BIO3019 : Genomics

Semester 1 Credit Value: 10
ECTS Credits: 5.0


The module aims are to develop students' knowledge of Prokaryotes genomic science, including its key discoveries, concepts and applications, and to recognise and interpret connections between genotype and phenotype.

Outline Of Syllabus

* Introduction to the course and History of prokaryotic genome (HPK)
* Insight of prokaryotes genetics (MCMC)
* How to sequence, assemble and annotate a genome (HPK_
* Geonome mining (HPK_
* From genome to phenome (MCMC)
* Prokaryote genome evolution (MCMC)
* Evolutionary and comparative genomics (HPK)

Computer practicals:
The aims of these practical sessions is to give students first-hand experience in structural functional and comparative genomics gaining practical understanding of the basic tools used for genome mining, genome evolution, connections between genotype and phenotype and potential biotechnological applications.

The practical sessions are designed to enable students to become familiar with working with the basic tools used for genome mining and develop their independent learning skills, teamwork and their critical thinking. Those follow a student-centred learning approach therefore it is expected that students be active part and responsible in their own learning and with their own pace of learning.

During the first practical session (3 hours), students will learn how to use and interpret the basic tools used for genome mining by working on guided self-study exercises. Students will be allocated in pairs in the computer cluster and provided with a handbook (containing general information about practical sessions, lab assessment details, a microbial genome analysis tutorial and a glossary of terms), the worksheets and a document detailing what is expected to include in the final report (all of them can also be downloaded from Blackboard). During the session students are encouraged to work on your own pace in the proposed exercises. Support and formative feedback will be provided.

During the second and third practical sessions it is expected students work on their assigned bacterial genomes applying the knowledge and practical skills already acquired in the first session. The bacterial genomes assignations will be advertised on Blackboard after the first practical session. In these sessions, students will be allocated in groups of 5-6 working on the same set of genomes. During the session students are encouraged to work as a team, i.e. planning the research, distributing tasks to minimise the individual workload, sharing ideas, solving problems ets. Support and formative feedback will be provided in both sessions.

Additional support:
A Discussion Board forum will be created on Blackboard to share and discuss ideas inter/intra groups and solve doubts related to genome mining tools and the final report. The forum will be organised by threads around each set of genomes and general thread for sharing ideas inter-groups and general clarifications. The forum will be moderated by the module leader.

Teaching Methods

Teaching Activities
Category Activity Number Length Student Hours Comment
Guided Independent StudyAssessment preparation and completion11:301:30Written exam
Scheduled Learning And Teaching ActivitiesLecture131:0013:00N/A
Guided Independent StudyAssessment preparation and completion115:0015:00Report on computer practical
Guided Independent StudyAssessment preparation and completion130:306:30Exam revision
Scheduled Learning And Teaching ActivitiesPractical12:002:00Computer practical
Guided Independent StudyIndependent study232:0046:00Reading popular science journals to update this fast moving science
Guided Independent StudyIndependent study13:003:00Practical follow-up
Guided Independent StudyIndependent study131:0013:00Lecture follow-up
Teaching Rationale And Relationship

Lectures impact knowledge and help students develop awareness of key aspects of genomic science. The computer practical gives students supervision and guidance in analysing genomic data. Genomics is a rapidly evolving field - students will be encouraged to read key papers from discovery and review journals to keep abreast of developments and to develop a critical appreciation of genomic science, its strengths and limitations. Private study is necessary for students to absorb information presented in lectures and for self-assessment, to deepen their knowledge and understanding through directed reading to become familiar with the web and its resources for genome analysis and to complete the computer analysis.

Assessment Methods

The format of resits will be determined by the Board of Examiners

Description Length Semester When Set Percentage Comment
PC Examination901A30N/A
Other Assessment
Description Semester When Set Percentage Comment
Practical/lab report1M10Practical worksheet
Reflective log1M10Self and peer assessment
Written exercise1M50Lab report on analysis of genomic data (1500 words)
Assessment Rationale And Relationship

The exam assesses knowledge, understanding and integration of subject material obtained from lectures and additional reading. The computer practical report tests students' ability to analyse and interpret genomic data.

Study Abroad students may request to take their exam before the semester 1 exam period, in which case the format of the paper may differ from that shown in the MOF. Study Abroad students should contact the school to discuss this.

Reading Lists