Universidad de Jaén

THEORY

PART I: Manipulation of nucleic acids in vitro. Basic techniques.

1. Introduction to genetic engineering. Basic techniques to manipulate nucleic acids in vitro. Historical perspective of the technology of analysis and manipulation of nucleic acids. Purification of DNA and RNA. Separation and analysis of nucleic acids by gel electrophoresis.

2. Enzymes used to manipulate nucleic acids in vitro. Cut and joining of DNA. Chemical modification in vitro. Synthesis and degradation of NNAA.

3. Amplification of NNAA in vitro (PCR) and applications. Polymerase Chain Reaction (PCR): Taq polymerase, primers and amplification. PCR using RNA (RT-PCR). Applications of the PCR.

4. Nucleic acid hybridization applied to sequence identification. Transfer of NNAA to membranes. Probes. Hybridization. Detection.

5. Gene expression analysis. Northern-blot, RNase protection assays, RT-PCR, in situ hybridization, primer extension assay.

PART II: Genetic manipulation in prokaryotes ( E. coli)

6. Cloning and expression in prokaryotes ( E. coli), Part I: Introduction to cloning. Cloning vectors commonly used in prokaryotes. Methods to introduce new genetic information in prokaryotes.

7. Cloning and expression in prokaryotes ( E. coli), Part II: Detection and identification of positive clones: selection of recombinants.

8. Cloning and expression in prokaryotes ( E. coli), Part III: Cloning and expression of recombinant DNA strategies in E. coli: Libraries.

9. Sequence manipulation: in vitro mutagenesis. Random and directed mutagenesis.

PART III: Genetic manipulation in eukaryotes

10. Genetic manipulation and genetic improvement in microorganisms. Applications. Yeast as eukaryotic model organism. Biotechnological importance of yeast. Genetic engeniering in yeast and other fungi. Examples and applications.

11. Genetic manipulation and genetic improvement in plant. Applications. Classical plant improvement. Genetic manipulation techniques in plants. Transgenic plants. Examples and applications.

12. Genetic manipulation and genetic improvement in animals. Applications. Classical animal improvement. Genetic modification of cells and complete organisms. Growth and production. Some applications.

13. Legislation about the use of genetic modified organisms and patents. Economical, ethical and cultural aspects. Legislation.

PRACTICAL LESSONS

A) Laboratory

Laboratory practical lessons will be taught in 2 weeks (2 hour session per day). The procedures performed include several techniques on NNAA manipulation reviewed in theory.

The practices proposed for the next course could change depending on the applicable face-to-face scenario according to the current health situation.

PRACTICE 1 . Southern-Blot. This practical includes learning of nucleic acids labelling techniques, labelling quantification, nucleic acid transfer to nylon membranes, in situ hybridization with a labelled probe and detecting the label by immunological reactions. The objective is to identify DNA specific sequences in genomic or plasmidic samples.

PRÁCTICA 2 . Cloning in E. coli. This practical lesson includes: ligation (synthesis of recombinant DNA), obtaining bacterial competent cells, transformation of competent cells with recombinant DNA (previously obtained in class) selection of recombinant bacteria, extraction of plasmid DNA, restriction and electroforesis of plasmid DNA and screening for the presence of insert.

B) Formative Activities

• PCR oligonucleotide design and applications
• Methods for obtaining recombinant DNA molecules and in silico cloning
• NGS platforms
• Gene editing and gene therapy

The contents of this subject connect with the following Sustainable Development Goals (SDGs): 4 (Quality Education), 9 (Industry, Innovation and Infrastructure) and 15 (Life and Terrestrial Ecosystems).

Large group: 3.8 ECTS

Master classes (3 ECTS): Theory classes where a global and integrated vision of the units within each block is provided. At the end of the thematic blocks, the students will work on the level tests: resolution and discussion (when applicable) of short questions about the block.

Training activities (0.8 ECTS): Problem solving and case studies, whose resolution requires the assimilation of basic concepts related to the proposed topics. These practical assumptions will be based on real scientific work so that the student will have to reproduce the attitude of the scientist when faced with a specific question as to what methodology to apply to answer it or what the results obtained mean.

Small group: 2 ECTS

Pactical (2 ECTS): Practical laboratory sessions with small groups - In these sessions students will carry out different experiments in the laboratory related to the concepts explained in master classes. In the practical lessonsa detailed protocol is provided, where the basis of the practice is explained, together with the process that the student must follow on his own to obtain the desired objective.

Individual/group tutorials: 0.2 ECTS

Students with special educational needs should contact the Student Attention Service (Servicio de Atención y Ayudas al Estudiante) in order to receive the appropriate academic support

Ordinary Call I:

The evaluation will be continuous, and will attend to several levels and different aspects. For this purpose, the score obtained in the different activities developed throughout the course will be considered (the weighting on the final score is indicated in brackets):

- S2: The grade of the exam (70%). It will be necessary to reach a minimum of 4 out of 10 in the exam to be able to pass the course through continuous assessment.

- S3: The qualification of the level tests (5%).

- S3: Training activities (5%): the participation of the student, the dialectic quality that the student shows in his interventions, either through his own questions, or through the contributions to questions raised by the teacher or by his own colleagues, as well as the quality of the work done, will be valued.

