2011 Undergraduate Handbook

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| 2011 School of Biological Sciences Undergraduate Handbook

Contents

Welcome 3

Enrolment information

Important dates 5

Admission and enrolment procedures 5

Undergraduate enrolment - where to from here 7 Preparing for degree level study

Tertiary Foundation Certiﬁ cate Biology 8

Tuäkana Programme 8

Planning a degree programme

BSc (Biological Sciences) 9

BSc(Hons) 9

BTech in Biotechnology 9

BSc & BSc(Hons) Biomedical Science 10

BSc & BSc(Hons) Bioinformatics 10

BSc Ecology 11

Academic programme structure 12

Transition points structure 12

General Education 12

Postgraduate programmes 13

Academic information

Academic year 14

Field Trip dates 15

Course descriptions

Stage I courses 16

Stage II courses 19

Stage III courses 23

Further information 32

Teaching and attendance 33

Awards of marks and grades

Requirements for Honours 34

Applications for aegrotat and compassionate consideration 34

SBS examination grades 34

Assignments: late policy 35

Missed examinations 35

Scholarships and prizes 35

Academic honesty, cheating and plagiarism 36

Advice and support for students

Improve your English language skills 38

DELNA 38 ELSAC 38

WAVE student support service 39

SBS Staff/Student Liaison Committee 40

Harassment 40

Information Commons 41

Student Learning Centre 41

University Library 42

Careers 43

Research Section 44

Staff and facilities

Staff directory 51

Buildings and facilities 56

Research and teaching facilities 58

Student support services 59

Campus maps 60

Disclaimer

Although every reasonable effort is made to ensure accuracy, the information in this document is provided as a general guide only for students and is subject to alteration. All students enrolling at The University of Auckland must consult its ofﬁ cial document, the Calendar of The University of Auckland, to ensure that they are aware of and comply with all regulations, requirements and policies.

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Kia Ora

Welcome

to the

_{Biological Sciences}

School of

As the new millennium unfolds, the impact of biology on our lives continues to broaden. New developments have carried the discipline into applications not even thought possible as little as a decade ago. For the new generation of biologists it is more imperative than ever to keep the subject in perspective, because the future lies in developing skills in both the molecular and whole organism / ecosystem aspects of the discipline. Indeed, one of the advantages of studying biology at The University of Auckland is the wide range of subject areas which are taught and the subsequent possibility of integrating both molecular and whole organism aspects of biology in a single degree.

Students who major in Biological Sciences are required to include a broad range of courses at undergraduate level and many continue with a more specialised focus at PGDipSci, BSc(Hons), MSc and PhD level. Courses from the Biological Sciences schedule are an integral part of a variety of other programmes including BSc/ BSc(Hons) Biomedical Science, BSc(Hons) Bioinformatics, BSc (Ecology), BSc/BSc(Hons) Food

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Science, BSc Marine Science, BSc/BSc(Hons) Medicinal Chemistry and BTech Biotechnology. I am conﬁ dent that the School is offering an exciting and challenging education in the biological sciences and I look forward to working with you over the next few years as you proceed through your degree programme. Details speciﬁ c to Biological Sciences courses are included within this publication. Further information on the structure of particular programmes or

specialisations is available in the Science Faculty Prospectus and in the University Calendar. The staff of our Student Resource Centre are available to provide further guidance and assistance and enquiries are most welcome. Best wishes

Dr Judy O’Brien

Deputy Director (Academic) School of Biological Sciences

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Important Dates

Closing dates for applications for admission in 2011

1 December 2010 Deadline for new students to submit Application for Admission if 2011 programme includes Summer School courses.

Application for Admission also closes 1 December for all students applying to Optometry and to Sport and Exercise Science.

8 December 2010 Deadline for new students to submit Application for Admission if 2011 programme includes Semester One and Semester Two courses only. If you are a new student, only one Application for Admission is required. Applications received after these dates may be accepted if there are places available.

Enrolment Information

Admission and enrolment

procedures

New students

For all students not enrolled at The University of Auckland in 2010, apply online at www.auckland. ac.nz/apply_now. If you are unable to access our website, please call 0800 61 62 63 or visit the Student Information Centre at 22 Princes Street, Auckland. This is open Monday to Friday from 8am–6pm and Saturday 9am–12noon during peak times.

Student Information Centre Room 112

Level 1 (Ground Floor) The ClockTower Building 22 Princes Street Auckland City Campus Phone: +64 9 923 1969 or 0800 61 62 63 Fax: +64 9 367 7104

Email: [email protected]

The closing date for most undergraduate Science applications is 8 December 2010.

If you want to take courses at Summer School, or wish to apply to Sport and Exercise Science or the Bachelor of Optometry, applications close 1 December 2010.

Only one application is required.

After submitting your application:

Your application will be acknowledged by email. Your application will be assessed and, if successful you will receive an “Offer of a place in a programme” . You may receive a conditional offer, but ﬁ nal approval will be dependent on fulﬁ lment of the conditions of admission to the University and the programme.

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Director Stage I Teaching

Ms Mandy Harper Director, Stage I Teaching Biology Building Room 101, Phone: + 64 9 373 7599 Ext 87794 [email protected]

Stage II & III Course Coordinator

Mrs Libby Hitchings

Advanced Courses Coordinator Biology Building Room 104 Phone: +64 9 373 7599 Ext 88703 [email protected]

Changing courses

Choose carefully at the beginning. It is however, possible to add and delete courses within the ﬁ rst two weeks of each semester, without penalty (ie tuition fees are refunded for deletions). After this

Departmental advice

If you have queries about particular courses, or require academic advice, information about prerequisites or relevant background to a course of study, the following SBS staff are available to

assist:-During the application process, you will be given a Net ID and password, which will allow you to access Student Services Online. Here you will be able to monitor the progress of your application and check if further documentation is required. Once you have accepted an offer of place, you will gain access to the Enrolment module on Student Services Online. You can then proceed to enrol in courses online. Postgraduate students may need to contact their department for enrolment to be completed.

Returning students

If you are currently enrolled at The University of Auckland in 2010 and are applying for a new programme (for example MSc after completion of BSc(Hons)), you should apply using Student Services Online. Visit www.auckland.ac.nz/ apply_now.

You will be able to enrol through Student Services Online, but if you would like help, please call 0800 61 62 63 or visit the Student Information Centre or the Faculty of Science Student Centre (Ground Floor, Building 301, 23 Symonds Street). Postgraduate students may need to contact their department for enrolment to be completed. The University of Auckland will be open for enrolment from November 2010 to the end of February 2011. You are welcome to attend at any time during normal ofﬁ ce hours to seek academic or enrolment advice or assistance in completing your enrolment.

NB: Enrolment for BIOSCI 106 and 107, and all Stage II and III BIOSCI courses will open on 15 December 2010.

time, you may not enrol in new courses for that semester, and if you are unable to continue a course a “withdrawal” appears on your academic record. Withdrawing from courses can be done with consultation of the Associate Dean (Academic Programmes) until the third week before the end of lectures. However, tuition fees are not refundable in these cases. The regulations for changing courses are outlined in the latest version of The University of Auckland Calendar.

Enrolment instructions received by students will indicate how to go about adding and deleting courses once semesters have begun.

For Stage I:

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Undergraduate enrolment - where to from here?

Yes

• Log on to www.auckland.ac.nz • Click on Apply Now.

• Complete the online Application for a place in your programme(s) of choice. • You will receive an acknowledgement email asking you to provide speciﬁ c certiﬁ ed

documents (and in some cases to complete other requirements*) before your application can be assessed. The letter or email will also tell you how to complete the next steps.

No

Phone: 0800 61 62 63 (or +64 9 923 1969 if overseas) Email: [email protected] The ClockTower Call Centre will forward required information to you.

Accept

Accept or decline your offer of a place in a programme online. Remember – you still need to enrol in your courses!

