Biology Online Module Handbook

BL2309 Applied Molecular Biology

(BL2309 online module handbook version 38)

cover image

image: Applied Molecular Biology €" A Powerful Box of Tools

Techniques in molecular biology represent a powerful box of tools that are used to address a wide variety of modern research questions across a broad range of biological disciplines including; ecology, biotechnology, cell biology, medicine, conservation biology, infectious disease, evolution, genetics and synthetic biology. Key molecular biology techniques will be introduced in the context of case studies that will provide examples of how molecular biology techniques are being used in cutting edge research to address real-life questions and problems that impact health, food security, the environment and the economy.*

Credits: 15*

Semester: 2

Module Organiser
Dr Catherine Adamson
csa21@st-andrews.ac.uk
01334 461868
Pre-requisite Modules:
Before taking this module you must pass BL1101 and pass BL1102*
Anti-requisite Modules:
*
Post-requisite Modules:
*
Additional Module Information:
Please check MMS regularly for additional module information


Biology Teaching Office:
The Biology Hive, New Technology Centre, University of St Andrews, North Haugh, St Andrews, Fife KY16 9SR

Email: bioteach@st-andrews.ac.uk      Tel: 01334  463602

BL2309: Timetable

Legend (not all modules have every event type):
lecture
tutorial
workshop
practical
other

Semester 2: Week 1

DATE & TIMEVENUESTAFFEVENT
Thursday
31-01-2019
10:00 to 11:00
Purdie Building
LTC
Dr Catherine Adamson

Lecture L1: Introduction to module and molecular biology
2018-9_BL2309_L1
Friday
01-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jacqueline Nairn

Lecture L2: Topic 1: The era of omics - I
2018-9_BL2309_L2

Semester 2: Week 2

DATE & TIMEVENUESTAFFEVENT
Wednesday
06-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jacqueline Nairn

Lecture L3: Introduction to practical 1
2018-9_BL2309_L3
Thursday
07-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jacqueline Nairn

Lecture L4: Topic 1: The era of omics II
2018-9_BL2309_L4
Thursday
07-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Jacqueline Nairn

Practical P1: Practial 1: A proteomic study of an ancient protein with a timely application
2018-9_BL2309_P1
Friday
08-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jacqueline Nairn

Lecture L5: Topic 1: The era of omics III
2018-9_BL2309_L5
Friday
08-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Jacqueline Nairn

Practical P2: Practial 1: A proteomic study of an ancient protein with a timely application
2018-9_BL2309_P2

Semester 2: Week 3

DATE & TIMEVENUESTAFFEVENT
Thursday
14-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Dave Ferrier

Lecture L6: Topic 2: Molecular evolution and comparative genomics I
2018-9_BL2309_L6
Friday
15-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Dave Ferrier

Lecture L7: Topic 2: Molecular evolution and comparative genomics II
2018-9_BL2309_L7

Semester 2: Week 4

DATE & TIMEVENUESTAFFEVENT
Wednesday
20-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jacqueline Nairn
Dr Dave Ferrier
Lecture L8: Feedback to Practical 1 - Introduction to Practical 2
2018-9_BL2309_L8
Thursday
21-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Dave Ferrier

Lecture L9: Topic 2: Molecular evolution and comparative genomics III
2018-9_BL2309_L9
Thursday
21-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Dave Ferrier

Practical P3: Practical 2: Gene family evolution
2018-9_BL2309_P3
Assessed practical
Friday
22-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr Gerald Prescott

Lecture L10: Topic3: Gene editing I
2018-9_BL2309_L10
Friday
22-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Dave Ferrier

Practical P4: Practical 2: Gene family evolution
2018-9_BL2309_P4
Assessed practical

Semester 2: Week 5

DATE & TIMEVENUESTAFFEVENT
Thursday
28-02-2019
10:00 to 11:00
Purdie Building
LTC
Dr V Anne Smith

Lecture L11: Topic4: Synthetic Biology I
2018-9_BL2309_L11
Friday
01-03-2019
10:00 to 11:00
Purdie Building
LTC
Dr Gerald Prescott

Lecture L12: Topic 3: Gene editing II
2018-9_BL2309_L12

Semester 2: Week 6

DATE & TIMEVENUESTAFFEVENT
Wednesday
06-03-2019
10:00 to 11:00
Purdie Building
LTC
Dr V Anne Smith

Lecture L13: Introduction to Practical 3
2018-9_BL2309_L13
Thursday
07-03-2019
10:00 to 11:00
Purdie Building
LTC
Dr V Anne Smith

Lecture L14: Topic 4: Synthetic Biology II
2018-9_BL2309_L14
Thursday
07-03-2019
14:00 to 17:00
Medical and Biological Sciences Building
Biology Teaching Lab small
Dr V Anne Smith

Practical P5: Practical 3: Mini-IGEM competition
2018-9_BL2309_P5
Friday
08-03-2019
10:00 to 11:00
Purdie Building
LTC
Dr Dave Ferrier

