IBIS Therapeutic Engineering and Bioproduction in Biotechnology-Health

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Proteins are now widely used as therapeutic tools in human and animal health. Knowledge of the synthesis pathways of peptides and proteins, their folding, and their possible post-translational modifications is essential before considering any biosynthesis of therapeutic proteins. Methods for better characterizing these proteins are also essential to guarantee the quality of proteins produced for therapeutic or industrial use. Protein engineering methods designed to improve their original properties will also be discussed.

The EU comprises lectures and tutorials, delivered by faculty members and researchers.

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Bioinformatics focuses on the creation and use of digital and mathematical approaches applied to life sciences. The main applications concern the automatic processing of biological data and issues of modeling, analysis, and data integration in the field of life sciences. This course unit aims to provide a solid foundation in sequence analysis using bioinformatics tools and in immunoinformatics. Theoretical aspects will be covered and reinforced by practical aspects (exercises and project work). This course unit may or may not be taught in English, depending on the level of the students. The course unit includes lectures and practical work, carried out by teacher-researchers.

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In the field of bioprocess engineering, knowledge of the metabolism of catalysts (cells, microorganisms) is essential. The EU will be dedicated to describing the diversity of valuable microbial metabolites (primary and secondary metabolites) and the bioprocesses that exploit these microorganisms to produce these molecules.

This course unit includes interactive lectures, tutorials, and practical work (practical work in the computer lab + individual project work in small groups).

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Within biotechnology, bioprocesses correspond to the industrial implementation of living tools (whether enzymes, microorganisms, or cells from higher organisms) for the synthesis of products of interest. In this teaching unit (TU), the focus will be on the use of microbial and cellular catalysts. Products of interest may include fermented foods (wine, beer, etc.), energy molecules (bioethanol, methane, etc.), chemical intermediates, and biomedicines (vaccines, monoclonal antibodies, growth factors, etc.). The knowledge, skills, and expertise acquired in this teaching unit will be transferable to any sector of biotechnology. The examples given will correspond to the career opportunities targeted by the two programs (Agrosciences and Health).

The EU will focus on bioprocesses and the environment in which the biological reaction will be controlled (the bioreactor). The course will also address the issue of describing and modeling a biological reaction, including a presentation of the approach applied in bioprocess engineering. The rest of the course will be devoted to the application of this approach to reactors operated in batch mode (or discontinuous culture). Other operating modes will be covered by the M2 HAV930V course "Bioprocess Engineering - Continuous and Fed-Batch."

This course unit includes interactive lectures, tutorials, and practical work (practical work in the computer lab + individual project work in small groups).

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Teaching module focused on the professional world, with general introductions to predefined topics targeting the biotechnological exploitation of microorganisms (antimicrobials, microbiota, probiotics, applied virology, etc.), followed by presentations by industry professionals who come to talk about their career paths, their companies, and/or the development of a project. This teaching unit covers red biotechnologies (health applications) as well as other colors of biotechnology (green/agronomy, blue/marine, white/industrial, yellow/environmental).

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Within biotechnology, the production of recombinant proteins in various prokaryotic and eukaryotic expression systems represents a mature and attractive technological field with high employability. It is also a very important area of research in which many challenges remain to be addressed. The bioproduction of biomedicines (recombinant proteins as well as monoclonal antibodies) represents a major challenge in human therapeutics, but also in many areas of biotechnology (environmental, industrial, agronomic, marine, etc.). Before designing any biological drug involving a bioproduction stage, it is essential to understand the different eukaryotic and prokaryotic expression systems used in biotechnology and to have a comprehensive overview of the landscape and challenges of bioproduction in France, Europe, and around the world.

This course unit includes interactive lectures. It is taught by various academic and industry experts involved in the field.

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This EU presents the specific features of healthcare applications in the field of bioprocesses. Case studies on the production of biopharmaceuticals and innovative therapeutic drugs are provided (e.g., clinical-grade production of cell therapy products). The entire production chain is covered, with a particular focus on downstream processes (or DownStream Processing, DSP), which are particularly important for healthcare products (separation, extraction, purification, and even formulation operations). DSP represents a significant portion of production costs, and there are many expectations and challenges associated with these technologies, particularly with the development of single-use technologies. Upstream processing (USP) is covered in depth in the complementary teaching units of the Bioproduction specialization (HAV930V and HAV911V).

This course unit includes lectures and conferences with numerous presentations by industry professionals who will share their expertise and vision of the field with students. Beyond the technological aspects, these presentations will also provide an opportunity to discuss Good Manufacturing Practices (GMP), quality control, and the management of economic and environmental constraints.

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The commercialization of research into industrial applications will require strategies and stakeholders at the interface between the scientific and socio-economic worlds. Identifying and protecting the innovative nature of a discovery will be followed by the search for funding and partners to transform this idea into economic reality.