- S4: The laboratory practices (20%), which will be evaluated according to attendance and the presentation, understanding and discussion of the results obtained.

The knowledge acquired by the students and their ability to apply this knowledge to specific practical situations will be valued throughout the course with the exam, the level tests, formative activities and laboratory practices.

The exam will include free answer and "test" type questions. The first ones allow to evaluate the capacity of synthesis and relationship, as they force the student to organize and structure his knowledge in a logical way. The latter will evaluate the student's instantaneous response capacity. In this way, the following competencies will be evaluated: CT1, CT3, CT5, CT6, CT7, CT8, CE37, CE39, CE43, CG11, CG8.
On the other hand, with the level tests, the laboratory practices and the training activities will be evaluated
also the competences: CT1, CT2, CT3, CT4, CT5, CT6, CT7, CT8, CT9, CT10, CE37, CE39, CE43, CG12.

Extraordinary Call II:

- Final exam (100% of the final mark).

1- TEACHING METHODOLOGY AND TRAINING ACTIVITIES

2- SYSTEM OF EVALUATION

Ordinary call

Explanatory note: The subject cannot be passed in the ordinary call if a 4.5 out of 10 is not reached in the exam. The final qualification of the course will be obtained by adding the weighted scores obtained in each section. No marks will be kept for subsequent calls.

Extraordinary call

Explanatory note: The final grade will be obtained exclusively from the exam grade.

RESOURCES

The resources and infrastructure necessary for the online teaching methodology to be developed in the multimodal scenario will be those provided by the Virtual Teaching and G Suite services.

NOTE

In the multimodal scenario, when appropriate, the teaching staff involved in teaching reserves the right not to give consent for the capture, publication, retransmission or reproduction of their speech, image, voice and explanations of the chair, in the exercise of their teaching duties, within the scope of the University of Jaen.

1- TEACHING METHODOLOGY AND TRAINING ACTIVITIES

2- SYSTEM OF EVALUATION

Ordinary call

Explanatory note : The subject cannot be passed in the ordinary call if a 4 out of 10 is not reached in the exam. The final qualification of the course will be obtained by adding the weighted scores obtained in each section. No marks will be kept for subsequent calls.

Extraordinary call

Explanatory note: The final grade will be obtained exclusively from the exam grade.

RESOURCES

The resources and infrastructure necessary for the online teaching methodology to be developed in the multimodal scenario will be those provided by the Virtual Teaching and G Suite services.

NOTE

In the non-presential scenario, when appropriate, the teaching staff involved in teaching reserves the right not to give consent for the capture, publication, retransmission or reproduction of their speech, image, voice and explanations of the chair, in the exercise of their teaching duties, within the scope of the University of Jaén.

Institution in charge of data processing: Universidad de Jaén, Campus Las Lagunillas, s/n, 23071 Jaén

Data Protection Delegate: dpo@ujaen.es

Purpose: In accordance with the Universities Law and other national and regional regulations in force, carrying out exams and assessment tests corresponding to the courses students are registered in. In order to avoid frauds while sitting the exam, the exam will be answered using a videoconference system, being able the academic staff of the University of Jaén to compare and contrast the image of the person who is answering the exam with the student's photographic files. Likewise, in order to provide the exam with evidential content for revisions or claims, in accordance with current regulation frameworks, the exam will be recorded and stored.

Legitimacy: compliance with legal obligations (Universities Law) and other national and regional regulations currently in force.

Addressees: service providers who are the owners of the platforms where the exams are carried out and with whom the University of Jaén has signed the corresponding data access contracts.

Storage periods: those established in current in force regulations. In the specific case of exam videoconference recordings, not before the examination records and transcripts are closed or the exam can still be reviewed or challenged.

Rights: you can exercise your right of access, amendment, cancellation, opposition, suppression, limitation and portability by sending a letter to the postal or electronic address indicated above. In the event that you consider that your rights have been violated, you may submit a complaint to the Andalusian Council for Transparency and Data Protection www.ctpdandalucia.es

Person in charge: Universidad de Jaén, Paraje Las Lagunillas, s/n; Tel.953 212121; www.ujaen.es

Data protection delegate (DPO): TELEFÓNICA, S.A.U. ; Email: dpo@ujaen.es

Procedure aim: To manage proper recordings of teaching sessions with the aim of facilitating learning process under a multimodal and/or online teaching

Period for record storage: Images will be kept during legal term according to regulations in force

Legitimacy: Data will be managed according to legal regulations (Organic Law 6/2001, December 21, on Universities) and given consent provided by selecting corresponding box in legal admission documents

Data recipients (transfers or assignments): Any person allowed to get access to every teaching modality

Rights: You may exercise your rights of access, rectification, cancellation, portability, limitation of processing, deletion or, where appropriate, opposition. To exercise these rights, you must submit a written request to the Information, Registration and Electronic Administration Service of the University of Jaen at the address above, or by e-mail to the address above. You must specify which of these rights you are requesting to be satisfied and, at the same time, you must attach a photocopy of your ID card or equivalent identification document. In case you act through a representative, legal or voluntary, you must also provide a document that proves this representation and identification. Likewise, if you consider that your right to personal data protection has been violated, you may file a complaint with the Andalusian Data Protection and Transparency Council www.ctpdandalucia.es