2021 Warwick IGEM Team score Gold at Virtual Giant Jamboree

We have had another successful year at the 2021 IGEM Giant Jamboree.  The Warwick Team, CREscent, were awarded a Gold medal and you can watch their promotional video here.

More about the team…

Warwick’s 2021 team, CREscent, attempted to design a rapid detection method for a type of bacteria resistant to carbapenems, a last-resort antibiotic. These bacteria are often found in hospitals, and infections are extremely difficult to treat so isolation of infected patients is one of the only ways to contain its spread. Current detection methods for Carbapenem Resistant Enterobacteriaceae (CRE) are very slow and can take up to 4 days to return a positive result, exposing hospitals to potential unchecked spread of CRE in the meantime.

Therefore, we designed rapid detection method for hospitals, by targeting a carbapenem resistance gene in E. coli using CRISPR. If the RNA molecule produced by this gene is detected, a different RNA is transcribed, which causes fluorescence. This acts as a visual identifier. The idea was that a swab would be taken in a hospital and placed into a test tube. If the bacteria present are resistant to carbapenems then the tube will glow green under UV light.

Read more about their project on their wiki:

https://2021.igem.org/Team:Warwick/Description

Efficiently “switching on” bacteria to produce high-value chemicals

– Most high-value chemicals are currently produced using fossil fuels – industrial chemistry’s use of petroleum accounts for 14% of all greenhouse gas emissions.

– An exciting alternative is to engineer bacteria as “cell-factories” with a genetic switch that reroutes their chemistry to produce high-value chemicals, such as biofuels, polymers and pharmaceuticals.

– The use of expensive chemicals to switch them on severely limits their commercial potential, researchers have used mathematical models to develop a new genetic switch that can use a cheap natural nutrient to switch on production permanently – drastically reducing that cost.

– This brings closer the realization of sustainable and economically viable industrial-scale production of high-value chemicals from cheap feedstocks, for a greener, cleaner future.

High-value chemicals used in biofuels and pharmaceuticals can be made from bacteria by switching their chemistry to produce novel products. Researchers from the University of Warwick have found a way to drastically cut the cost of turning on these switches.

We use chemicals for almost everything, from food preservatives to pharmaceuticals and cosmetics, and even biofuel. Many of these are petrochemical derivatives, and so their synthesis is not sustainable. It is therefore essential to seek alternative ways to manufacture chemicals, on an industrial-scale, sustainably and cheaply – paving the way to a greener cleaner future.

Bacteria can be seen as nature’s micro-chemical factories, and many researchers are trying to understand how their complex network of chemical reactions can be re-wired to convert cheap feedstock like glucose into useful chemical products for our use. Using genetic switches to redirect the bacteria’s chemistry is an exciting development in the field of Synthetic Biology.

Typically, genetic switches are turned on by adding a chemical called an inducer. However, inducers are expensive, and often need to be constantly added to prevent switching back off, analogous to a “light switch with a spring in it” that turns back off when you let go. This makes this switching approach expensive and so scaling up to industrial production economically infeasible.

In the paper, ‘Designing an irreversible metabolic switch for scalable induction of microbial chemical production’, published in the journal Nature Communications, researchers from the School of Engineering at the University of Warwick have found a cheap way to switch bacteria into chemical production mode.

Led by Dr Ahmad A. Mannan and Professor Declan G. Bates from Warwick’s Integrative Synthetic Biology Centre at the School of Engineering, new theoretical research investigated how biosensors from E. coli that respond to cheap natural nutrients like oleic acid can be harnessed to create switches. Using mathematical models and the engineering principles of feedback control loops, commonly used in flight control systems, they discovered how to design a genetic switch in bacteria that removes the reverting “spring”, so that adding only a pulse of a cheap natural nutrient can switch the cell to chemical production mode permanently – drastically cutting costs.

Dr. Ahmad Mannan, from Warwick’s Integrative Synthetic Biology Centre at the School of Engineering comments:

“The ability to switch on bacteria into chemical production mode permanently is a massive step forward to realising economically viable scale up of chemical production from microbes. The switch should be widely applicable to many industrially relevant microbes and for the synthesis of almost any chemical – a versatile component in the Synthetic Biology toolbox. The next steps of our research would be to uncover the principles to understand where in the chemical roadmap to apply this “traffic light” and perhaps look to collaborating with industry where it could be readily incorporated into existing fermentation processes.”