This course unit will focus on providing students with all the tools they need to promote their work with a view to discovering new therapeutic tools. This course unit includes lectures given by legal academics and professionals in the field, as well as a supervised project that runs throughout the course unit. Work will also be carried out in the Learning Lab: identifying innovative research, drafting a patent, developing a commercialization plan, creating a business, and developing a business plan.

This EU will involve university professors, industrialists, and professionals in the fields of patents and commercialization.

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Within biotechnology, bioprocesses involve the industrial application of living organisms (whether enzymes, microorganisms, or eukaryotic cells) for the synthesis of products of interest. This course will focus on the central stage of the bioprocess: biological reactions in reactors. More specifically, it will focus on the use of microbial and cellular catalysts. Products of interest may include fermented foods (wine, beer, etc.), energy molecules (bioethanol, methane, etc.), chemical intermediates, and biomedicines (vaccines, monoclonal antibodies, growth factors, etc.). The knowledge and skills acquired during this course unit will be transferable to any sector of activity. Examples will be given in the fields corresponding to the main career opportunities for the two programs concerned (Agrosciences and Health). This course is a direct continuation of the M1 HAV811V course "Bioprocess Engineering - Batch." It focuses on the UpStream Processing (USP) aspects of bioprocesses.

The first classes will provide an overview of bioprocesses and the approach applied in bioprocess engineering, as well as a brief review of batch mode (prerequisite for M1). The bulk of the course will then be devoted to the application of bioprocess engineering to reactors operated in continuous and Fed-Batch mode (or semi-(dis)continuous culture).

Cross-disciplinary modules will also be offered:

-Transfer management (management of mixing, heat transfer, gas transfer) with a strong focus on gas transfer and how to ensure the oxygen requirements of a culture (kLa, OUR, OTR).-Culture medium design

-Basic assessments (carbon footprint and redox balance)

-Development of an indicator for monitoring biological response: the Respiratory Quotient (RQ)

This course includes interactive lectures and tutorials.

An intensive practical application (1 month) in the form of a project is planned for students in the M2 Biology-Health/IBIS/specialization in bioproduction as part of the "Multidisciplinary lab project: from gene to protein" course units. For these students, a strong link is also planned with the specialization course units (HAV910V, HAV911V, and HAA910V). Please refer to the descriptions of these course units for more information.

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The multidisciplinary lab project, also called “Gene to Protein project”, will be a "learning by doing" project. The students will be in charge of the bioproduction of a protein using E. coli as a host. If they follow both parts of the project (1 & 2, like students from the Biohealth master's program), they will start with strain construction and continue with pilot-scale production and purification of the protein. Bioprocess engineering is a highly interdisciplinary field of study. The students (and future workers in the field) will benefit from project-based learning with an important practical component, where they can actively experience the interconnection between biology, engineering, and physical sciences.

Part 2 of the project will be dedicated to the "production process design and pilot scale production" of the recombinant protein using a high-cell density fed-batch culture. It will be a multidisciplinary, hands-on training course in Bioprocess Engineering and will be organized over three different periods:

-Week 1: In the Learning Lab, students will participate in workshops to design and plan a production process in accordance with available equipment and data (scientific papers, reports, websites, previous results from UE "Multidisciplinary Lab Project 1"). Based on the bottlenecks identified for the production of recombinant proteins in E. coli, students will choose the culture process to be used, define the production objectives, simulate the culture (planning objective), design a sampling plan, design the culture medium, etc.

-Week 2: In practical training rooms on pilot-scale equipment (20L working volume bioreactor), students will prepare the bioreactor and everything they need to perform the pilot-scale culture. They will be responsible for monitoring the culture and processing real-time data in order to detect and correct any deviations from the anticipated progress of the culture.

-Week 3: In learning labs, students will process and analyze the data. They will be responsible for interpreting and discussing the results and writing a professional report.

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Teaching module focused on the professional world, with general introductions to predefined topics targeting the biotechnological exploitation of microorganisms (antimicrobials, microbiota, probiotics, applied virology, etc.), followed by presentations by industry professionals who come to talk about their career paths, their companies, and/or the development of a project. This teaching unit covers red biotechnologies (health applications) as well as other colors of biotechnology (green/agronomy, blue/marine, white/industrial, yellow/environmental).

See the full page

Within biotechnology, the production of recombinant proteins in various prokaryotic and eukaryotic expression systems represents a mature and attractive technological field with high employability. It is also a very important area of research in which many challenges remain to be addressed. The bioproduction of biomedicines (recombinant proteins as well as monoclonal antibodies) represents a major challenge in human therapeutics, but also in many areas of biotechnology (environmental, industrial, agronomic, marine, etc.). Before designing any biological drug involving a bioproduction stage, it is essential to understand the different eukaryotic and prokaryotic expression systems used in biotechnology and to have a comprehensive overview of the landscape and challenges of bioproduction in France, Europe, and around the world.

This course unit includes interactive lectures. It is taught by various academic and industry experts involved in the field.

