14-PSIL MAGIC: a multi-tiered approach to gaining increased carbon
Lead Research Organisation:
University of Glasgow
Department Name: College of Medical, Veterinary, Life Sci
Abstract
In the Calvin-Benson cycle of plants, the enzyme RuBisCO fixes CO2 to produce two molecules of 3-phosphoglycerate. RuBisCO evolved ~3.6bn years ago in an atmosphere of high CO2 and low O2, with little need to discriminate between the two gases. In today's atmosphere RuBisCO fixes both CO2 and O2. The latter generates phosphoglycolate, which is retrieved by photorespiration but at an energy cost that represents a significant loss in photosynthetic efficiency. One method to reduce O2 fixation by RuBisCO is to raise the partial pressure of CO2. Carbon concentrating mechanisms (CCMs) have evolved multiple times to this end. For example, C4 photosynthesis uses phosphoenol-pyruvate carboxylase (PEPC), an enzyme that does not possess oxygenase activity, to fix HCO3- temporarily in C4 acids; cellular specialization allows release and concentration of CO2 for refixing by RuBisCO. As much as a 50% increase in yield might be realized in crops were O2 fixation by RuBisCO to be bypassed in a similar manner. Significant resources have already gone into engineering RuBisCO for increased CO2 selectivity and into introducing a single-celled version of C4 photosynthesis in rice, but a step change in photosynthetic efficiency has not yet been achieved.
Investigators from Universities in the US (John Golbeck (JG), Penn State; and Cheryl Kerfeld (CK), Michigan State) and the UK (Mike Blatt (MB), Glasgow; Nigel Burroughs (NB), Warwick; and Julian Hibberd (JH), Cambridge) participated in an NSF/BBSRC Ideas Laboratory in 2010, at which they proposed a novel strategy to address this problem, a proposal that has since matured to the level of technological implementation. They are now joined by Nick Smirnoff (NS, Exeter) and Manish Kumar (MK, Penn State), who bring additional and key expertise to the project. The research has two themes: a light driven ion pump, composed of halorhodopsin and an anion/HCO3- exchanger, AE1; and the use of artificial scaffolds for channelling CO2 to RuBisCO. A parallel goal is to re-engineer the light-driven ion pump to transport HCO3- directly and to absorb light energy not used by photosynthesis. These efforts are underpinned with mathematical modelling of CO2 delivery and assimilation to direct experimentation based around the following components.
Light-Driven Pump. Halorhodopsin (HR) is an integral membrane protein and consists of 7 transmembrane alpha-helices and a bound retinal. The retinal undergoes light-driven bond rotation between 13-cis and all-trans conformations to drive ion transport. HR transports other halides as well, and ion selectivity appears to be a localized feature of the pHR transport site. pHR is sufficiently promiscuous to make engineering a light-driven HCO3- pump a possibility.
Anion/Bicarbonate Exchanger: The erythrocyte Band3 protein (AE1) facilitates Cl-/HCO3- exchange across the membrane. It generates a high flux close to equilibrium and is largely insensitive to pH, making it well suited to engineering a HCO3- accumulating mechanism. Most promising for synthetic engineering, the AE1 transporter is functional in mammalian cell cultures, Xenopus oocytes, and yeast without adverse effects on homeostasis or growth. The modular structure of AE1, offers a realistic strategy for coupling HCO3- pumping coupled to pHR-driven Cl- transport.
Artificial Scaffolds: CO2 diffusion needs to be constrained locally for sufficient time to allow it to be fixed by RuBisCO. Substrate channelling is found in several natural systems, including plants. Efficiency gains arise from physical proximity and 'sponge'-like buffering that enables transfer of intermediates and minimizes runoff of substrates.
