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Module

BIO8044 : Biotechnology: Advanced Topics

  • Offered for Year: 2020/21
  • Module Leader(s): Dr Jon Marles-Wright
  • Lecturer: Dr Thomas Howard, Professor William Willats, Professor Angharad MR Gatehouse, Dr Martin Edwards, Dr James Stach, Dr Timothy Boswell, Dr Maxim Kapralov
  • Owning School: Natural and Environmental Sciences
  • Teaching Location: Newcastle City Campus
Semesters
Semester 1 Credit Value: 20
ECTS Credits: 10.0

Aims

1.       To elaborate the methods for and uses of genes and genome sequencing.

2.       To elaborate methods for the design of experiments.

3.       To elaborate the use of cell-free systems for biotechnology applications.

4.       To elaborate different microbial systems used to express recombinant proteins.

5.       To elaborate the methodologies underlying genetic engineering of plants and animals (both vertebrates and invertebrates) from first principles including construction of transgenes and techniques for introducing them into plant/animal cells.

6.       To elaborate the use of RNA interference as a means of gene silencing to understand gene function.

7.       To elaborate the use of different omics technologies to understand cellular systems and to inform metabolic engineering applications.

8.       To elaborate genome mapping strategies through different molecular markers.

9.       To elaborate methods for protein design.

10.       To elaborate the design and construction of synthetic genomes.

11.       To promote detailed critical analysis of, and engagement with, the latest developments in the field.

Outline Of Syllabus

An introduction to the applications of basic understanding of cell & molecular biology will be provided to appreciate the principles, methods & systems used as foundations for various agricultural, pharmaceutical, medical & biotechnology industries. Areas range from applications in fundamental tools like DNA sequencing to expressing recombinant proteins for research or commercial applications, to generating improved varieties of crop plants & livestock through genetic engineering, & the directed engineering of proteins for increased activity & novel functions. The use of omics methods for studying cellular systems & functional molecular markers as well as marker-assisted breeding will be covered. Technologies for gene silencing such as RNAi will be addressed. Synthetic biology methods such as the implementation of measurement standards & statistical design of experiments approaches will be covered. DNA technologies including genome editing & the construction of synthetic genomes will be explored.

Fundamentals of Gene Transfer to Plant & Animal Cells
•       Design of transgene constructs for use in plants and animals • Genetic modification of plant & animal cells
Methods & Applications of Transgenesis in Crops
•       Plant Transformation using Agrobacterium-mediated transformation and biolistic transformation • Other techniques for developing novel crops/traits
•       Unintended effects of transformation
Methods & Applications of Transgenesis in Invertebrate Model Organisms
•       Nematode worm (C. elegans) transgenesis
• Insect transgenesis
The Mouse as a Platform for development of Animal Transgenic Technology
•       Methods & applications of mouse transgenesis
Animal Cloning
•       Introduction to animal cloning methods and applications for animal transgenesis
Microorganisms as Expression Systems
•       Expression vectors (Components of an expression vector; Constitutive and inducible promoters; Assembly of expression constructs; Targeting and tagging of protein products)
•       Bacterial expression systems
•       Yeast expression systems
•       Comparison of expression systems
•       Methodologies for protein design and engineering
Bioinformatics & Genome Analysis
•       Next generation sequencing
•       Gene & Sequencing
•       From Gene to Function, Gene Expression & Silencing
•       ESTs, and expression databases
RNA Interference (RNAi)
•       Understanding gene function through RNAi
•       Use of RNAi to control insect pests
Omics technologies to study & engineer cellular systems
•       Methodologies for studying the proteome of an organism
•       What are molecular markers? (Isoenzymes and protein isoforms; RFLPs; RAPDs; AFLPs & other PCR-based markers)
•       Relationships between “classical” and molecular markers and maps (Construction of gene maps)
•       Molecular markers in plant breeding (Map based cloning and QTLs)
•       Metabolic engineering
Synthetic biology technologies
•       The implementation of standards for measuring the activity of genetic constructs in different biological contexts
•       Use of Statistical Design of Experiments approaches
•       Design and construction of synthetic genomes
•       Genome editing technologies
Antibody technology
•       Phage display
•       ELISA
•       Production of monoclonal antibodies
On completion of the module students should have:
•       a detailed knowledge of the methods by which transgenes are constructed and introduced into plant or animal cells.
•       an awareness of historical context and development of plant transformation and expression of valuable traits.
•       an awareness of historical context and development of animal transgenesis and cloning.
•       Appreciate the limitations imposed by species differences in the use of specific transgenic methodologies.
•       a detailed knowledge of the construction and use of microbial expression systems for production of recombinant proteins.
•       an understanding of proteomics for the identification and development of functional molecular markers.
•       an understanding of the main molecular tools for synthetic bio

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
Structured Guided LearningLecture materials201:0020:00Online via canvas - short recordings of lecture material released weekly
Guided Independent StudyAssessment preparation and completion110:0010:00Online via Canvas - Preparation and completion of Canvas quiz to test knowledge of course material
Guided Independent StudyAssessment preparation and completion120:0020:00Online via Canvas/Turnitin - Preparation for and completion of short essay based assessment to test
Structured Guided LearningAcademic skills activities92:0018:00Online via canvas - short exercises related to course material
Guided Independent StudyDirected research and reading94:0036:00Online - lecturers will give students relevant reading materials throughout the semester
Scheduled Learning And Teaching ActivitiesDrop-in/surgery11:001:00Revision Q&A session
Guided Independent StudyIndependent study771:0077:00Reading and engaging with course material and reading list
Scheduled Learning And Teaching ActivitiesModule talk81:008:00Online - discussion of lecture material Q&A session with lecturers
Guided Independent StudyOnline Discussion110:0010:00Online via canvas -participation in online discussion groups
Total200:00
Teaching Rationale And Relationship

The online lectures will provide students with the background information on DNA techniques and allow them to think in more practical terms how to get information from experiments and computer based data analysis.

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

Other Assessment
Description Semester When Set Percentage Comment
Prob solv exercises1M30Online MCQ test
Written exercise1M70Coursework Assessment
Assessment Rationale And Relationship

The written exam, practical report and online test will assess the students’ understanding of the subject. The online test will also act to check students' progress with, and understanding of, the module content.

Reading Lists

Timetable