Goal The course aims to make participants familiar with the use of structural biology and computational tools for engineering the performance of enzymes that are relevant for applied biocatalysis and synthetic biology. The course provides both a theoretical background on computational methods relevant to enzyme engineering (protein crystallography, homology modeling, energy calculations, protein design, smart libraries), and hands-on computer exercises on visualization and analysis of enzymes structures, including docking simulations and enzyme redesign. The theoretical and practical parts are integrated in a few problem-solving modules. Participants will have the opportunity to share their research via short oral presentations, posters, and interactive lectures.
Topics Protein crystallography and structure analysis Homology modeling, docking and molecular dynamics simulations (Yasara) Computational enzyme (re)design (Rosetta) Enzyme engineering supported by web tools Sequence- and structure-based smart libraries Thermostability and stereoselectivity engineering Industrial examples of enzyme engineering
Tutors and teachers Dick Janssen, University of Groningen Hein Wijma, University of Groningen Andy-Mark Thunnissen, University of Groningen Jiri Damborsky, Masaryk University, Brno David Bednar, Masaryk University, Brno Marc van der Kamp, University of Bristol Rene de Jong, DSM Delft Emanuele Monza, Zymvol, Barcelona
Masterclass coordination Dick Janssen, Hein Wijma, University of Groningen, The Netherlands Jiri Damborsky and David Bednar, Masaryk University, Brno, Czech Republic Sandra Haan & Tamara Hummel, GBB, University of Groningen, The Netherlands
Intended participants PhD students, post docs and other researchers skilled in biochemistry who want to become familiar with structure-based and computational approaches in Enzyme Engineering. Partners of the H2020 ES-Cat and other EU collaborative projects and training networks are offered priority reduced fee registration. Note: participants are offered the opportunity to share their research via posters and participant talks.
To Apply Details will follow. For info: email@example.com.
The Marie Curie Alumni Association (MCAA) General Assembly & Annual Conference was held in Vienna, 24 – 25 February, 2019: an amazing conference over two productive days, and a great opportunity for networking.
Different panel sessions were held in the conference with various topics, such as Entrepreneurship: How to Start a Start-up, Mentoring and Outreach Projects, Mental Health of Researchers, Workplace Harassment, Writing Proposals, Future of Research Artificial Intelligence, Refugees and Higher Education. All had an amazing and excellent discussion.
Interesting talks inspired attendees. Many take-home messages, tips and tricks for career paths were given by the inspiring speakers.
Furthermore, there were paper and digital poster sessions from different areas of science – from life sciences to social sciences – that gave attendees a chance to present our research.
From my point of view, it was a great experience to attend this event. I met lots of people that have different stories in academia and outside the academia. One of the most inspiring talk was given by Themis Christophidou who is the Director-General for Education, Youth, Sport and Culture of the European Commission. Her message was ‘Wisdom is loving the world enough to assume responsibility’. Moreover, different sessions with valuable speakers provided me different perspectives. In general, we do not need to be afraid of the future of research, just need to take responsibility, communicate, be motivated and most importantly stay happy and healthy.
Video games made their breakthrough in the 80s, but have been part of our daily life and pop culture for almost 10 years. Like comic book characters and superheroes, they have become popular, and have an estimated 2.5 billion players worldwide1 (Fig. 1). Of course, video games cover a wide range of genres and topics, and luckily science found a place among all the shooters and well narrated, breath-taking, plots.
Before 1998, scientists in video games were almost always evil and villainous (like Dr. Eggman from the Sonic series) but this situation was saved by Dr. Gordon Freeman, a fictional theoretical physicist featured in the Half-Life series. Unfortunately, he had to fight aliens with a crowbar, not with science.
Again, in 1998, a masterpiece appeared on the console market by the name of Metal Gear Solid. Although the game is tactical-action and has absolutely no glimpses of scientists, the plot starts to introduce the topic of genetic engineering and nanotechnology (Fig. 2). The main character Solid Snake, who has been injected with nanorobots, must infiltrate a facility and fight villains that have been enhanced genetically, making his way among the genomic soldiers. This time there are no rogue scientists but a misuse of science. It might be that I overthink things, but the message that struck me, other than feeding my interest in science, is how science can be used for the wrong purposes, even if the technologies were made with the purpose of improving life quality. Besides the message, it has been a powerful vehicle for science by inspiring young players to know more about it, including me.
mixture of science, action and sci-fi opened the doors to science in the video game
Since the release of Metal Gear Solid, the topic of science in games has reached a crescendo. Many video games over the next years used science to enrich their plots. Some accurately, some…originally.