Investigators from Universities in the US (John Golbeck (JG), Penn State; and Cheryl Kerfeld (CK), Michigan State) and the UK (Mike Blatt (MB), Glasgow; Nigel Burroughs (NB), Warwick; and Julian Hibberd (JH), Cambridge) participated in an NSF/BBSRC Ideas Laboratory in 2010, at which they proposed a novel strategy to address this problem, a proposal that has since matured to the level of technological implementation. They are now joined by Nick Smirnoff (NS, Exeter) and Manish Kumar (MK, Penn State), who bring additional and key expertise to the project. The research has two themes: a light driven ion pump, composed of halorhodopsin and an anion/HCO3- exchanger, AE1; and the use of artificial scaffolds for channelling CO2 to RuBisCO. A parallel goal is to re-engineer the light-driven ion pump to transport HCO3- directly and to absorb light energy not used by photosynthesis. These efforts are underpinned with mathematical modelling of CO2 delivery and assimilation to direct experimentation based around the following components.
Light-Driven Pump. Halorhodopsin (HR) is an integral membrane protein and consists of 7 transmembrane alpha-helices and a bound retinal. The retinal undergoes light-driven bond rotation between 13-cis and all-trans conformations to drive ion transport. HR transports other halides as well, and ion selectivity appears to be a localized feature of the pHR transport site. pHR is sufficiently promiscuous to make engineering a light-driven HCO3- pump a possibility.
Anion/Bicarbonate Exchanger: The erythrocyte Band3 protein (AE1) facilitates Cl-/HCO3- exchange across the membrane. It generates a high flux close to equilibrium and is largely insensitive to pH, making it well suited to engineering a HCO3- accumulating mechanism. Most promising for synthetic engineering, the AE1 transporter is functional in mammalian cell cultures, Xenopus oocytes, and yeast without adverse effects on homeostasis or growth. The modular structure of AE1, offers a realistic strategy for coupling HCO3- pumping coupled to pHR-driven Cl- transport.
Artificial Scaffolds: CO2 diffusion needs to be constrained locally for sufficient time to allow it to be fixed by RuBisCO. Substrate channelling is found in several natural systems, including plants. Efficiency gains arise from physical proximity and 'sponge'-like buffering that enables transfer of intermediates and minimizes runoff of substrates.
Technical Summary
We are building on progress that includes expression of pHR in E. coli, cyanobacteria and plants. These advances have put us in a strong position to deliver within the next few years. Mathematical modeling has validated the idea of using a light-driven ion pump for concentrating CO2; it now remains to assemble and express these pumps and validate function in chloroplasts. The idea to use scaffolds to concentrate CO2 at RuBisCO remains a goal, but our strategies have changed in light of new understanding of the interplay between diffusion and kinetics. We have successfully expressed scaffold proteins in cyanobacteria and plants, demonstrating that they can be both targeted to specific sites and that they function to recruit their respective substrates. Our mathematical models predict that the original idea of utilizing these constructs to enhance channeling of CO2 to RuBisCO will have negligible impact on CO2 assimilation. We need now to confirm this prediction in our cyanobacterial systems. A rethinking of the problem of concentrating CO2 at RuBisCO in C3 plants leads to development of a new approach. Our mathematical models highlight the poor CO2 capture probability of RuBisCO as a major constraint. Here, we propose designs to slow the diffusion rate of CO2 in the stroma and increase assimilation by introducing transient (stationary) binding sites near RuBisCO (a CO2 'sponge'), effectively enhancing the native characteristics recently identified in photosynthetic systems. We will use the cyanobacterial system to screen and optimize this approach and will use the scaffolds now proven in our hands to translate these to chloroplasts. Finally, we previously lacked the ability to quantify performance, ie. HCO3- concentration gains. This capability is now available through a lipid vesicle technique.