Enrol in your choice of courses

Enrol in courses via Student Services Online using your login and password. This system can be accessed from www.auckland.ac.nz

For help with choosing courses you can:

• talk to staff for advice and listen to talks on various programmes at Course Advice Day in late January/February 2011

• refer to www.science.auckland.ac.nz or to publications relating to your programme, or to The University of Auckland Calendar. For programme publications call 0800 61 62 63. The Calendar is for sale in bookshops or can be accessed from www.auckland.ac.nz Click on “Current Students” then “University Calendar” in the Quick Links box

• go online to check the timetable for your chosen courses

• for more information visit the Faculty of Science Student Centre, Ground Floor, Building 301, 23 Symonds Street

• or call 0800 61 62 63.

Pay your tuition fees.

*For some programmes, you may be required to submit supplementary information (eg, a portfolio of work, referee reports, an online form) or to attend an interview/audition. If you have not already done this, any outstanding requirements will be explained in the acknowledgement letter – ensure that you follow them up as quickly as possible.

**You can also check the status of your application online using your login and password (if you don’t know these, check the instructions on your acknowledgement letter). If you are not offered a place in the programme(s) of your choice, you will receive a letter outlining alternative options. Please follow the advice on the letter or get in touch with the ClockTower Call Centre. Your ﬁ nal offer of a place is dependent both on you gaining admission to the University (which for school leavers may be dependent on your ﬁ nal school results) and assessment by the faculty offering the programme.

You are now a University of Auckland student. Congratulations!

Enquire

Visit www.auckland.ac.nz or contact our student advisers for any information you need. Phone: 0800 61 62 63 | Email: [email protected]

Student Information Centre: Room 112, ClockTower, 22 Princes St, Auckland

Apply for a place in a programme(s)

Do you have internet access, or can you come on to campus to our help labs?

Offer

Your application will be assessed and, if successful, you will receive an “Offer of a place in a programme”. This normally happens from mid January.**

You may receive a conditional offer but ﬁ nal approval will be dependent on fulﬁ lment of the conditions of admission to the University and the programme.

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The University of Auckland

Tertiary Foundation Certiﬁ cate

Biology BIOSCI 91F, 92F

The Foundation Programme comprises English and Maths plus two other subjects, from a choice of courses, including two offered in Biology (one per semester). The courses are full time and are designed as preliminary courses to Stage one for students with inadequate educational

backgrounds. The CUAP approved Tertiary Foundation Certiﬁ cate is recognised by institutions throughout New Zealand. The Semester One Biology course BIOSCI 91F provides an introduction to unity in biological sciences. The structures and processes common to all living things at the cellular and molecular levels are introduced in the ﬁ rst half of the course. Genetic principles and processes and an overview of evolutionary concepts are explored in the second half. Laboratory classes complement and reinforce lecture material and several are computer-based utilising multi-media learning tools.

In Semester Two concepts introduced in BIOSCI 91F are further developed with an emphasis on the diversity of living things (including bacteria, plants, fungi and animals). Fundamentals of classiﬁ cation and ecology are introduced and the study of a current topic in biology is used to develop research and critical thinking skills. Practical classes are both laboratory and ﬁ eld-based.

Assessment includes in-course assignments, tests and practical evaluations, together with one ﬁ nal two hour examination per course. Students gaining high grades are well prepared to

continue in any of the Stage I Biology courses, especially BIOSCI 101. Successful students are also qualiﬁ ed for entry to polytechnics, for courses such as nursing, food technology or laboratory technician training or for entry into teacher training.

For further information on the Tertiary Foundation Certiﬁ cate please contact Gill Stringer

(Secretary)

Room 403, Level 4, Arts 1 Building 18 Symonds Street

Phone: +64 9 373 7599 ext 84145 Fax: +64 9 373 7429

[email protected]

Tuäkana Programme

The Tuäkana Programme provides peer tutorial assistance for Mäori and Paciﬁ c Island students taking ﬁ rst year Biology courses. The programme is supported by the School of Biological Sciences and cooperates with similar programmes in Science departments and in the Faculty of Medicine and Health Sciences. Students are contacted early in the academic year to arrange meeting times. The Programme is based in Room 111 at the Student Resource Centre.

Biology Programme Coordinator: Professor Michael Walker Email: [email protected]

Preparing for degree level

study

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Planning a programme in

Biological Sciences

The Bachelor of Science (BSc) programme offers the opportunity for many subject majors in scientiﬁ c areas, including Biological Sciences. The BSc programme can be completed in a minimum of 6 semesters. All Stage I courses and almost all other courses for BSc have a value of 15 points.

A BSc degree requires 360 points of which: • at least 180 points are above Stage 1. • at least 75 points at Stage III including 60

points in a ﬁ rst major or 45 points in a second major,

• 30 points of General Education. Not more than 30 points from outside the Science schedule.

BSc (Biological Sciences)

To major in Biological Sciences, students will require:

• BIOSCI 101

• at least 45 points from BIOSCI 100, 102, 103, 104, 106, and 107

• a minimum of 15 points in at least 2 of the following

BIOSCI 201-203

BIOSCI 204, 205, 208 BIOSCI 206, 207, 210 • at least 60 points

from BIOSCI 320 - BIOSCI 396 if a ﬁ rst major or 45 points if a second major. See individual course descriptions (listed pages 20 to 32) for details about each course including point value, semester taught, campus, prerequisites, exam/course weightings, and the names of course co-ordinators.

A typical workload will involve 4 courses per semester, an average of 8 courses (120 points) per year.

BSc(Hons)

This programme requires students to have completed the requirements for the Degree of BSc including at least a B average in 90 points at Stage III, with at least 60 points in Biological Sciences. With the permission of the Director 15 points at Stage III in related courses may be substituted. To complete BSc(Hons) students must pass courses with a total value of 120 points including a 45 point dissertation.

Bachelor of Technology (BTech

Biotechnology)

A programme of study leading to the degree of Bachelor of Technology in Biotechnology is offered jointly between the School of Biological Sciences and the Department of Chemical and Materials Engineering in the School of Engineering. This programme may be awarded with Honours and requires four years of study in which a defi ned set of topics within the Faculties of Science and Engineering are covered in the fi rst three years. In the fi nal year students study a set of specialist courses specifi c to this programme and undertake a project in Biotechnology.

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Selection Criteria for the BTech BioTechnology

First year students must meet the required rank score for entry to BTech (Biotechnology). See Faculty of Science prospectus. Students who achieve a GPA of 5(B Average) in their ﬁ rst year will be eligible to be considered for selection into Part II at the end of their ﬁ rst year.

Further information relating to this programmme can be obtained from Coordinator:

Dr Kerry Loomes,

School of Biological Sciences Phone: +64 9 373 7599 Ext 88372 Email: [email protected]

BSc and BSc(Hons) Biomedical

Sciences

The BSc and BSc(Hons) in Biomedical Science are three and one year degree programmes respectively, for selected very able students. The ﬁ rst two years of the BSc provide foundation teaching. First year students will take core courses from the Overlapping Year One, in common with students enrolled in health sciences programmes. These include courses in biological sciences, chemistry and physics. Students wishing to apply for entry into Medicine for 2011 need to include Population Health (POPLHLTH 111) as one of their ﬁ rst year courses. Students are strongly encouraged to include biological sciences, chemistry, physics or statistics as electives. In the second year, Biomedical Science students will complete core courses in disciplines fundamental to biomedical science. These include anatomy, biochemistry, cellular and molecular biology, genetics, microbiology, pathology, pharmacology and physiology. In Year 3, students may specialise in a particular area of biomedical science. The inter-disciplinary options available will include cancer biology and

therapeutics, cellular and molecular biomedicine, microbiology and immunology, cardiovascular biology, genetics and development, neurobiology, nutrition, and reproduction, growth and

metabolism, all areas which reﬂ ect Auckland’s research strengths in Biomedical Science. Bachelor of Science (Honours) students will complete a fourth research year focused on the ﬁ eld with exposure to a range of advanced methods.