Covering a wide range of topics, from biology to engineering and physics, games are becoming more accurate and some of them are totally focused on the science, like in Kerbal Space Program where you need to build a space rocket, take off and land, adjusting the flight according to gravity and your orbit. To be honest, it was too difficult for me to play so I couldn’t try all the features and explore the physics behind the game.
But since we are way fonder of biology than physics and there are a huge number of games that involve science, it’s easier to make a list of the most (in)famous biology moments in video games. Therefore, here is my personal list of the “Best Biology in Games”.
+ Resident Evil (1998): This famous game (and spin-off movie), paints a portrait of a world where a modified virus capable of bringing dead cells back to life, makes its way to the outer world. Despite the fictional idea of bringing back dead cells, the so-called T-virus, being modified from Ebola, can be spread only though saliva or blood and modifies the host on a cellular level. In the years after, the infectious virus is replaced by a parasite that modifies the host’s behaviour. Considering that parasites that changes host behaviour exist in nature (like the Cordyceps, also known as “zombie fungus”), I would consider the biology quite accurate.
+ + Spider-Man (2018): There is no need for introduction. Spider-Man has been part of many people’s childhoods. I’m not here to discuss whether being bitten by a radioactive spider gives you superpowers or a horrible and painful death. We all like to dream that if it ever happened, we would wake up with the amazing features of the animal that bit us. Except if it is a skunk. That’s the worst superpower. EVER. Terrible for social interactions too. Anyway, in this video game, Norman Osborne finds a cure that can correct genetic abnormalities. I was like “Hey, that’s cool but tell us how!” and apparently this cure uses CRISPR genome editing combined with an AI controlled gRNA to identify and edit mutations in the DNA. I would say that is quite an impressive mention in a video game. But the even cooler thing is that machine learning coupled with genome editing is not sci-fi but actual science and you can find it in here. This is shockingly accurate for being a video game on a non-biology topic.
+ + + Plague Inc. (2012): This is absolutely the most accurate non-educational game featuring biology. The game is very simple: select a host, infect people, change your features, annihilate the whole world (Fig. 3). The starting choices are “the usual suspects”: bacteria, virus or parasite. Each one of them has different traits such as fast replication rate and sturdiness for the bacteria, high mutation rate for the virus, and low detection for the parasite. Through the game you have to manage virulence, infectiousness and lethality. The goal is to infect and kill every human on Earth but as the plague spreads, the humans will respond by closing airports, harbours and they’ll start cooperating to find a cure to the disease and stop it from destroying humanity as we know it. The game was so realistic that has even attracted the attention of the CDC!
Of course, there are more games concerning science and game designed by scientists to allow people to help with research, like the protein-folding game Foldit. There are also a variety of educational games that unfortunately are not well-know or promoted.
I will leave you then with a question: can we scientists use video games
as a tool to inspire young players to become scientists? Can we use games to
explain complex concepts in an easy and appealing way to share science with
Science and knowledge belong to the world and as a scientist, I think that our duty includes gifting our knowledge to everyone with every means we can use.
On the 7th and 8th July 2018, ahead of the EuroScience Open Forum (ESOF) 2018 in Toulouse, France, I attended a two-day Satellite Event hosted by European Commission and entirely dedicated to the MSCA (Marie Skłodowska-Curie Actions) community. The Satellite Event included sessions on transferable skills such as “How to Engage with Public and Policy-Makers” and “How and where to best present your project”.
At the end of this event I prepared this 5-minute talk to communicate my research project in easier words!
The ES-Cat Midterm Review (Interim) Meeting was held at the Department of Biochemistry, University of Cambridge, on the 14th and 15th of January, 2019.
This meeting was an opportunity for the ESRs to meet up, present their research progress to each other, and meet with EU representatives. As we are at the midway point of the ES-Cat Consortium, a major focus of this meeting was career opportunities for ESRs. They were encouraged to be proactive in planning for life after their PhDs, and to make use of LinkedIn to highlight their broad skill sets and seek out opportunities.
During the MTR, ESRs also attended a facility tour of Johnson Matthey. Solid state chemistry falls a bit outside of many of the ESRs’ specialties, so it was a great opportunity to see a very different type of lab (including some stellar small molecule crystallography equipment) and learn more about the pharmacy industry.
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