Team:GO Paris-Saclay/Attributions
ATTRIBUTIONS
The iGEM GO Paris-Saclay 2020 team was formed in January 2020. Bachelor and Master students in Biology, Bioinformatics, Mathematics, Materials and Energy joined forces to complete our project HuGenes. From idea to realisation, the HuGenesS project was carried out by each member of our team, in an exceptional year due to the Covid pandemic. Having varied and complementary skills, we worked on the computer, went to the laboratory and also made this project real by getting out of the iGEM environment. This would not have been possible without the support and presence of many people and organisations. We would like to take this opportunity to thank everyone who contributed to this project.
Students
Katerine ALEKSENKO is the designer of the design of our HuGenesS universe, as well as the author of the scripts of the deliverable videos. She took part in the HP with the creation of videos for the Marburg meeting in which she participated. She has also been involved in the popularisation events during the Apériscience.
Alice CARON is the student who carried the stress of the last few weeks, she kept the team motivated and organised. She was mainly involved in collaborations and partnerships with the creation of the IGEM FR video, the organisation of the Parisian Meetup and the event at the Cité des Sciences et de l'Industrie. She also took part in the Marburg team's Meetup and is at the origin of the video proposed during this event which won third place. She helped in HP by participating in interviews with Harris H. Wang, Thomasz Blazejewski and Gaëlle Lelandais. She was also able to test CAMEOS at the beginning of the competition, and to help Nathan in the creation of the wiki.
Nathan CHATELET is the creator of our wiki. He established all the code, HTML, CSS and JavaScript. He also actively participated in HP by contacting potential future users. He supervised the conference with the TAU Israel team and participated in the Mare Nostrum Meetup.
Guillaume GARNIER is the author of the mathematical model where he described how Hidden Markov Models and Markov Random Fields work and how these tools can be applied to protein sequences. He proposed improvements of CAMEOS by slightly modifying its internal functioning. He was also present during the interview with Gaëlle Lelandais, as our mathematical expert.
Godefroy GLAUDE worked in the laboratory for 2 weeks, where he mainly adapted the protocols and advanced the Golden Gate clonings and plasmid purifications. He took part in the production of the videos for iGEM FR and the iGEM competition deliverable. For our Science Education activities, his qualities as a facilitator greatly helped him to present the project to the general public, notably at the Cité des Sciences et de l'Industrie and at the Apériscience . He also participated in the interview with Anne Lopes.
Maxime MAHOUT learned how to use CAMEOS and became the trainer of the other team members, he created new software programs to facilitate its use and the analysis of its results. He was in charge of all the analyses of the sequences of the in silico preparation of the biobricks to be tested. He is the author of the explanatory tutorial on CAMEOS as well as the case study established on the different alignments proposed. In the HP part, Maxime, as the CAMEOS expert for our team, participated in the interviews with Harris H. Wang, Thomasz Blazejewski and Gaëlle Lelandais.
Mathieu NAIRABEZE spent 4 weeks in the laboratory between PCRs, Golden Gate, transformations and electrophoresis. He took part in the videos made by the team and took care of the design of our means of communication (posters, logos, slide shows). He got in touch with the Cité des Sciences et de l'Industrie and helped to run the stand. He was present at the meeting with the UCSC team and at the interview with Anne Lopes. He helped Nathan with the design of the wiki, as well as with its partial writing.
Baptiste ORTHEAU spent 4 weeks in the laboratory, performing Golden Gate clonings and biobrick characterisation by cytometry and microscopy. He participated to the interview with Matthieu Falque, as well as at the stand at the Cité des Sciences et de l'Industrie. He also took part in the deliverable videos.
Delphine POLVE took part in the creation of the logo and the name of the project and took over during our weekly meetings, to become the memory of the key dates of the competition. She took part in most of the HP events and organized our workshop at the Cité des Sciences et de l'Industrie; as well as in the interviews with Tristan Rossignol and Gaëlle Lelandais. She was the Master of Communication on our social networks and participated in the shooting of the deliverable videos.
Florent POUBANNE worked in the laboratory for 4 weeks on PCR and transformations. He is responsible for writing and maintaining the Benchling notebook. He also contributed to HP by participating in interviews with Anne Lopes and Matthieu Falque. He was present for the stand at the Cité des Sciences et de l'Industrie and was involved in the shooting of the deliverable videos.
Clémentine SEJOTTE analyzed and designed the sequences for the clonings to be performed in the lab, participated in the experimental work for 3 weeks where she performed the Golden Gates transclonings. She was in charge of the video shootings of the iGEM FR collaboration as well as for the iGEM competition. She got in touch with our contacts in HP and attended the interview with Harris H. Wang and Thomasz Blazejewski. She was also present at the Science Education events of the Cité des Sciences et de l'Industrie and the Apériscience, as well as attending the meeting with the USCS team.
Ibrahim SOUMANA ADAMOU was present during the last weeks of laboratory work where he participated in protein characterisation and lab cleanup. He was present at the three Marburg, Parisian teams and Mare Nostrum Meetups. He also contributed to the scripts of the deliverable videos.