Third year students not going on to Honours can complete a PGDipSci followed by MSc. Further information relating to this programme can be obtained from

Coordinator: Margaret Goldstone,

Associate Dean (Academic Programmes) Faculty of Science,

Phone: +64 9 373 7599 Ext 88622, Email: [email protected]

BSc & BSc(Hons) Bioinformatics

Bioinformatics involves the development and application of computational methods with the aim of extracting information from biomolecular and genetic data to answer questions in biology, biotechnology and medicine.

In Year 1, BSc students will take a selection of courses from Mathematics (MATHS 108 or 150), Statistics (STATS 101, 108 or 125), Biology (BIOSCI 101, 106, 107), Computer Science (COMPSCI 101, 105) and Chemistry (CHEM 110). In Year 2 there is a requirement for speciﬁ ed courses in Biology (BIOSCI 201, 202), Computer Science (COMPSCI 220, 230), Mathematics (MATHS 208 or 250) and Statistics (STATS 210). However, students can now begin to specialise in areas of their choosing by selecting elective courses from Biology, Mathematics, Statistics and Computer Science. In Year 3, all students must take BIOSCI 359 (Bioinformatics) and COMPSCI

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369 (Computational Biology). Other courses can be drawn from a list that will allow further specialisation. BSc(Hons) students complete 75 points from BIOSCI 743, 744, 789 and a further 45 points from a list of BIOSCI, COMPSCI, MATHS and STATS courses.

For further information please contact: Dr Howard Ross

Phone: +64 9 373 7599 Ext 86160 Email: [email protected]

BSc Ecology

This programme deals with the scientiﬁ c study of the interactions between animals, plants and microbes and their environment. There are four strands: Conservation Ecology and Biosecurity; Ecology, Evolution and Behaviour; Marine and Coastal Ecology; Quantitative Ecology and Modelling. These allow students to follow their particular interests while they develop a core understanding of Ecology and the necessary skills for its application.

Who should take the degree? Potential careers include:

- Conservation careers (eg. with Department of Conservation, Regional Councils.

- Biosecurity and pest management (eg. with MAF Biosecurity NZ, Councils)

- Careers in ecological restoration (in terrestrial and aquatic environments)

- Environmental policy and science advisory roles (eg. Ministry for the Environment, NGOs) - Teaching careers in ecology

- Environmental education and community liaison (eg. DOC, Councils)

- Ecological and environmental research (eg. with research agencies, consultancies)

What if I want to continue study?

Students who complete this BSc specialisation could go on to study for PGDIpSci and MSc in a range of subject areas, including Biological Sciences, Biosecurity, Geography, Environmental Sciences and Statistics.

The BSc (ecology) programme includes: Core Courses 105 points: BIOSCI 101, 104, 206, 209, ENVSCI 101, 201, STATS 101 OR 108 15 points: BIOSCI 102, 103 15 points: GEOG 101, 102 45 points: BIOSCI 202, 203, 204, 205, 207, 208, 210, GEOG 201, 205, 210, GEOLOGY 202, 205, MARINE 202, STATS 210, 220

and include one of the following options: Conservation Ecology and Biosecurity 45 points: BIOSCI 394, 396, ENVSCI 311 At least

30 points: BIOSCI 320, 321, 330, 333, 395, ENVSCI 301, GEOG 320, 330, STATS 302, 341, 351

Ecology, Evolution and Behaviour 45 points: BIOSCI 322, 337, 396 At least

30 points: ANTHRO 349, BIOSCI 320, 330,

335, 347, 394, 395, ENVSCI 301, GEOG 334, GEOLOGY 303, STATS 302, 330, 341, 351 Marine and Coastal Ecology

45 points: BIOSCI 329, 330, 333, MARINE 302 At least 30 points: BIOSCI 322, 328, 330, 335, 337, 347, 394, 395, ENVSCI 301, 310, 311, GEOG 331, 351, GEOLOGY 303, MARINE 302, STATS 302

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Quantitative Ecology and Modelling

60 points: ENVSCI 310, STATS 302, 330, 341 At least

15 points: GEOG 317, 319, STATS 351, 380

Further information is available from the Science Student Centre. The Student Centre is open Monday to Friday 8.30am-5pm.

Faculty of Science Student Centre Ground ﬂ oor, Building 301 23 Symonds Street Phone: +64 9 373 7599 Ext 87020 Fax: +64 9 373 7431 Email: [email protected] Web: www.science.auckland.ac.nz

Academic programme

structure

Points structure

From 2006, all courses were changed to a different points value. Students enrolled in a normal fulltime course of study now complete 120 points per year. The courses in most undergraduate degrees carry a value of 15 points and a normal fulltime enrolment is eight courses per year. A total of 360 points passed is required to complete the BSc degree

Transition points structure

Transition regulations apply to all students who have continued enrolment during the transition period having commenced study in their programme at this university prior to the 2006 academic year. They also apply to students who commence study in an undergraduate degree in the 2006 academic year having commenced but not completed study in a different undergraduate programme at this university between 2001 and 2005.

The Transition regulations were written to ensure that students are able to complete their qualiﬁ cation without disadvantage in terms of duration of study or the proportion of their qualiﬁ cation to be completed.

Transition regulations are available in the Transition Regulations Handbook. This handbook is available from the Science Faculty Student Centre, the Short Loans Library and online at www.science.auckland.ac.nz/transition-regulations.

General Education

Courses in General Education are a distinctive feature of University of Auckland bachelors degrees. General Education is aimed at producing graduates with ﬂ exibility, critical thinking skills, and an appreciation and

understanding of ﬁ elds outside of their usual area of study. The General Education programme consists of high quality, intellectually challenging

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courses taught by some of the University’s best teachers and researchers.

Students must take two General Education courses (30 points) in their degree. These can be taken at any time during the degree.

Students will choose General Education courses from schedules which list courses available to their particular degree. The schedules have been developed so that students will take General Education courses that allow them to explore areas of interest outside of their degree subjects. The General Education schedules are:

A) Music, Art and Contemporary Issues B) Humanities and Social Sciences C) Business and Society

D) Life Sciences E) Physical Sciences

F) Mathematical and Information Sciences G) Communication

H) Languages

Students are encouraged to seek advice on General Education in their degree from the Science Student Centre.

Postgraduate programmes

From 2006, most Masters programmes became one year degrees preceded by either a one year Bachelors Honours degree or a Postgraduate Diploma.

Doctoral students

Doctoral degrees remain essentially the same in structure and duration. The structure of the PhD is now recorded on the academic transcript in new points in accordance with the 120 points system.

For named doctorates which include courses with points, the courses have been re-weighted as part of the 120 point structure.

The courses available to students will depend on the subjects in which they are enrolled. For example, students enrolled in a Biological Sciences course will not be able to take General Education courses from Schedule D Life Sciences. In some cases, courses are available both as part of the General Education programme and as part of the portfolio of regular degree courses. If students are taking a dual purpose course as part of the General Education programme, they will enrol in the G version of the course (e.g. HISTORY 103G). The classes and programme of study will be the same for all students.

For available courses and the information required for course selection, see www.auckland. ac.nz/generaleducation.

The requirement for General Education applies to students who enrol at The University of Auckland from 2006 to begin their ﬁ rst undergraduate degree. Students enrolled prior to 2006 are not required to include General Education as part of their degree. Special arrangements will apply to students transferring from another tertiary institution with credit.

