic) |
Organisation | University of South Bohemia |
Country | Czech Republic |
Sector | Academic/University |
PI Contribution | Mass spectrometry has been used to underpin a number of important investigations in collaboration with Roman Sobotka (University of South Bohemia, Czech Republic). WE have used both qualitative and quantitative mass spectrometry studies on the QExactive HF instrument to provide further Investigation of protein profiles across a light-dark time-course in Synechocystis.In addition we have used MS to determine the stoichiometry of interaction partners in FLAG-ChlG, FLAG-Ycf39 and His-ChlG pulldown experiments using QconCAT-based quantification. |
Collaborator Contribution | The collaborators provided samples for MS analysis. |
Impact | This is multidisciplinary collaboration across the life science and physical science interface. |
Start Year | 2016 |
Description | Research collaboration with ThermoFisher |
Organisation | Thermo Fisher Scientific |
Country | United States |
Sector | Private |
PI Contribution | Development and application of novel HPLC methods for the analysis of nucleic acids. |
Collaborator Contribution | Industrial partner provides novel stationary phases and chromatography columns to evaluate and develop for nucleic acid separations |
Impact | Nucleic acid separations using superficially porous silica particles Elizabeth D. Close, Alison O. Nwokeoji, Dafydd Milton, Ken Cook, Darsha M. Hindocha, Elliot C. Hook, Helen Wood, Mark J. Dickman, In press. doi:10.1016/j.chroma.2016.02.057 |
Start Year | 2010 |
Description | Syngenta |
Organisation | Syngenta International AG |
Country | Switzerland |
Sector | Private |
PI Contribution | We have a partnership with Syngenta to develop and optimise analytical tools for the analysis of nucleic acids |
Collaborator Contribution | Syngenta provide research support, supervision, funding and materials for analysis |
Impact | doi: 10.1016/j.ab.2016.08.001; doi: 10.1016/j.chroma.2016.12.062; doi: 10.1002/rcm.8074; doi: 10.1021/acs.analchem.7b04000 Multi-disciplinary collaboration -chemistry/life science/engineering. Research focuses on the development of analytical methods, biomanufacturing and synthetic biology approaches. Direct Research funding from Syngenta £400,000 awarded to Prof M Dickman (3 grants) BBSRC Industrial CASE award (BB/N504099/1) Prof M Dickman £95,000; Industrial CASE Studentship from the EPSRC National Productivity Fund with Syngenta £95,00 Prof M Dickman EPSRC HEFCE Catalyst Studentship-Prof M Dickman |
Start Year | 2012 |
Description | BRIC updates |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | Research presentations at 6-monthly BRIC dissemination meetings (2015/2016) to demonstrate the methods developed and data generated on to a wide audience in the biopharmaceutical/biomanufacturing sector. 50-100 delagates were present from both academic/industrial and all BRIC partners. Outcomes included demonstration of research capability and methods, networking and establishing industrial collaborations/partnerships. |
Year(s) Of Engagement Activity | 2015,2016 |
URL | http://www.bbsrc.ac.uk/innovation/sharing-challenges/bric/ |
Description | Honeybee media press release |
Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Public/other audiences |
Results and Impact | Press release /media interviews to disseminate research finding to wide audience including the general public. High level of media coverage including articles both national and international (University of Sheffield, Queen Mary University of London, Reddit, Daily Mail and BBC are just a number of examples of the press coverage obtained). |
Year(s) Of Engagement Activity | 2012 |
URL | http://www.bbc.co.uk/news/science-environment-20667948 |
Description | Invited seminar Queen Mary University of London |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Professional Practitioners |
Results and Impact | Approx 50 people attended including undergraduate, postgraduate students in addition of academic staff. Following seminar questions and discussion followed and future collaborative work was discussed with members of staff and the University. |
Year(s) Of Engagement Activity | 2016 |
Description | Research seminar at Syngenta, Jealott's Hill, Berkshire 2017 |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | Research presentation at Syngenta. Industry audience 11-50 members, including international attendees via weblink conference across the global company . Outcome/impacts include discussions for further funding and dissemination of research impact. |
Year(s) Of Engagement Activity | 2017 |
Description | UCAS Schools visit |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Schools |
Results and Impact | Each year 50-200 UCAS school children visit the Dept. As part of the UCAS visit a short tour of the labs and an overview of my current research was provided and current research project taken by undergraduate students. The talk was followed by discussion and questions. Enabled the Dept to build links with a number of schools for further outreach activities |
Year(s) Of Engagement Activity | Pre-2006,2006,2007,2008,2009,2010,2011,2012,2013,2014,2015,2016 |
Description | Visit to Greenlight Bioscience |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | Research presentation at Greenlight Bioscience in Boston, USA and expert panel discussions focussed on research activities and implementation of technology from my laboratory. Impact included the company now is using the technology/methods we developed. |
Year(s) Of Engagement Activity | 2017 |
Description | • Invited Conference Seminar, KTN's Biopharmaceutical Analytical Group Symposium, Leeds, UK March 15 |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | Conference presentation at a Knowledge transfer network meeting- KTN's Biopharmaceutical Analytical Group Symposium Outcomes-Dissemination of research and methods to a wide audience including industry and academia. Established new collaborations with both industrial and academic partners. Increased interest in the methods we have developed and future research opportunities. |
Year(s) Of Engagement Activity | 2015 |
Description | • Working party/invited seminar with Syngenta LTD (UK and Ghent, Belgium) 2015 |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | Research presentation and research discussions as part of working group party established with Syngenta (both in the UK and Ghent, Belgium). Outcomes-established/enhanced collaboration with industrial partner Syngenta. Outcomes dissemination of novel methods and techniques developed in our laboratory. Led to further funding from the industrial partner and future research plans. |
Year(s) Of Engagement Activity | 2015 |