Lecture L15: Feedback to practical 2
2018-9_BL2309_L15
Friday
08-03-2019
14:00 to 17:00
Medical and Biological Sciences Building
Biology Teaching lab Lab small
Dr V Anne Smith

Practical P6: Practical 3: Mini-IGEM competition
2018-9_BL2309_P6

Semester 2: Week 7

DATE & TIMEVENUESTAFFEVENT
Thursday
14-03-2019
10:00 to 11:00
Purdie Building
LTD
Dr Catherine Adamson

Lecture L16: Topic 5: Molecular tools in infectious disease I
2018-9_BL2309_L16
Friday
15-03-2019
10:00 to 11:00
Purdie Building
LTD
Dr Catherine Adamson

Lecture L17: Topic 5: Molecular tools in infectious disease II
2018-9_BL2309_L17

Reading Week: 16-Mar-2019 to 31-Mar-2019

Semester 2: Week 8

DATE & TIMEVENUESTAFFEVENT
Wednesday
03-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr Catherine Adamson

Lecture L18: Introduction to practical 4
2018-9_BL2309_L18
Thursday
04-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr Catherine Adamson

Lecture L19: Topic 5: Molecular tools in infectious disease III
2018-9_BL2309_L19
Thursday
04-04-2019
14:00 to 17:00
Bute Building
PC lab
Dr Catherine Adamson

Practical P7: Practical 4: Emerging disease outbreak
2018-9_BL2309_P7
Assessed practical
Friday
05-04-2019
10:00 to 11:00
Purdie Building
LTC


Lecture L20: No Lecture
2018-9_BL2309_L20
No Lecture
Friday
05-04-2019
14:00 to 17:00
Bute Building
PC lab
Dr Catherine Adamson

Practical P8: Practical 4: Emerging disease outbreak
2018-9_BL2309_P8
Assessed practical

Semester 2: Week 9

DATE & TIMEVENUESTAFFEVENT
Thursday
11-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr David Shuker

Lecture L21: Topic 6: Molecular tools in ecology I
2018-9_BL2309_L21
Friday
12-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr David Shuker

Lecture L22: Topic 6: Molecular tools in ecology II
2018-9_BL2309_L22

Semester 2: Week 10

DATE & TIMEVENUESTAFFEVENT
Wednesday
17-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr David Shuker

Lecture L23: Topic 6: Molecular tools in ecology III
2018-9_BL2309_L23
Thursday
18-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jens Tilsner

Lecture L24: Topic 7: Genetically modified crops I
2018-9_BL2309_L24
Thursday
18-04-2019
14:00 to 17:00
Medical and Biological Sciences Building
Biology teaching labs
Dr David Shuker

Practical P9: Practical 5: Molecular analysis of mating systems
2018-9_BL2309_P9
Friday
19-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr Jens Tilsner

Lecture L25: Topic 7: Genetically modified crops II
2018-9_BL2309_L25
Friday
19-04-2019
14:00 to 17:00
Medical and Biological Sciences Building
Biology Teaching labs
Dr David Shuker

Practical P10: Practical 5: Molecular analysis of mating systems
2018-9_BL2309_P10

Semester 2: Week 11

DATE & TIMEVENUESTAFFEVENT
Friday
26-04-2019
10:00 to 11:00
Purdie Building
LTC
Dr Catherine Adamson

Lecture L26: Feedback to practical 4/module summary
2018-9_BL2309_L26
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2309: Assessment

2-hour Written Examination = 50%, Coursework = 50%*

Assessment:
Prac 2 Result Report
Due by:
22/02/2019 17:00
Feedback due by:
15/03/2019 17:00
Type:
Turnitin
Weight:
50%
Assessment:
Prac 2 Task 2
Due by:
22/02/2019 17:00
Feedback due by:
15/03/2019 17:00
Type:
Turnitin
Weight:
0%
Assessment:
Prac 2 Task 3
Due by:
22/02/2019 17:00
Feedback due by:
15/03/2019 17:00
Type:
Turnitin
Weight:
0%
Assessment:
Practical 4
Due by:
05/04/2019 17:00
Feedback due by:
26/04/2019 17:00
Type:
Turnitin
Weight:
50%

(MMS assessment data cached: 21 February 2019 23:20:17.)