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Academic year 2011

Summer School – 2011

Lectures begin Thursday 6 January

Deadline to withdraw from summer school courses 1 week before the end of lectures

Lectures end Friday 11 February

Study break/exams* Monday 14 February - Wednesday 16 February

Summer School ends Wednesday 16 February

Semester One – 2011

Semester One begins Monday 28 February

Mid-semester break/Easter Friday 11 April - Tuesday 26 April

Graduation Thursday 28 April - Friday 6 May

Deadline to withdraw from ﬁ rst semester courses 3 weeks before the end of lectures

Lectures end Saturday 4 June

Study break/exams* Saturday 4 June - Monday 27 June

Semester One ends Monday 27 June

Inter-semester break Tuesday 28 June - Saturday 16 July

Semester Two – 2011

Semester Two begins Monday 18 July

Mid-semester break Monday 29 August - Saturday 10 September

Graduation Tuesday 20 September - Thursday 22 September

Deadline to withdraw from second semester courses

3 weeks before the end of lectures

Lectures end Saturday 22 October

Study break/exams* Saturday 22 October - Monday 14 November

Semester Two ends Monday 14 November

Semester One – 2012

Semester One begins Monday 27 February 2012

*Aegrotat and Compassionate Applications must be submitted within 1 week of the date that the examination affected took place. The medical certiﬁ cate must date to the actual day of the examination. Deadline for withdrawal from double semester courses is three weeks before the end of lectures in the second semester.

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Field Trip Dates

BIOSCI 104 Two one-day weekend ﬁ eld trips: either 19 or 20 March, North Head, and either 30 April or 1 May, Rangitoto

BIOSCI 206 Compulsory ﬁ eld trip: Saturday 19 March, Wenderholm, 9-5.30pm Residential ﬁ eld trip (either marine, behaviour or terrestrial): 15-19 April, 11-14 April, 17-21 April

BIOSCI 207 8 October, Muriwai

BIOSCI 320 2-night ﬁ eld trip: 5pm Friday 11 March - 5pm Sunday 12 March 23 March 2-5pm

BIOSCI 323 Compulsory ﬁ eld trip: 5-7 September (Mon-Wed) inclusive BIOSCI 328 Compulsory 2-day residential ﬁ eld course at Leigh Laboratory:

Trip 1: 12-13 April (Tues-Wed) inclusive Trip 2: 14-15 April (Thurs-Fri) inclusive

BIOSCI 329 Compulsory 3-day ﬁ eld trip in second half of mid Semester break: Stream 1: 5-7 September (Mon-Wed) inclusive

Stream 2: 8-10 September (Thurs-Sat) inclusive BIOSCI 330 Laboratories: Saturday 2 April and Sunday 3 April BIOSCI 333 Residential ﬁ eld trip 19-20 March

BIOSCI 337 Compulsory ﬁ eld trip in mid semester break:

Chronobiology 26 August (leave 4pm) - 28 August inclusive or Behavioural Ecology 29-31 August inclusive

or Bird Behaviour 8-11 September inclusive

BIOSCI 394 Field Trips/Lab Wednesdays all day 16 March, 4 May, 25 May BIOSCI 396 Field trip 1: 4 March (leave 4 pm) - 6 March inclusive

Field trip 2: 13 May (leave 4pm) - 15 May inclusive Laboratory 1: Wednesday, 9 March 9.30-12.30 Laboratory 2: Wednesday, 25 May evening

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Photo: Libby Hitchings

Stage I courses (1st Year)

Seven 15 point courses offered at Stage I provide an introduction to the biological sciences.

Students intending to major in Biological Sciences are required to have taken 4 Stage I Biology courses (including BIOSCI 101) in order to have an appropriate foundation in molecular biology, plant and animal biology and ecology. The courses BIOSCI 101/102/103/104 provide the most suitable combination for students interested in whole organism biology, while courses BIOSCI 101, 102 or 103, 106 and 107 offer the best choice for students who prefer the more molecular/genetic aspects of biology. More than four biological courses may be selected thus allowing students to keep the full range of biology open to them. Students wishing to enter into the Biomedical Science programme should take BIOSCI 101, 106, 107 and either BIOSCI 102 or BIOSCI 103 as their elective, plus CHEM 110, PHYSICS 160 and MEDSCI 142. This combination of courses will allow students who do not get selected into the Honours programme to continue with a BSc in Biological Sciences. To be considered for entry into Medicine, students must take POPLHLTH 111 as their elective. It is important to gain further information from sources listed below when planning your degree programme, as entry to second and third year courses is based both on academic merit and successful completion of speciﬁ ed 1st year courses. Check the schedule for prerequisites in the Calendar.

All Biological Sciences students are strongly advised to take at least one Stage I Chemistry course. Preferably, students should have taken Biology at least to NCEA Level 2 and have a background in other science subjects. Students enrolling in limited entry courses will be

considered in rank order according to their best 80 credits at NCEA Level 3 or higher (or equivalent) over a maximum of ﬁ ve approved subjects, weighted by the level of achievement attained in each set of credits.

BIOSCI 100

BIOSCI 100G Antarctica: The Frozen Continent

(15 Points) (on-line delivery) Second Semester A general introduction to Antarctica and its environs including the Southern Ocean and the sub-Antarctic islands. Emphasis will be placed on the evolution of Antarctica and how resident plants, animals and microorganisms are adapted to cope with the extreme environment. Speciﬁ c topics to be addressed include the history of Antarctic exploration and its impact on the development of Antarctic science, Antarctic ecosystems, Antarctica as a wilderness region, and the impact of humans including the exploitation of resources and the effects of pollution. This course is suitable for students with both science and non-science backgrounds. Weekly tutorials will be held Monday and Wednesday 2-3 pm

Coordinator: Dr Rochelle Constantine Assessment: Incourse 60% (Test 20%, 2 Essays

25%, On-line Quiz 10%, Literary Research Assignment 5%) Examination 40%

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Recommended textbook: D. McGonigal. Antarctica: Secrets of the Southern Continent. Simon & Schuster

See also http://www.antarctica.org.nz

BIOSCI 101 Essential Biology: From Genomes to Organisms (15 Points) (City) First Semester

An introduction to the structures and processes which are common to micro-organisms, animals and plants at the cellular, molecular and biochemical levels. Genetic principles and processes and an overview of evolution and evolutionary concepts are included. This course includes guest lectures given by graduate students in research ﬁ elds relevant to course content.

This course assumes a knowledge of NCEA Level 3 Biology and at least NCEA Level 2 Chemistry. Coordinator: Ms Amanda Harper

Assessment: Incourse 60%, (Theory 40%, Practical 20%) Examination 40% Prescribed textbook: Campbell Biology, Reece

et al. (2011) 9th Edn., (Pearson Benjamin Cummings).

BIOSCI 102 Plants, Microbes & Society (15 Points) (City) Second Semester

A multi-disciplinary approach is taken to studying the relationships between plants, microbes, and humans. The course begins with an introduction to the key characteristics of plants and microbes, and demonstrates how they are used for food and pharmaceuticals. The impact of plants and microbes on human health, as well as their role in a variety of industrial and biotechnological

processes will be highlighted. Coordinator: Mr David Seldon

Assessment: Incourse 60%, (Theory 40%, Practical 20%) Examination 40% Recommended textbook: Campbell Biology,

Reece et al. (2011) 9th Edn., (Pearson Benjamin Cummings).

BIOSCI 103 Comparative Animal Biology (15 Points) (City) Second Semester

A comparative approach to the study of animals focusing on the processes which underlie and unite all animal life. Emphasis will be placed on evolutionary relationships and history, and on the relationship between form and function and the predictability of animal design. Reference will be made to the New Zealand fauna and to other animals of economic or evolutionary importance where appropriate. The practical component of this course involves animal dissection. This is an essential part of the course. No exemptions are possible.

Coordinator: Dr Brendon Dunphy Assessment: Incourse 60% (Theory 40%,

Practical 20%), Examination 40% Prescribed textbook: Campbell Biology, Reece

et al. (2011) 9th Edn., (Pearson Benjamin Cummings).

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)BIOSCI 104

BIOSCI 104G New Zealand Ecology and Conservation

(15 Points) (City) First Semester

An introduction to the diversity of animals and plants in New Zealand including endemic, native and introduced species; biogeographical and evolutionary relationships; community structure and inter-relationships; behaviour and ecology; Maori perspectives in biology; and current conservation, environmental, social, animal welfare, and economic issues relevant to New Zealand biology.