Planned Impact
This proposal is for fundamental research to develop new conceptual approaches relevant to ideas emerging within the international plant, systems and synthetic biology communities. The research will stimulate thinking around strategies for modelling and for applications of synthetic biology in plants, especially in relation to photosynthesis, and it should strengthen methodologies relevant at many levels from cell to crop engineering. Thus, the research is expected to benefit fundamental researchers and, in the longer-term agriculture and industry, through conceptual developments and approaches to improving carbon capture by plants. The research will feed into higher education training programmes through capacity building at the postgraduate and postdoctoral levels. Additional impact is proposed through public displays and the development of teaching resources building on the background work for this proposal. Finally the research will help guide future efforts in applications to agricultural/industrial systems. The applicants have established links with industrial/technology transfer partners and research institutes to take advantage of these developments. Further details of these, and additional impacts will be found in Part 1 of the Case for Support and in the attached Impact Pathways.
People |
ORCID iD |
Michael Blatt (Principal Investigator) |
Publications
Martin C
(2014)
Plant Physiology and The Plant Cell Go Online Only
in Plant Physiology
Blatt M
(2016)
Plant Physiology 90th Anniversary.
in Plant physiology
Papanatsiou M
(2019)
Optogenetic manipulation of stomatal kinetics improves carbon assimilation, water use, and growth.
in Science (New York, N.Y.)
Chen ZH
(2016)
Nitrate reductase mutation alters potassium nutrition as well as nitric oxide-mediated control of guard cell ion channels in Arabidopsis.
in The New phytologist
Blatt MR
(2018)
New Faces behind the Scenes.
in Plant physiology
Chen ZH
(2017)
Molecular Evolution of Grass Stomata.
in Trends in plant science
Vialet-Chabrand S
(2016)
Modelling water use efficiency in a dynamic environment: An example using Arabidopsis thaliana.
in Plant science : an international journal of experimental plant biology
Klejchova M
(2021)
Membrane voltage as a dynamic platform for spatiotemporal signaling, physiological, and developmental regulation.
in Plant physiology
Feroz H
(2021)
Liposome-based measurement of light-driven chloride transport kinetics of halorhodopsin.
in Biochimica et biophysica acta. Biomembranes
Feroz H
(2018)
Light-Driven Chloride Transport Kinetics of Halorhodopsin.
in Biophysical journal
Waghmare S
(2019)
K+ Channel-SEC11 Binding Exchange Regulates SNARE Assembly for Secretory Traffic.
in Plant physiology
Papanatsiou M
(2015)
Hydrogen sulfide regulates inward-rectifying K+ channels in conjunction with stomatal closure.
in Plant physiology
Flütsch S
(2020)
Guard Cell Starch Degradation Yields Glucose for Rapid Stomatal Opening in Arabidopsis.
in The Plant cell
Vialet-Chabrand S
(2017)
Global Sensitivity Analysis of OnGuard Models Identifies Key Hubs for Transport Interaction in Stomatal Dynamics.
in Plant physiology
Lefoulon C
(2018)
Gating control and K+ uptake by the KAT1 K+ channel leaveraged through membrane anchoring of the trafficking protein SYP121.
in Plant, cell & environment
Blatt M
(2014)
Focus on Water
in Plant Physiology
Blatt MR
(2014)
Exploring emergent properties in cellular homeostasis using OnGuard to model K+ and other ion transport in guard cells.
in Journal of plant physiology
Cai S
(2017)
Evolutionary Conservation of ABA Signaling for Stomatal Closure.
in Plant physiology
Zhao C
(2019)
Evolution of chloroplast retrograde signaling facilitates green plant adaptation to land.
in Proceedings of the National Academy of Sciences of the United States of America
Riedelsberger J
(2017)
Editorial: Roots-The Hidden Provider.
in Frontiers in plant science
Zhang B
(2019)
Dual Sites for SEC11 on the SNARE SYP121 Implicate a Binding Exchange during Secretory Traffic.
in Plant physiology
Teixeira Da Silva JA
(2016)
Does the Anonymous Voice Have a Place in Scholarly Publishing?
in Plant physiology
Juric I
(2019)
Computational modelling predicts substantial carbon assimilation gains for C3 plants with a single-celled C4 biochemical pump.