The following related information applies to all Biology modules:

School of Biology Marking Criteria: See School of Biology Undergraduate Handbook
Late submission of continuous assessment work:

All late submissions of coursework that do not require electronic submission should be made via the late submissions box in the Biomolecular Science Building (beside the Teaching Office)
Exam details: See School of Biology Undergraduate Handbook
Exam timetable: see http://www.st-andrews.ac.uk/students/academic/examinations/examtimetablescurrent/
Expected attendance: See School of Biology Undergraduate Handbook for detailed attendance requirements.
Good Academic Practice & Avoiding Academic Misconduct: See School of Biology Undergraduate Handbook
University Student Handbook: University Student Handbook
School and University regulations in the School and University Undergraduate Handbook relating to absence reporting, penalties and rules for late submission of work, extensions for coursework, return of coursework, S-coding, good academic practice and Academic Alerts.: School of Biology Undergraduate Handbook University Student Handbook
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

Who to ask

(Information in this section applies to all Biology Modules)

Questions about different aspects of the module should be directed to different people:

Questions about Contact
General teaching matters Biology Teaching Office ( bioteach@st-andrews.ac.uk )
Rescheduled or cancelled events Check your University email
Lecture or practical content The lecturer who presented the material
Completing assessed practical assignments The lecturer who set the assignment
Completing assessments Module Organiser (Dr Catherine Adamson csa21@st-andrews.ac.uk)
Marking on continuous assessment The Demonstrator or Module Organiser (Dr Catherine Adamson csa21@st-andrews.ac.uk)
Marking on exams Module Organiser (Dr Catherine Adamson csa21@st-andrews.ac.uk)
Rearranging practical days Grant Brown
Absence and/or extensions Module Organiser (Dr Catherine Adamson csa21@st-andrews.ac.uk) and the Biology Teaching Office ( bioteach@st-andrews.ac.uk )

Difficulties with academic progress which impact more than one module:

Year Coordinator

See School of Biology Undergraduate student handbook for list: http://biology.st-andrews.ac.uk/documents/UndergraduateHandbook.pdf

Overall performance, progress or future directions:

Advisor of Studies

Disability:

Disability Coordinator (Dr Jacqueline Nairn jn37@st-andrews.ac.uk)

For advice and support on any issue e.g. academic, financial, international, personal or health matters, or if you are unsure of who to go to for help:

Advice & Support Centre

Address: 79 North Street, St Andrews

Email: theasc@st-andrews.ac.uk

Web: https://www.standrews.ac.uk/ask-a-question/

Tel: 01334 462020

University assistance with urgent matters out of office hours:

Tel: 01334 476161

Web: https://www.st-andrews.ac.uk/students/advice/counselling/incrisis/

Biology Teaching Office:

We are happy to hear from you about teaching matters. The School of Biology Teaching Office is open Monday to Friday 09.00 - 13.00 and 14.00 - 17.00. School of Biology staff will respond to your emails during these hours. Our team will provide a response to you within three working days.

Biology Teaching Office, The Biology Hive, New Technology Centre, University of St Andrews, North Haugh, St Andrews, Fife KY16 9SR

Email: bioteach@st-andrews.ac.uk

Tel: 01334 463602/3566

BL2309: Contributing Staff

Dr Catherine Adamson

Dr Catherine Adamson
(Module Organiser)

Lecturer in Molecular Medicinecsa21@st-andrews.ac.uk
Dr Catherine AdamsonDr Catherine Adamson
(Module Organiser)
Lecturer in Molecular Medicinecsa21@st-andrews.ac.uk
Dr Dave FerrierDr Dave FerrierReader in Biology and Deputy Director of the Scottish Oceans Institutedekf@st-andrews.ac.uk
Dr Jacqueline NairnDr Jacqueline NairnSenior Lecturer jn37@st-andrews.ac.uk
Dr Gerald PrescottSenior Lecturergrp2@st-andrews.ac.uk
Dr David ShukerDr David ShukerSenior Lecturer in Behavioural Ecologydms14@st-andrews.ac.uk
Dr V Anne SmithDr V Anne SmithSenior Lecturervas1@st-andrews.ac.uk
Dr Jens TilsnerDr Jens TilsnerLecturerjt58@st-andrews.ac.uk
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2309: Learning Outcomes

Students completing module BL2309 successfully should be able to:

  • identify a range of key techniques that are commonly used in molecular biology.
  • describe the concepts behind key molecular biology techniques, which generally require the manipulation of DNA, RNA, protein or lipid.
  • discuss examples of how molecular biology techniques are used to address current questions and problems across a broad range of biological disciplines.
  • have insight into the topic: The era of omics
  • have insight into the topic: Gene editing
  • have insight into the topic: Molecular evolution and comparative genomics
  • have insight into the topic: Molecular tools in ecology
  • have insight into the topic: Molecular tools in infectious disease
  • have insight into the topic: Genetically modified crops
  • have insight into the topic: Synthetic biology
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2309: Acquired Skills

Practical Skills

  • Database interogation

Transferable Skills

  • Short group presentation on given topic (up to 15 min)
  • "Short" practical write-up (e.g. completed worksheet)
  • Critically evaluating sources/information
  • Finding information on the web
  • Searching databases
  • Problem-solving questions
  • Calculations/equations
  • Concentrations
  • Data analysis
  • Data presentation
  • Descriptive statistics
  • Linear regression
  • Logarithms
  • Phylogenetic analysis
  • Powers of ten
  • Produce graphs/figures
  • Produce tables
  • Use Excel
  • Use other data analysis software
  • Working in pairs/small groups
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

Policies

(Information in this section applies to all Biology Modules)