Coordinator: Dr Rochelle Constantine Assessment: Incourse 60% (Theory 40%,

Practical 20%), Examination 40% Prescribed textbook: Parsons et al. 2006

Biology Aotearoa, Pearson Education, NZ.

Recommended textbook: Campbell Biology, Reece et al. (2011) 9th Edn., (Pearson Benjamin Cummings). Field trip: Two compulsory Saturday or

Sunday ﬁ eld trips. Either 19 or 20 March (North Head) and either 30 April or 1 May (Rangitoto)

BIOSCI 106 Foundations of Biochemistry

(15 Points) (City) Second Semester

This course will consider biochemical reactions as essential elements of life processes with reference to the genes that control them. Material covered includes: the molecular structure and action of proteins, the synthesis and metabolism of carbohydrates and fats in the fed and starved states, and elements of enzymology, energetics, metabolism, nutrition and hormonal control in health, physical performance and disease. Reference will be made to speciﬁ c biomedical examples where appropriate. This is a limited

entry course. Students are strongly advised to complete BIOSCI 101 and CHEM 110 before enrolling in BIOSCI 106.

Coordinator: Mrs Libby Hitchings Assessment: Incourse 60%, (Theory 40%,

Practical 20%) Examination 40% Recommended textbook: Campbell, M.K.,

Farrel, S.O. Biochemistry. 6th Edn. Thomson.

BIOSCI 107 Biology for Biomedical Science: Cellular Processes & Development (15 Points) (City) First Semester

The cellular and tissue level basis of mammalian form and function. Special emphasis on cellular structure and processes including membrane transport, muscle types and function, blood and the immune response, and basic neurobiology. Selected topics in human and experimental embryology will also be covered.

Practical component includes labs on cell histology, human embryology and muscle physiology. This is a limited-entry course that assumes knowledge of NCEA Level 3 Biology and at least NCEA Level 2 Chemistry.

Coordinator: Dr Mel Collings

Assessment: Incourse 60% (Theory 40% Practical 20%) Examination: 40% Prescribed textbook: Tortora, G. and B.

Derrickson. Principles of Anatomy and Physiology. 12th Edn. Wiley Recommended textbook: Campbell Biology, Reece et al. (2011) 9th Edn., (Pearson Benjamin Cummings).

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The Stage II offering consists of a selection from ten courses. It is designed to provide a balanced and integrated approach to genetics, ecology, evolution, biochemistry, microbiology, plant and animal studies. Stage II courses provide a basis for further specialised study and are prerequisites for certain Stage III courses. For example, students advancing in either biochemistry or cellular & molecular biology should take both BIOSCI 201 and BIOSCI 203 at Stage II.

To advance to Stage III courses, most students will require at least 3 courses from the Stage II selection. Most have limited entry based on the grade point average (GPA) calculated from results attained in previous semesters.

A minimum of one course (15 points) must be taken from at least 2 of the following groups: Group 1:

BIOSCI 201 Sem I (City) Cellular & Molecular Biology

BIOSCI 202 Sem 2 (City) Genetics BIOSCI 203 Sem 2 (City) Biochemistry Group 2:

BIOSCI 206 Sem 1 (City) Principles of Ecology BIOSCI 207 Sem 2 (City) Adaptive Design BIOSCI 210 Sem 2 (City) Evolution and the

Origins of Life Group 3:

BIOSCI 204 Sem 1 (City) Principles of Microbiology BIOSCI 205 Sem 2 (City) Plant, Cell and

Environment BIOSCI 208 Sem 1 (City) Invertebrate

Diversity Students intending to advance to the

postgraduate level in Biological Sciences should note the importance of a sound basis in

Biometry (Biological Statistics). All students in Biological Sciences are strongly advised to include BIOSCI 209 BIOMETRY in their undergraduate programme.

BIOSCI 200 Current Topics on the Biology of Humans

(15 points) This is not available in 2011

BIOSCI 201 Cellular and Molecular Biology (15 points) (City) First Semester

The basic structures of biomolecules, the structure of cells and their organisation into tissues and organs, and viruses, are examined ﬁ rst. This is followed by a study of the nucleus, DNA, RNA and protein synthesis and the regulation of gene expression. Further sections deal with recombinant DNA technology, cellular development, cancer, and the basis of immunity. Prerequisites: BIOSCI 101, 30 points from

(BIOSCI 102-107, MEDSCI 142) and 15 points from CHEM 110, 120, 150

Coordinator: Dr Ken Scott

Assessment: Incourse 40% (Theory 25%, Practical 15%), Examination 60% Textbook: Lodish et al. (2004) Molecular

Cell Biology. 6th Edn, Freeman.

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| 2011 School of Biological Sciences Undergraduate Handbook BIOSCI 202 Genetics

(15 points) (City) Second Semester

The basic principles of mutation, recombination and genetic mapping are established in this course. These principles are then developed in a variety of prokaryotic and eukaryotic organisms. Laboratory work uses molecular, microbial and eukaryotic material to explore the key features of heredity.

Prerequisites: 30 points from Stage I Biological Sciences including BIOSCI 101 Coordinator: Assoc. Prof. Brian Murray Assessment: Incourse 62.5% (Theory 37.5%,

Practical 25%), Examination 37.5%

Recommended textbooks:

Grifﬁ ths, Miller, Suzuki et. al. An Introduction to Genetic Analysis. 8th or 9th Edn. WH Freeman Pierce B.A., Genetics: a

conceptual approach. 3rd Edn, W.H. Freeman.

BIOSCI 203 Biochemistry

(15 points) (City) Second Semester This course presents core areas of modern biochemistry. Emphasis is on macromolecular structure and function. Areas covered include protein structure, oxygen and carbon dioxide transport in humans and other species, metabolism in mammals, proteases and human disease, cholesterol metabolism and transport and signal transduction.

Prerequisites: BIOSCI 101, 106 and 15 points from either CHEM 110 or 120 Coordinator: Assoc. Prof. Tom Brittain Assessment: Incourse 50% {Test 25%

Practical 25%) Examination 50% Recommended textbooks:

Berg et al., (2002) Biochemistry. 6th Edn. W.H. Freeman Lodish et al. (2004) Molecular Cell Biology, 6th Edn, Freeman

BIOSCI 204 Principles of Microbiology

(15 points) (City) First Semester

This course provides an introduction to the diversity, physiology and functions of

microorganisms (prokaryotes, eukaryotes, viruses) as individuals and as communities. The

fundamental roles of microorganisms in ecosystems, health and disease are considered alongside methods for their isolation and study. Microbial applications in biotechnology, food production, agriculture and industry are also discussed.

Prerequisites: BIOSCI 101 and at least 15 points from BIOSCI 102, 106, 107

Coordinator: Dr Susan Turner

Assessment: Incourse 50% (Theory 30%, Practical 20%), Examination 50%

Textbook: Prescott, Harvey & Klein Microbiology, 6th or 7th Edn. (2005) McGraw-Hill.

BIOSCI 205 Plant, Cell and Environment

Unlike animals, plants cannot move to respond to changes in their environment. Plants have evolved

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diverse signaling systems and the ability to grow towards their essential resources. This course explores the intricate ways plants function: how they are able to respond to developmental and environmental signals at the whole plant and cellular level.

Prerequisites: BIOSCI 101 and 15 points from BIOSCI 102, 104, 106, 107 Coordinator: Dr Karine David

Assessment: Incourse 50% (Theory 25%, Practical 25%), Examination 50%

Prescribed Textbook: Taiz, L., and Zeiger, E. Plant Physiology. 4th Edn. Sinauer.

BIOSCI 206 Principles of Ecology

Ecology is the study of living organisms (plants, animals and microbes), their relationships with one another and with their environment. This course examines ecosystem processes, factors that affect distribution and interactions of organisms, population ecology, and applications of ecology such as restoration and conservation. The key principles of ecology are taught in a New Zealand context emphasising an experimental approach.