in PLoS computational biology
Description | This award builds on previous work towards a synthetic approach to improving photosynthesis in plants. The aim therefore is to provide an strategy for improving plant biomass production for agri-industrial applications and for food production in the face of global environmental change. To date, the main findings have application to academic research, but it is hoped that the knoweldge gained will have other applications in the near future. Major findings to date relate to in silico analysis to assess the limitations to incorporating C4 photosynthesis in C3 plants and the energetics required. These results suggest that permeation through the membrane barriers of the chloroplast and plasma membrane are key factors and are likely to determine the limits of C3-to-C4 conversion. They also suggest that estimates of membrane CO2 permeability are substantially in error based on past calculations. |
Exploitation Route | Guidance for future research directed to photosynthetic engineering |
Sectors | Agriculture Food and Drink Environment Other |
Title | 2in1 vector systems |
Description | Synthetic biology vectors for transient and stable transformation with quantitative visual reporting on cell-by-cell basis |
Type Of Material | Technology assay or reagent |
Year Produced | 2009 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and over 100 research groups worldwide Vector system distributions to more than 500 research groups worldwide |
URL | http://psrg.org.uk |
Title | EZ-Rhizo |
Description | Computer software tool for quantitative measurement and analysis of root growth/development |
Type Of Material | Physiological assessment or outcome measure |
Year Produced | 2010 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | Henry |
Description | Software for electrophysiology and imaging data aquisition and analysis |
Type Of Material | Technology assay or reagent |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | Multicistronic vector systems |
Description | Synthetic biology vector systems for transient and stable transformation for expressing multiple, tagged proteins and for quantitative analysis of membrane traffic and transport |
Type Of Material | Technology assay or reagent |
Year Produced | 2010 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and over 100 research groups worldwide Vector system distributions to more than 500 research groups worldwide |
URL | http://psrg.org.uk |
Title | OnGuard |
Description | Systems biology software for quantitative modelling of cellular transport and homeostasis |
Type Of Material | Physiological assessment or outcome measure |
Year Produced | 2012 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | SUS vector systems |
Description | Synthetic biological vector systems for protein-protein interaction screening |
Type Of Material | Technology assay or reagent |
Year Produced | 2010 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and over 100 research groups worldwide Vector system distributions to more than 500 research groups worldwide |
URL | http://psrg.org.uk |
Title | Software tools for electrophysiology and imaging |
Description | The laboratory continues to develop and refine software/hardware tools for data acquisition and analysis relevant to electrophysiology, single-cell imaging and analysis. These activities are long-standing and open-ended, and develop in line with the current research activities and needs of the laboratory. All software and related packages are made freely available to the research community through the laboratory website at psrg.org.uk |
Type Of Material | Technology assay or reagent |
Provided To Others? | Yes |
Impact | The various software tools and packages have furthered the research activities of the laboratory since the 1990s and continue to provide key support and drivers for advancing much of current research. These tools and packages are disseminated, on average, to over 100 laboratories per year. |
URL | http://psrg.org.uk |
Title | EZ-Rhizo |
Description | Software for quantitative trait analysis and acquisition for root growth/development |
Type Of Material | Database/Collection of data |
Year Produced | 2010 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | Henry |
Description | Software package for electrophysiology and imaging data acquisition and analysis |
Type Of Material | Data handling & control |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | OnGuard |
Description | Quantitative systems biology modelling of cellular transport and homeostasis |
Type Of Material | Computer model/algorithm |
Year Produced | 2012 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Title | SDM-assist |
Description | Software for molecular primer design that enables introduction of silent markers for molecular cloning |
Type Of Material | Data analysis technique |
Year Produced | 2013 |
Provided To Others? | Yes |
Impact | Multiple publications from my own research group and research groups worldwide Online distribution has been accessed through the laboratory website with site views at a rate of >500 per month |
URL | http://psrg.org.uk |