Ines YOUSFI was the student mediator of our team, she organised the meetings and the minutes, as well as giving rhythm to our work. She took part in collaborations and human practices, notably with her presence at the Paris, Marburg and Mare Nostrum Meetups. She managed the contacts and the visioconferences with the UCSC and TAU Israel teams. She was co-responsible for communication on social networks and took part in the interview with Harris H. Wang and Thomasz Blazejewski. She worked in the lab for 3 weeks where she performed plasmid extraction and transformation and participated in the shooting of the deliverable videos.
Supervisors
We would like to thank all our supervisors for their support and their help from the choice of the project until the last deadlines before the Giant Jamboree. Without them, the project would have been unfeasible, and we wouldn't even be a team.
Dr Ombeline ROSSIER organised every brainstorming and kept the team close-knitted and motivated. She organised the time and the course of the competition. She helped us in the laboratory and in the analysis of the results, and also took her time to improve the writing of the Wiki. Always there to give us a boost.
Dr Philippe BOULOC followed us throughout the laboratory handling and the analysis of the results. He helped us in the preparation of the HP as well as in the understanding of the subject. Always there when we needed him.
Pr Stéphanie BURY-MONE has been very present in the laboratory, notably concerning the analysis by flow cytometry. She assisted us in the formatting of our market study as well as for HP. A ray of sunshine when the sky is grey.
Téo Hebra was our instructor throughout the year and also coached us during the summer in the lab. He was our reference in terms of bibliographical research and writing. He took his time to make our wiki and our videos better, and always advised us when we were going in the wrong direction.
Luis Ramirez-Chamorro was a great help in choosing the topic, so that everyone understood the issues and potential. He helped with the CAMEOS tutorial and the design of the biobricks and was also present at the laboratory.
Laetitia Maroc was our lab instructor during the summer and helped us during some brainstorming sessions and the choice of the subject. She is also responsible for the SynthéBiol Association.
Acknowledgements
General Support
Dr Sylvie LAUTRU (I2BC) for her administrative support throughout the year.
I2BC the Institute for Integrative Biology of the Cell, for their premises and their support.
Université Paris-Saclay for its sponsoring and the access to the university.
Lab
Pr Olivier NAMY and his team at I2BC for helping us plan future experiments with luciferase, his readiness to share protocols and equipment.
Elodie HUDIK, Dr Sophie DUPRE, and Dr Oliver NÜSSE, member of the Orsay Institute of Physical Chemistry (LCP - CNRS / Université Paris-Saclay), for their help with the flow cytometer.
Rodrigo CORONEL TELLEZ a graduate student in the lab of Philippe Bouloc (I2BC), for his help with protocols, reagents, localizing equipment and sequencing.
Sylvain for his invaluable help with the preparation of our culture mediums and with the autoclave machine.
HP and Scientific Education
Dr. Harris H. WANG, last author of the article that inspired our project, for granting us an interview about his work with gene entanglement.
Thomasz BLAZEJEWSKI, developer of CAMEOS and first author of the article that inspired our project, for granting us an interview about his software.
Dr Tristan ROSSIGNOL, for his interview and advice about the optimization of metabolic pathways, his request for the generation of entangled genes and his interest in testing them actually.
Dr Gaëlle LELANDAIS, for her interviews and advice about bioinformatics and the CAMEOS tutorial.
Dr Anne LOPES, for her interview about bioinformatics and evolution, and for her reference to a recent article about frameshifting and the preservation of protein physicochemical properties.
Dr Matthieu FALQUE, for his interview about evolutionary aspects of overlapping genes and his advice to attempt to re-entangle natural overlapping genes.
Maarten LUBBERS, from iGEM HQ, for his help and his presence during the two days of our Worldwide virtual Meetup.
Maher BEN KHALED, graduate student at the Toulouse Biotechnology Institute (TBI-France), for his participation to our Worldwide virtual Meetup.
Dr Marie-Claude Serre and Dr Benoit Moindrot from I2BC, for sharing protocols, photos, materials and advice for preparing the workshops on DNA.
Valérie LEROUYER and her team, organisers of the Science fair who welcomed us at the Scientific Mediation Department at the Cité des Sciences et de l’Industrie of Paris.
Staff at the Cité des Sciences et de l’Industrie, of Paris (France) for welcoming us during the weekend of the Fête de la Science.
Anaïs Vergnolle from the COMPAS (Science communication and mediation, and scientific heritage of Université Paris-Saclay) organisation, for putting us in touch with the Apériscience event.
The Jean Cocteau library, at Massy (France), for welcoming us for the Apériscience event.
Others
Fabrice PLATEAU for his advice on how to make a market study.
Manonfrom Crafters Company for her help in designing our sweatshirts.
A special Dedication
The team Lab wants to thank Madeleine, its most important member, witness of all results and lab considerations in term of designs. It followed us after meals, in the morning as well... Thank You very much Madeleine, also known as...the Coffee Machine of the 2nd floor of the building 400. We will not forget you. At the very moment these lines are written, Madeleine is at the end of its life. RIP Madeleine.