Prerequisites: BIOSCI 101, 104 and 15 points in either STATS 101 or 108 Coordinator: Dr James Russell Assessment: Incourse 70% (Practical

Assignments 40%, Test 30%), Examination 30%

Prescribed textbook: Molles, Ecology 4th Edn. McGraw-Hill

Field trips: 19 March (one day compulsory

trip to Wenderholm) Residential ﬁ eld trips (Either Marine 15-19

April, Behaviour 11-14 April or Terrestrial 17-21 April)

BIOSCI 207 Adaptive Design

Organisms are found in almost all habitats on earth, from the abyssal depths of the oceans to the tops of mountains. The course covers the principles of evolutionary adaptation to different habitats and their application to behaviour, morphology,physiology and life histories. Comparative examples are drawn from diverse life forms and contexts, including the biology of dinosaurs, how animals navigate, the evolution of ageing, foraging, parental care and

communication, costs and beneﬁ ts of sex and an evolutionary account of human nutritional biology.

Prerequisites: BIOSCI 101 and 15 points from BIOSCI 102-104, 106, 107 Course Co-ordinator: Dr Stuart Parsons Assessment: Incourse 60% (Practical 20%,

Test 40%) Examination 40% Field Trip: 8 October Muriwai

BIOSCI 208 Invertebrate Diversity

(15 points) (City) First Semester Invertebrates make up over 95% of animal species. This course explores the biology of invertebrates with an emphasis on structure, function, life histories, behaviour and ecology. Invertebrate diversity is examined in a variety of

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environments, using New Zealand examples where possible, and provides the basis for advanced courses in conservation and marine ecology.

Prerequisites: BIOSCI 101 and 103 Coordinator: Dr Mary Sewell

Assessment: Incourse 60% (Theory 20%, Practical 40%) Examination 40%

Recommended text: Anderson, D.T. (2001). Invertebrate Zoology. Oxford University Press.

BIOSCI 209 Biometry

Biological patterns and processes are inherently variable. Quantitative description and analysis of biological variability is essential for making progress in all areas of biological research and statistics is central to this endeavour. This course provides an introduction to statistics for biologists. Topics include the description of data, probability distributions, experimental design, model building, regression (including multiple and logistic regression), one and two-way analysis of variance, nested ANOVA, chi-squared goodness-of-ﬁ t tests, and multivariate plots. It is strongly recommended that students have taken mathematics to Year 13 level.

Prerequisites: 15 points in either STATS 101 or 108 and 30 points from Biological Sciences, Environmental Sciences or Geography.

Coordinator: Dr Wayne Stewart (Statistics) Assessment: In course test 15%, Assignments

20% (5% each), Quizzes 5% and Examination 60%

Textbook: Sokal, R.R. & Rohlf, F.J. 1995.

Biometry: The Principles and Practice of Statistics in Biological Research, 3rd Edition. W.H. Freeman & Co., New York.

BIOSCI 210 Evolution and the Origins of Life (15 points) (City) Second Semester

Part 1 covers basic concepts in evolutionary biology including Darwin and the theory of evolution by natural selection, phylogenetics, population genetics, molecular evolution, speciation and extinction. Part 2 explores the extent to which Darwin’s theory of evolution by natural selection can explain the origins of biological complexity i.e. the evolutionary history and origins of life and topics ranging from life in the primordial soup, through to the history and origins of cells, sex, societies and language. Prerequisites: BIOSCI 101 and 15 points from

BIOSCI 102-104, 106, 107 Coordinator: Dr Mat Goddard

Assessment: Incourse 45% (1 Essay @ 15%, 2 Lab reports @ 15% each)) Examination 55%

Prescribed textbook: Stearns, S. and Hoekstra, R., Evolution: An Introduction, 2nd edition 2005, Oxford University Press

Recommended textbook: Origin and Early Evolution of Life, 2002, T. Fenchel, Oxford Uni Press

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Stage III courses (3rd Year)

BIOSCI 320 Pure and Applied Entomology (15 points) Tämaki (Labs in City) First Semester An introduction to the systematics and evolution of insects describing the major lineages and discussing the role insects play in different ecological systems and their behaviour. This course also examines the role of insects as pests (including as vectors of disease) and describes various control measures and how these methods are integrated. Practicals include a 2-night ﬁ eld trip, and insect collection.

Prerequisites: BIOSCI 103 and 15 points from Stage II Biological Science courses

Coordinator: Dr Greg Holwell Assessment: Incourse 70% (Test 30%,

Assignments 20%, Insect Collection 20%). Examination 30%.

Field trip: Compulsory 2-night ﬁ eld trip 11-12 March.

23 March 2-5pm Recommended textbooks: Gullan, P.J. &

Cranston, P.S. The Insects: An Outline of Entomology. 3rd Ed. Chapman and Hall.

If you are interested in crop protection we suggest you take BIOSCI 320 and 321 together.

BIOSCI 321 Plant Pathology (15 points) (City) First Semester

Microorganisms are of major importance to horticulture and agriculture. This course examines the biology of plant pathogens, plant-microbial interactions at the cellular and molecular level, and the epidemiology and control of plant diseases. Practicals will focus on techniques for isolation, culture, identiﬁ cation and study of plant pathogens.

Prerequisites: BIOSCI 204 or 205 Coordinator: Assoc. Prof. Mike Pearson Assessment: Incourse 60% (Theory 30%,

Practical 30%), Examination: 40%

Textbook: Agrios, G.N. Plant Pathology. 5th Edn. AP.

If you are interested in crop protection we suggest you take BIOSCI 320 and 321 together. A wide range of specialist courses is offered at Stage III. Most have limited entry based on the grade point average (GPA) calculated from results attained in previous semesters.

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| 2011 School of Biological Sciences Undergraduate Handbook BIOSCI 322 Evolution of Genes,

Populations and Species

(15 points) (City) Second Semester A thorough understanding of evolutionary principles and applications is critical for study in a wide variety of ﬁ elds, including ecology, physiology, microbiology, development, molecular biology, biomedicine and bioinformatics. This course progresses from the basic Stage II material to explore the most recent theoretical advances in evolutionary thought, and how they can be applied at the DNA, population and species levels. SBS staff present their current research in ﬁ elds including:

• conservation genetics and biogeography • phylogenetics and speciation

• experimental molecular evolution and the mechanisms of selection

• sexual selection • genome evolution

Practical work includes phylogenetic analyses, computer simulations, and hands-on lab research into the conservation genetics of endangered species using PCR techniques.

Prerequisite: BIOSCI 202 and 210 Coordinator: Dr Shane Lavery

Assessment: Incourse 50% (Terms Test 20%, Practical 30%) Examination: 50% Prescribed textbook: D.J. Futuyma,

Evolutionary Biology, 3rd Edition or D.J. Futuyma, Evolution (2009) 2nd Edition (Sinauer).

BIOSCI 323 Plant Diversity

(15 points) (City) Second Semester An introduction to plant systematics, plant reproductive strategies, and the evolution of

plants with a comprehensive survey of the characteristics and distributions of the major plant groups. Coverage will also include classical and phylogenetic approaches to plant

identiﬁ cation, and applications of systematics. Practical work will focus on tools for identifying plants, introduction to plant diversity in the lab and ﬁ eld, and development of a herbarium collection.

Prerequisite: BIOSCI 102 or 104 and 30 points at Stage II in Biological Sciences, Environmental Science or Geography.

Coordinator: Dr Bruce Burns

Assessment: Incourse 60% (Incourse Test 20%, Plant ID and test 5%, 2 assignments 15%, 20%) Examination: 40% Prescribed textbook: To Be Advised Field trip: A compulsory residential ﬁ eld

course will be held during the Semester Two mid-Semester break 5-7 September inclusive. Other optional day trips will be announced in class.