Description | PBL |
Organisation | Plant Bioscience Limited Technology |
Country | United Kingdom |
Sector | Private |
PI Contribution | IPR on ABA receptor technology and ABA signalling |
Collaborator Contribution | Funding related to IPR on ABA receptor technology and ABA signalling |
Impact | Multiple outcomes in publications and industrial contacts |
Description | PSG |
Organisation | POSCO - South Korea |
Country | Korea, Republic of |
Sector | Private |
PI Contribution | Base support for meetings and exchange of materials |
Collaborator Contribution | Base support for meetings and exchange of materials |
Impact | Base support for meetings and exchange of materials |
Title | Software tools and packages for electrophysiology and imaging |
Description | The laboratory continues to develop and refine software/hardware tools for data acquisition and analysis relevant to electrophysiology, single-cell imaging and analysis. These activities are long-standing and open-ended, and develop in line with the current research activities and needs of the laboratory. All software and related packages are made freely available to the research community through the laboratory website at psrg.org.uk |
Type Of Technology | Software |
Impact | The various software tools and packages have furthered the research activities of the laboratory since the 1990s and continue to provide key support and drivers for advancing much of current research. These tools and packages are disseminated, on average, to over 100 laboratories per year. |
URL | http://psrg.org.uk |
Description | International online services |
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 | Prof. Blatt and members of his laboratory have contributed to various media events over the years, including online interview contributions (e.g. People behind the Science, a US-based media program) |
Year(s) Of Engagement Activity | Pre-2006,2006,2008,2011,2015,2016,2017,2018 |
Description | Invited presentations |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Public/other audiences |
Results and Impact | I regularly speak to audiences, from small groups (5-20) to large audiences (>1000) in a variety of settings. In addition to teaching and extramural activities associated with the university, I also speak on invitation to national and international groups a number of times each year and in a variety of settings, academic as well as public. I also reach audiences through short video presentations mounted on the web, these primarily via my laboratory website and the ASPB websites. Anyone reading this entry is welcome to visit these sites to learn more. The impacts arising from my presentations are varied. For example, a common consequence of my speaking in academic settings is to attract potential researchers to visit my laboratory and, frequently, to interest potential collaborators and students/postdocs to my research group. At scientific meetings, my talks often attract interest also from researchers interested in the various tools and materials that my research has produced, including the various vector systems and software packages that I |
Year(s) Of Engagement Activity | Pre-2006,2006,2007,2008,2009,2010,2011,2012,2013,2014,2015,2016,2017,2018 |
URL | http://psrg.org.uk |
Description | Schools and displays |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | Yes |
Geographic Reach | International |
Primary Audience | Public/other audiences |
Results and Impact | As these were multiple events, this question is not informative or useful. Participants varied from numbers in the tens to several thousands Extensive training of participating laboratory members as well as broad scope reach to schools and communities, in the case of the GCC science days to the west of Scotland and in the case of the IFPD activities to audiences within and outside the UK |
Year(s) Of Engagement Activity | 2010,2011,2012,2013,2014,2015,2016,2017,2018 |
URL | http://psrg.org.uk |
Description | Teaching Tools |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | Yes |
Geographic Reach | International |
Primary Audience | Schools |
Results and Impact | The PI has supported the editor in developing these tools since their inception in 2009 and has contributed to recent tools relating to membranes and transport education The Tool received an international award in 2010 for excellence in education and has an acknowledged takeup worldwide in over 3000 institutions |
Year(s) Of Engagement Activity | 2009,2010,2011,2012,2013,2014,2015,2016,2017,2018 |
URL | http://psrg.org.uk |
Description | Teaching Tools |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | Yes |
Geographic Reach | International |
Primary Audience | Schools |
Results and Impact | The PI has supported the editor in developing these tools since their inception in 2009 and has contributed to recent tools relating to membranes and transport education The Tool received an international award in 2010 for excellence in education and has an acknowledged takeup worldwide in over 3000 institutions |
Year(s) Of Engagement Activity | 2009,2010,2011,2012,2013,2014,2015,2016,2017,2018 |
URL | http://psrg.org.uk |