See the full page

See the full page

See the full page

This EU presents the specific features of healthcare applications in the field of bioprocesses. Case studies on the production of biopharmaceuticals and innovative therapeutic drugs are provided (e.g., clinical-grade production of cell therapy products). The entire production chain is covered, with a particular focus on downstream processes (or DownStream Processing, DSP), which are particularly important for healthcare products (separation, extraction, purification, and even formulation operations). DSP represents a significant portion of production costs, and there are many expectations and challenges associated with these technologies, particularly with the development of single-use technologies. Upstream processing (USP) is covered in depth in the complementary teaching units of the Bioproduction specialization (HAV930V and HAV911V).

This course unit includes lectures and conferences with numerous presentations by industry professionals who will share their expertise and vision of the field with students. Beyond the technological aspects, these presentations will also provide an opportunity to discuss Good Manufacturing Practices (GMP), quality control, and the management of economic and environmental constraints.

See the full page

The commercialization of research into industrial applications will require strategies and stakeholders at the interface between the scientific and socio-economic worlds. Identifying and protecting the innovative nature of a discovery will be followed by the search for funding and partners to transform this idea into economic reality.

This course unit will focus on providing students with all the tools they need to promote their work with a view to discovering new therapeutic tools. This course unit includes lectures given by legal academics and professionals in the field, as well as a supervised project that runs throughout the course unit. Work will also be carried out in the Learning Lab: identifying innovative research, drafting a patent, developing a commercialization plan, creating a business, and developing a business plan.

This EU will involve university professors, industrialists, and professionals in the fields of patents and commercialization.

See the full page

Within biotechnology, bioprocesses involve the industrial application of living organisms (whether enzymes, microorganisms, or eukaryotic cells) for the synthesis of products of interest. This course will focus on the central stage of the bioprocess: biological reactions in reactors. More specifically, it will focus on the use of microbial and cellular catalysts. Products of interest may include fermented foods (wine, beer, etc.), energy molecules (bioethanol, methane, etc.), chemical intermediates, and biomedicines (vaccines, monoclonal antibodies, growth factors, etc.). The knowledge and skills acquired during this course unit will be transferable to any sector of activity. Examples will be given in the fields corresponding to the main career opportunities for the two programs concerned (Agrosciences and Health). This course is a direct continuation of the M1 HAV811V course "Bioprocess Engineering - Batch." It focuses on the UpStream Processing (USP) aspects of bioprocesses.

The first classes will provide an overview of bioprocesses and the approach applied in bioprocess engineering, as well as a brief review of batch mode (prerequisite for M1). The bulk of the course will then be devoted to the application of bioprocess engineering to reactors operated in continuous and Fed-Batch mode (or semi-(dis)continuous culture).

Cross-disciplinary modules will also be offered:

-Transfer management (management of mixing, heat transfer, gas transfer) with a strong focus on gas transfer and how to ensure the oxygen requirements of a culture (kLa, OUR, OTR).-Culture medium design

-Basic assessments (carbon footprint and redox balance)

-Development of an indicator for monitoring biological response: the Respiratory Quotient (RQ)

This course includes interactive lectures and tutorials.

An intensive practical application (1 month) in the form of a project is planned for students in the M2 Biology-Health/IBIS/specialization in bioproduction as part of the "Multidisciplinary lab project: from gene to protein" course units. For these students, a strong link is also planned with the specialization course units (HAV910V, HAV911V, and HAA910V). Please refer to the descriptions of these course units for more information.

See the full page

See the full page

The multidisciplinary lab project, also called “Gene to Protein project”, will be a "learning by doing" project. The students will be in charge of the bioproduction of a protein using E. coli as a host. If they follow both parts of the project (1 & 2, like students from the Biohealth master's program), they will start with strain construction and continue with pilot-scale production and purification of the protein. Bioprocess engineering is a highly interdisciplinary field of study. The students (and future workers in the field) will benefit from project-based learning with an important practical component, where they can actively experience the interconnection between biology, engineering, and physical sciences.

Part 2 of the project will be dedicated to the "production process design and pilot scale production" of the recombinant protein using a high-cell density fed-batch culture. It will be a multidisciplinary, hands-on training course in Bioprocess Engineering and will be organized over three different periods:

-Week 1: In the Learning Lab, students will participate in workshops to design and plan a production process in accordance with available equipment and data (scientific papers, reports, websites, previous results from UE "Multidisciplinary Lab Project 1"). Based on the bottlenecks identified for the production of recombinant proteins in E. coli, students will choose the culture process to be used, define the production objectives, simulate the culture (planning objective), design a sampling plan, design the culture medium, etc.

-Week 2: In practical training rooms on pilot-scale equipment (20L working volume bioreactor), students will prepare the bioreactor and everything they need to perform the pilot-scale culture. They will be responsible for monitoring the culture and processing real-time data in order to detect and correct any deviations from the anticipated progress of the culture.

-Week 3: In learning labs, students will process and analyze the data. They will be responsible for interpreting and discussing the results and writing a professional report.

See the full page

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