BIOSCI 328 Fisheries and Aquaculture

Harvest and capture of aquatic organisms and inter-relationships with aquaculture. Fisheries and aquaculture are treated not as distinct disciplines but in the context of integrating exploitation and sustainable environmental integrity. Case studies include deepsea and coastal ﬁ sheries, and shellﬁ sh culture. Prerequisites: BIOSCI 207 or 208

Coordinator: Dr Neill Herbert (Leigh Marine Laboratory)

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Assessment: Incourse 50% (Field Course Assignment 30%, Test 20%) Examination 50%

Recommended textbook: Jennings, S, Kaiser MJ, Reynolds JD. Marine Fisheries Ecology Blackwell Science, Carlton, Victoria, Aus. Field trip: A residential ﬁ eld course at the

Leigh Marine Laboratory during the Semester 1 mid Semester break is compulsory and fulﬁ ls the practical requirements of the course. The dates are 12-13 April 2011 or 14-15 April inclusive.

BIOSCI 329 Biology of Fish

(15 points) (City) Second Semester A comprehensive coverage of the biology of ﬁ shes including their evolution, diversity and organismal biology. Coverage includes habitats of particular interest to New Zealand such as Antarctica, the deep sea, coral and temperate reefs, and New Zealand’s lakes and rivers.

Prerequisites: BIOSCI 207 or 208

Coordinator: Assoc. Prof. Kendall Clements Assessment: Incourse 50% (Essay 10%,

Practical 40%), Examination 50% Field trip: A compulsory 3 day ﬁ eld trip will

be held in the second half of mid-Semester break, either 5-7 or 8-10 September.

Recommended textbook: Helfman, Colette, Facey, Bowen. The Diversity of Fishes. 2nd Edn. Wiley-Blackwell (2009)

BIOSCI 330 Freshwater and Estuarine Ecology

The structure, biodiversity and ecology of lakes, streams, wetlands and estuaries and linkages with near-shore marine habitats. Emphasis is placed on the role of science in monitoring and managing these ecosystems. Case studies include impacts of Auckland’s urban sprawl on stream, estuarine and near-shore marine habitats, and local estuaries as nurseries for ﬁ sh.

Prerequisites: BIOSCI 206, or BIOSCI 104 and 15 points from BIOSCI 205, 207, 208 and STATS 101 or 108 Coordinator: Dr Richard Taylor (Leigh Marine

Laboratory)

Assessment: Incourse 50% (Field Report 20%, Essay 20%, Lab Report 10%) Examination 50%

Field trip/laboratory: 2 and 3 April

BIOSCI 333 Marine Ecology

Marine ecology includes patterns and processes in the ecology of benthic and pelagic plants and animals, including how environmental factors and physiology inﬂ uence species distribution and abundance. Lectures cover: measuring biodiversity at population (including molecular), species and ecosystem levels; ecology of phytoplankton and seaweeds including factors that inﬂ uence their growth and productivity; plant-herbivore interactions and chemical ecology; and interesting case studies related to research at the university. Practical work includes collecting and analysing ecological data with regard to landscape (habitat and community) biodiversity, and a laboratory study of nutrient uptake in seaweeds.

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Prerequisite: BIOSCI 206, or 104 and 15 points from BIOSCI 205, or 207 or 208 and STATS 101 or STATS 108

Coordinator: Associate Professor Mark Costello (Leigh Marine Laboratory)

Assessment: Assessment: In course 45% (15% examination, 30% practical), Examination 55%

Field trip: Residential at Leigh Marine Laboratory. 19-20 March Recommended textbook: Kaiser M., et al.

(2005) Marine Ecology: Processes, Systems and Impacts. Oxford University Press, Oxford.

BIOSCI 335 Ecological Physiology

15 points) (City) Second Semester This course focuses on the strategies used by animals to cope with physical and biological challenges in the environment. Accordingly, we work at the level of the individual and the interface between physiological, biochemical or molecular approaches on the one hand, and ecology on the other. The adaptive strategies employed by a range of species, with an emphasis on aquatic organisms, in response to physical factors such as temperature, oxygen and food availability are considered. Energetics and nutrition are emphasised. The course aims to meet the needs of students with ecological interests wishing to recognise the experimental approach to solving problems in environmental biology. The practical work is project oriented with some laboratory work.

Prerequisites: BIOSCI 207 or 208 Coordinator: Dr Tony Hickey

Assessment: Incourse 50% (Practical 40%,

Theory Test 10%) Examination 50%

BIOSCI 337 Animal Behaviour

This course will provide you with an introduction to all major facets of the study of animal behavior with special attention to its evolution and ecological signifi cance. In addition to identifying major patterns and processes of animal behavior, we will discuss observational and experimental techniques used to study behavior and explore major theoretical models directing past and current research in this fi eld. Topics include methods for the observation and quantifi cation of behaviour, natural selection and evolution of behaviour, orientation, circadian rhythms, neural and physiological mechanisms of behavior, communication, aggression, sexual reproduction, parental investment, mating systems, and social behaviour. Knowledge of BIOSCI 206 is recommended.

Prerequisites: BIOSCI 207 and (STATS 101 or 108 or BIOSCI 209)

Coordinator: Prof. Mike Walker

Assessment: Incourse 65% ( Practical 30%, Theory Test 35%), Examination 35%

Field trip: One compulsory ﬁ eld trip will be held in mid semester break. 4pm Friday 26 August - Wednesday 31 August Recommended textbook: Krebs, J., Davies, N.

(1993). An Introduction to Behavioural Ecology. Third Edition. Blackwell.

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BIOSCI 340 Plant Cell Biology and Biotechnology

(15 points) (City) Second Semester This course focuses on selected topics in Plant Biotechnology and Plant Molecular Science. The lectures are presented by staff who are actively researching these areas from the University and from the nearby Crown Research Institute - Plant and Food Research. The information presented comes from application of a range of approaches - plant molecular biology, genetics, genomics, phylogenetics, cell biology, chemistry, biochemistry, and physiology. Topics include plant hormones and signalling, structure and biosynthesis of plant cell walls, regulation of ﬂ owering time, control of fruit ripening and post harvest quality and engineering of plant colour, health components and resistance to stress. Prerequisites: BIOSCI 201, 202 or 205 Coordinator: Assoc. Prof. Andy Allan Assessment: Incourse 55% (2 Tests 15% each,

Practical 25%), Examination 45% Recommended textbook: Taiz, L. and Zeiger,

E. Plant Physiology. 4th Edn. Sinauer.

BIOSCI 347 Environmental Microbiology and Biotechnology

The ecology and physiology of microorganisms in natural and engineered environments. Key themes include marine microbiology, the importance of microbial symbioses to life on Earth, and contemporary research methods in microbiology. Processes such as wastewater treatment and the production of bioactives are used to emphasise exploitation of microbial metabolism for environmental biotechnology purposes.

Prerequisites: 15 points from BIOSCI 204,

MOLMED 201, MEDSCI 202 Restriction: BIOSCI 352

Coordinator: Dr Mike Taylor

Assessment: Incourse 50% (Essay 10%, Practicals 25%, Terms Test 15%), Examination 50%

Recommended textbook: Prescott, L.M., Harley, J.P., and Klein, D.A. (2005) Microbiology, 6th Edition. McGraw Hill International edition.

BIOSCI 348 Food and Beverage Microbiology

(15 points) (City) Second Semester The use and scientiﬁ c fundamentals of micro-organisms in the production of foods and food additives, nutriceuticals and probiotics. Fermentation-derived food additives and their industrial processes including principles of metabolic engineering. Molecular and applied aspects of the fermentation processes for production of beer and wine including aroma generation and analysis. Microbial food spoilage, pathogens involved, food safety and quality control.