Professor Declan Bates, from Warwick’s Integrative Synthetic Biology Centre at the School of Engineering adds:

“Using cutting-edge synthetic biology techniques our work has laid out the framework for constructing the proposed irreversible switch in the lab. Not only could our work change the way chemical industries make high-value chemicals, it also contributes to the larger vision for how humans can move away from reliance on non-renewable resources, to enabling sustainable synthesis of biochemicals, for a greener, cleaner future.”

2020 Warwick iGEM team score Gold at Virtual Giant Jamboree!

As with everything else in 2020, the iGEM Giant Jamboree was held virtually.  But this did not deter the Warwick iGEM team and they were awarded a Gold medal and received impressive comments from the judges.  Well done!

More about the team…

Warwick’s 2020 team, ColibacTeam, as the name would suggest, sought to tackle the problem of bowel cancer by attempting to pioneer a new method of detection, based upon the detection of colibactin-producing strains of Enterobacteriaceae in the human gut, which have been linked to at least two thirds of bowel cancer cases.

Despite the COVID-19 pandemic, the team was able to make significant progress towards the design of a biosensor capable of detecting a well-characterised byproduct of the colibactin biosynthesis pathway – a rather unique compound named N-myristoyl-D-asparagine. This biosensor would, in conjunction with tests for other biomarkers, revolutionise bowel cancer testing, making it less invasive and reducing the workload on medical professionals

Read more about their project on their wiki. (https://2020.igem.org/Team:Warwick)

Videos from the first LabCut workshop

The five films created during the inaugural LabCut workshop are now available to be viewed on the official LabCut YouTube channel and will be screened during the British Science Festival in September. Three of the films have also been shortlisted in the Bristol Science Film Festival 2019.

Funded by the Wellcome Trust and Warwick Quantitative Biomedicine Programme (WQBP), LabCut is a science film workshop run by SynBio CDT PhD students Cansu KueyCharlotte Gruender and Patrick Capel.

First of the workshops was held in University of Warwick between 13-15 June, 2019. Within three days participants from various different backgrounds and expertise met each other; formed their teams and stories they wanted to tell; shot the footage and roughly edited the films. The workshop also provided participants training on film analysis (Matt Denny, Teaching Fellow in the Department of Film and Television Studies, UoW) and public engagement of science (Corinne Hanlon, Research and Outreach Manager, WISB, UoW).

 

Bacteria detected in minutes by new technology from the University of Warwick

  • Scientists at the University of Warwick showed that bioelectrical signals from bacteria can be used to rapidly determine if they are alive or dead.
  • The findings offer a new technology which detects live bacteria in minutes instead of waiting for lab-test results which can take days.
  • When ‘zapped’ with an electrical field, live bacteria absorb dye molecules, causing the cells to light up and allowing them to be counted easily.
  • This rapid technique can detect antibiotic-resistant bacteria.

For more details see the following press release.

LabCut: A Science Film Project Launches at Warwick

Are you a scientist working on human health and interested in communicating your research? Or a creative with a passion for film making and want to work with researchers and their data? Funded by the Wellcome Trust and Warwick Quantitative Biomedicine Programme (WQBP), LabCut is a science film workshop run by SynBio CDT PhD students Cansu KueyCharlotte Gruender and Patrick Capel. The inaugural workshop takes place from 13-15 June 2019 and applications are now open to anyone who has a passion for science communication. The films created during the workshop will be screened during the British Science Festival in September and will also be eligible to be entered into the Bristol Science Film Festival 2019. Workshop application form

If you have any queries please email LabCut@warwick.ac.uk

Or search for us on social media

Facebook@LabCutSciFilms

Twitter@LabCutSciFilms

Instagram@LabCutSciFilms

FEBS Advanced Course: applications now open!

In partnership with SYNMIKRO, we are delighted to announce that we are running a FEBS Advanced Course on the island of Spetses, Greece from 29 September until 7 October. The title of the course is Biosystem Design: Computational and Experimental Approaches and features a series of seminars, lectures and tutorials by leaders in the field from all around the world.

The course costs €720 to attend, and this includes 8 nights’ accommodation, full access to the course, and breakfast and lunch each day. Dinner will also be provided on 4 nights. The cost of travel is not included. We have a small number of travel grants available which will cover the cost of registration.

For full information, to view the programme and to apply, visit biosystemdesign2019.febsevents.org

Alison Smith on 10/12/18: Riboswitches – Plug-and-play devices for synthetic biology approaches to metabolic engineering

Professor Alison Smith from the University of Cambridge will be speaking in the WISB Seminar Series on the 10th December 2018 from 2-3pm in BSR3 in the School of Life Sciences.

