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Module

BGM3056 : Evolution and Genomics

  • Offered for Year: 2021/22
  • Module Leader(s): Professor T. Martin Embley FMedSci FRS
  • Lecturer: Professor Robert Hirt
  • Owning School: Biomedical, Nutritional and Sports Scien
  • Teaching Location: Newcastle City Campus
Semesters
Semester 1 Credit Value: 10
ECTS Credits: 5.0

Aims

i.       To provide a general understanding of how ideas from evolutionary biology inform, and are informed by, genomic science.
ii.       To provide some deeper insights into the origin and evolution of the eukaryotic genome and the roles of gene and genome duplication, vertical inheritance, lateral gene transfer and endosymbiosis in its formation.
iii.       To highlight how studies of parasite genomes have provided general insights into how genomes evolve as well as clues to pathogenic mechanisms and potential therapies.
iv.       To provide knowledge and understanding of the tools used to analyse genomes.

Original Summary:
Theodosius Dobzhanskyis famous for his essay "Nothing in biology makes sense except in the light of evolution". The aim of the course is to show that this is still true, and specifically to show how it has enriched and informed the science of genomics. The study of genomes, or genomics, has influenced all areas of biology. For example, the human genome project has provided unparalleled insight into our own condition, while studies of the genomes of disease-causing organisms hold promise of new therapies. The new technologies that are underpinned by genomics can be integrated to offer global or near-global overviews of gene content, and gene and protein expression. The major goal of this module is to demonstrate how evolutionary genomics has revolutionised biology and to introduce some key discoveries, concepts and applications.

Outline Of Syllabus

Lecture and directed study material:

•       Evolutionary biology describes the history of life and explains why organisms and genomes are the way they are.
•       Definitions and concepts, homology, descent with modification and natural selection, evidence for evolution, the new synthesis, neutral theory.
•       The first whole genome sequences, the technology and discoveries, large-scale patterns and processes of genome evolution. How do prokaryotic and eukaryotic genomes differ? The yeast genome as a tool for understanding genome evolution and protein function.
•       Making sense of the data - how are genomes analysed, bioinformatics: computer tools for recognising genes and structure – function prediction. RNA-Seq, proteomics and other ‘omic technologies.
•       Phylogenetics, as a tool for understanding the evolution of genes, genomes and species. The origins of eukaryotic genomes, lateral gene transfer and vertical inheritance, endosymbiosis and eukaryotic evolution, is there a tree of life and what does it mean?      
•       Comparative analyses and insights from parasite genomes, obligate intracellular, and extracellular parasites (Microsporidia and Trichomonas case studies and viruses).
• The human microbiota in health and disease, new insights from metagenomics.

Teaching Methods

Please note that module leaders are reviewing the module teaching and assessment methods for Semester 2 modules, in light of the Covid-19 restrictions. There may also be a few further changes to Semester 1 modules. Final information will be available by the end of August 2020 in for Semester 1 modules and the end of October 2020 for Semester 2 modules.

Teaching Activities
Category Activity Number Length Student Hours Comment
Scheduled Learning And Teaching ActivitiesLecture121:0012:00PIP
Guided Independent StudyAssessment preparation and completion17:007:00PIP seminar. Powerpoint presentation and notes. Oral presentation on research paper for 10 mins
Scheduled Learning And Teaching ActivitiesSmall group teaching11:001:00PIP seminar: Introduction to ICA and Q&A sessions
Guided Independent StudyIndependent study180:0080:00Writing up lecture notes, revision and general reading.
Total100:00
Jointly Taught With
Code Title
BGM3058Integrated Genetics
BGM3061Genetic variation in common disease
BGM3062Genetics of Development and its Disorders
Teaching Rationale And Relationship

Lectures impart knowledge of key issues in genomic science. Genomics is a rapidly evolving field - directed reading from discovery and review journals will be used to keep abreast of key developments and to encourage critical faculties.

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.

The scheduled seminar, interactive with the students, provides an opportunity for Q&A sessions to help revise the taught material, and to introduce the in-course assessment - 10 minute oral presentation and 5 minutes for questions.



Public health contingency:
All lectures and seminars can/will move to online either as synchronous or non-synchronous delivery.

Assessment Methods

Please note that module leaders are reviewing the module teaching and assessment methods for Semester 2 modules, in light of the Covid-19 restrictions. There may also be a few further changes to Semester 1 modules. Final information will be available by the end of August 2020 in for Semester 1 modules and the end of October 2020 for Semester 2 modules.

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

Exams
Description Length Semester When Set Percentage Comment
Written Examination602A70Invigilated exam, 1 essay question from choice of 2 (60 mins) (1000 words)
Exam Pairings
Module Code Module Title Semester Comment
2N/A
2N/A
Other Assessment
Description Semester When Set Percentage Comment
Prof skill assessmnt1M30PIP - Timed (10 minute) individual oral powerpoint presentation on research paper, followed by 5 min for questions.
Assessment Rationale And Relationship

The examination provides evidence of knowledge and understanding of the topics.

The assessed presentation will provide evidence of critical analysis of published work and clarity of communication of scientific ideas.



Public health contingency:
Presentation can/will move to online submission
Invigilated exam can/will move to 24-hour 24h open-book essay, 1 essay question out of 2 (1000 words)

Reading Lists

Timetable