Prerequisites: 15 points from BIOSCI 204, MOLMED 201, MEDSCI 202 Restriction: BIOSCI 352

Coordinator: Dr Silas Villas-Boas Assessment: Incourse 50% (Essay10%,

Practicals 25%, Terms Test 15%), Examination 50%

Laboratory: Two days lab in the ﬁ rst week of mid-semester break.

Prescribed reading: Bibek Ray & Arun Bhunia Fundamental Food Microbiology, 4th Edn, CRC Press (McMillan)

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| 2011 School of Biological Sciences Undergraduate Handbook BIOSCI 349 Biomedical Microbiology

The major biochemical, physiological and genetic systems involved in the biology of micro-organisms affecting human health. Properties of micro-organisms important in pathogenesis and virulence, and examples of infectious diseases. The molecular response of the host cells during infection. The molecular basis for antimicrobial therapy, acquisition of resistance, and vaccination. Use of micro-organisms in medical biotechnology.

Prerequisites: BIOSCI 201 and either 204 or MEDSCI 202

Coordinator: Dr John Taylor

Assessment: Incourse 50% (Theory 30%, Practical 20%) Examination 50% Reference material will be recommended.

BIOSCI 350 Protein Structure and Function

The relationship of molecular structure to protein function will be emphasised. Techniques for the puriﬁ cation, characterisation and production of native and recombinant proteins and three-dimensional structure determination will be combined with a description of protein structure. Speciﬁ c groups of proteins will be selected to illustrate structure/function relationships and protein evolution.

This course provides an excellent background for students who wish to take BIOSCI 353, “Cellular Regulation, Hormones and Growth” in Semester 2. For reasons of health and safety, students must enrol in this course in time for the ﬁ rst lab in Week 1 of the semester.

Prerequisites: BIOSCI 201 and 203 Coordinator: Dr Chris Squire.

Assessment: Incourse 50% (Practical 20% from laboratory reports and Theory, 30% from two tests). Examination 50%

1. C. Branden & J. Tooze. Introduction to Protein Structure. 2nd Edn. Garland.

2. Berg, J.M., Tymoczko, J.L., and Stryer, L., (2007) Biochemistry. 6th Edn.

3. Lehninger, Principles of Biochemistry, 2nd Edn Worth.

OR Matthews, Van Holde, Ahern, Biochemistry, 3rd Edn.

BIOSCI 351 Molecular Genetics

The analysis of genetic material in prokaryotes, viruses and eukaryotes is addressed in this course. The means by which genetic information is transferred and the mechanisms underlying genome diversity will be examined, together with the study of eukaryote genomes at the level of chromosome structure and organization. The molecular mechanisms underpinning mutation and sequence diversity in the human genome will be discussed, with a focus on heritable human disorders and disease modelling.

Prerequisites: BIOSCI 201 and 202 Coordinator: Assoc. Prof. Brian Murray Assessment: Incourse 50% (Theory 30% [2

tests @ 15% each], Practical 20%), Examination 50% Recommended textbooks:

Introduction to Genetic Analysis. Grifﬁ ths AR et al. Freeman & Co. (8th or 9th Edn)

Please note that no one textbook

adequately covers the entire course content

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The Evolution of the Genome, Gregory TR (ed.)

Human Molecular Genetics, Strachan T. & Reid, A.P. (2nd or 3rd Edn)

Recombinant DNA, Watson J et al. (2nd Edn)

BIOSCI 353 Molecular and Cellular Regulation

(15 points) (City) Second Semester The molecular mechanisms which mediate intracellular sorting, targeting and posttranslational modiﬁ cation of biologically active molecules and the networks of intracellular and extracellular signals which regulate cell function form the focus of this course. The roles of growth factors, oncogenes, plasma membrane receptors, nuclear receptors, ion channels and membrane transporters are emphasised. For reasons of health and safety, students enrolling in this course must enrol in time to attend the ﬁ rst lab in Week 1 of Semester. Students who plan to take this course should consider enrolling in BIOSCI 350 (“Protein Structure and Function”) which provides an excellent background.

Prerequisites: BIOSCI 201 and 203 Coordinator: Assoc. Prof. Nigel Birch Assessment: Incourse 50% (Practical 20%, 2

Tests 10% x 2, Essay 10%), Examination 50%

Recommended textbook: Lodish et al, Molecular Cell Biology. 6th Edn. (2004)

BIOSCI 354 Gene Expression and Gene Transfer

This course focuses on the molecular biology of plant and animal cells. It stresses genomes and genomics, gene expression and genetic engineering. Topics include: regulation of eukaryotic gene expression and eukaryotic diversity and complexity (including the transcriptome, enhancers, transcription factors and RNAi silencing); whole genome sequencing and microarray analysis of expression of the genes in a genome; methods of gene transfer in plants, insects and animals with genetic engineering for crop improvement and viral vectors for gene therapy in humans.

Prerequisites: BIOSCI 202 and either 201, 203 or 205

Coordinator: Professor Richard Gardner Assessment: Incourse 55% (Theory 30%,

Practical 25%) Examination 45% Recommended Textbooks::

Watson et al. Molecular Biology of the Gene. 6th Edn. (Pearson, Benjamin Cummings). Lodish et al., Molecular Cell Biology. 6th Edn. (2004)

BIOSCI 356 Developmental Biology and Cancer

Molecular, cellular and genetic aspects of normal and perturbed development focusing on a variety of model systems including Caenorhabditis elegans, Drosophila, the zebraﬁ sh and the mouse. Molecular events underlying the development of body form, the contribution of stem cells to the different tissues of the body, and abnormalities of development that contribute to cancer.

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Prerequisites: BIOSCI 201 and 202 Coordinator: Associate Professor Clive Evans Assessment: Incourse 40% (2 Lab Reports

10%, General Performance 5%, 1 test 25%) Examination 60% Recommended textbooks:

S.F. Gilbert. Developmental Biology. 9th Edn. Sinauer. G. Davis and C. Tickle. Principles of Development. 4th Edn. OUP I.F. Tannock and R.P. Hill. The

Basic Science of Oncology. 4th

Edn. MacGraw-Hill.

R.A. Weinberg. The Biology of

Cancer. 1st Edn. Garland

BIOSCI 358 Nutritional Science

The scientiﬁ c basis of nutrition focusing on its biochemistry and physiology linking diet to health and disease. Nutritional aspects of carbohy-drates, fats, proteins, vitamins and trace nutrients are covered in an integrated manner as are the clinical aspects of nutritionally related diseases such as obesity, cardiovascular disease, Type II diabetes mellitus and cancer. Reference will be made to a broad range of examples, and a number of speciﬁ c nutritional topics of current interest will also be included.

Prerequisites: BIOSCI 203

Coordinator: Assoc. Prof. Sally Poppitt (Human Nutrition Unit)

Assessment: Incourse 50% (Lab Test 10%, Theory Test 20%, Lab Reports 10%, Research Essay 10%) Examination 50%

E.E. Zieglier & L.J. Filer (eds) Present Knowledge in Nutrition, 7th Edn, ILSI Press Washington DC

Further information on journal articles of relevance will be provided during the course.

BIOSCI 359 Bioinformatics

The methods and especially the applications of informatic and computational approaches to biological problems with speciﬁ c reference to: internet accessible data base technology, database mining, applications for gene and protein sequence analysis, phylogenetic analyses, three-dimensional protein prediction and structural bioinformatics.

Prerequisites: 15 points from Stage II Biological Sciences, and 15 points from Computer Science, and 15 points from Mathematics or Statistics Coordinator: Dr Shaun Lott.

Assessment: Incourse 75% (Theory Test 25%, Practical 50%) Examination 25% Recommended textbooks:

Mount, David (2004) Bioinformatics. 2nd Edn. Cold Spring Harbour Laboratory. Orengo, C.A., Thornton, J.M., Jones, D.T. (eds) Bioinformatics, Bio Scientiﬁ c Publishers Ltd (2002)

BIOSCI 394 Conservation Ecology

(15 points) (Tämaki) First Semester Conservation of species and ecosystems.