Thiamine pyrophosphate (TPP) riboswitches are regions in messenger RNA that bind to TPP directly without the involvement of protein factors. They are present ubiquitously in bacteria, and are the only riboswitches found in eukaryotes. In these latter organisms, binding of the ligand results in alternative splicing of the transcript, which then leads to changes in expression of the mRNA. We have identified and characterised riboswitches in the green alga Chlamydomonas reinhardtii. Key nucleotides in the mechanism of action of these sequences have been established using a combination of site-directed mutagenesis, error-prone PCR and suppression mutagenesis, and as a result we demonstrated that the riboswitches are modular and versatile, responding to nM levels of the ligand, and not just TPP but also analogues and thiamine biosynthetic intermediates. At the same time, we have developed synthetic genetic circuits using a suite of engineered TPP riboswitches that can ‘tune’ expression of one or more transgenes, both in the nucleus and the chloroplast, offering the means for sophisticated metabolic engineering strategies.

Warwick iGEM score gold at Boston! Apply for 2019

We are very proud of our 2018 iGEM team and all of the hard work they put in over the summer. They were rewarded with a gold! Congratulations! Read about their experience below and apply for next year’s team here www.warwick.ac.uk/igem.

Warwick iGEM: Our 2018 Experience

Our iGEM journey was an emotional and tumultuous one. After a couple months of brainstorming ideas, we began our work in July, tackling water pollutants from three classes: biological, organic and inorganic contaminants of water. We identified a key issue in each class of contaminants and formed dedicated sub-teams which worked between the projects over the summer. The biological arm of our project focused on a novel approach to detection of Legionella pneumophila, a harmful pathogenic bacterium found in systems containing water mist (such as hot tubs and air conditioning units), using a highly specific riboregulated dCas9 circuit. The organic aspect of our project centred on detoxifying oestrogen, a hormone found to be contaminating water in both its natural and synthetic forms, which has been found to cause sex reversal in fish as well as carcinogenic characteristics. To tackle inorganic pollutants of water, we also worked on engineering ‘floating bioremediating bacteria’ to more easily remove heavy metals, such as lead from water. Using the naturally lead-absorbing Bacillus subtilis as a model organism, we induced expression of gas vesicles, originally from cyanobacteria, to cause cell flotation upon uptake of lead in the B.subtilis outer membrane.

During the summer we examined the impact of our work on society and current institutions by contacting the EU’s Commissioner for Environment and speaking to officials from water authorities around the world. As well as this, we aimed to increase public knowledge of the field of synthetic biology through studies on participation, creating a synthetic-biology themed children’s video game and attending national events such as New Scientist Live to speak to the public. One of the most poignant comments we received was from a member of the public at New Scientist Live who brought her two young daughters to the exhibition; after speaking to us about genetically modified organisms and the ethics of genetic engineering, she mentioned how even our short discussion had changed her perception of what scientists look like and she hoped that seeing women in the field would also encourage her daughters to pursue careers in STEM.

Our team was comprised of 11 Warwick undergraduate students from different academic backgrounds:

  • Jack Lawrence – Sixth Form College, Farnborough
  • Rhys Evans – Brynteg Comprehensive School
  • Jonny Whiteside – Queen Ethelburga’s College
  • James O’Brien – Archbishop Holgates School
  • Olivor Holman – Sandbach School
  • Alizah Khalid – King Edward VI Camp Hill School
  • Gurpreet Dhaliwal – Campion School
  • Janvi Ahuja – Overseas Family School (Singapore)
  • Kurt Hill – Bishop Walsh Catholic School
  • June Ong – Sunway College
  • Laura Mansfield – Cheadle Hulme High School Sixth Form

Anyone who has participated in iGEM would probably agree with the huge impact it has on the perspectives of its participants. From knowing very little about synthetic biology back in July to presenting our work on stage at the Hynes Convention Center in Boston in October, we came a long way over the summer. And this is largely due to the fantastic support we were given during our four-month project from our PIs, supervisors, Professors and the PhD students who gave up their time to train us in the basic concepts and techniques used in synthetic biology as well as being there to help and console us when we were miserable after an eighth failed PCR reaction just days before the deadlines.

Despite the fact that our iGEM experience was an incredible one, it was also a short one. If we had only had more time to we could have attempted to take our projects to completion and perhaps implementation or even perhaps could have started our lab work earlier and familiarising ourselves with the field a bit earlier. Nevertheless, it truly was an immersive experience and for many of us, one that we will remember as a highlight of our university experience.

All in all, despite the late night labs, tears and stress iGEM caused us – the experience enabled us all to grow as scientists, communicators and, above all, as learners.