Course code NOVA-412

NOVA-412 High throughput field phenotyping

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Showing course contents for the educational year starting in 2020 .

Course responsible: Morten Lillemo
ECTS credits: 5
Faculty: Faculty of Biosciences
Teaching language: EN
(NO=norsk, EN=Engelsk)
Limits of class size:
25
Teaching exam periods:
The course will be run in June 2020 as a NOVA course. The on-site training will be provided at  NMBU, Ås, June 22-26, 2020.
Course frequency: 2020
First time: 2019H
Preferential right:

The course is intended for PhD students with basic knowledge in relevant fields of plant breeding, biology and environmental sciences. Students with plant phenotyping related research in tehir PhD project will get priority. 

Students on PhD level have first priority. Master students can be admitted if space is available. 

Course contents:

The changing climate demands developing faster breeding methods to provide effective solutions for the future agriculture. This course aims to introduce the emerging research fields of high throughput plant phenotyping used for plant-environment interactions, with a focus on field phenotyping methodologies and data related analysis.

The course aims to introduce the emerging technologies related to i) controlled environments that allow simulations and testing future climatic conditions, ii) automated and image based plant phenotyping technologies that are to remove bottlenecks in between genotype to phenotype screens, iii) high throughput field phenotyping technologies and iv) transcriptomics with bioinformatics and R-computing that are required for the deeper understanding of the molecular networks. A special focus will be put on giving the students hands-on training in use of field phenotyping methodologies, including gathering data from hand-held devices and UAVs and robots, and analysis of the data to answer biological questions. The objective of the course is to provide the participating students with the basic knowledge and understanding of the emerging fields of plant phenomics and data processing that can serve breeding efforts in modern agriculture.

Learning outcome:

Participation in lectures and daily learning diaries (2 ECTS)

  • knowledge about the whole range of analysis sensors available for plant phenotyping
  • knowledge about standard data analysis pipelines for field phenotyping data
  • gaining understanding of the opportunities and challenges in experimental design in plant phenotyping

Participation in the workshops (1 ECTS)

  • gaining hands on experience in field phenotyping methodologies, image-based data acquisition, and data processing  

Literature study, presentation and lab report as pre and post assignments (2 ECTS)

  • gaining deeper understanding of the chosen biological process and chosen technology through own study
  • application of gained knowledge in the writing of the lab report (post course assignment)
Learning activities:

Lectures. The following topics will be covered:

Field phenotyping methodologiesData processing and analysis of UAV images from field trialsLow-cost phenotyping methodsChlorophyll fluorescence technologies in plant phenotypingTranscriptomics technologies and R-computing of time course data

Workshops with hands-on training in field phenotyping methods

Journal club: student presentations of pre-assigned literature in groups.

Teaching support:
Teachers will be available during the on-site course for active guidance of learning activities. 
Syllabus:

Literature that will be handed out to the students before the course

Lectures and training exercises during the course

Prerequisites:
MSc degree in a relevant field is required. Relevant fields: agriculture, biological and environmental sciences.
Recommended prerequisites:
Mandatory activity:
Pre-course assignment, active participatioin in journal club, lectures and training activities, writing of learning diary and lab report. 
Assessment:
Pass/Fail based on active participation in assignments and workshops, presentation, submission of learning diaries and post-assignment (lab report).
Nominal workload:

25 hours seminars, workshops and excercises

15 hours lectures

110 hours independent work

Total: 150 hours

Entrance requirements:

The course is intended for PhD students with basic knowledge in relevant fields of plant breeding, biology and environmental sciences. Students with plant phenotyping related research in their PhD project will get priority. 

Students on PhD level have first priority. Master students can be admitted if space is available. 

Reduction of credits:
None
Type of course:

25 hours seminars, workshops and excercises

15 hours lectures

Note:

This course is a joint NOVA PhD course organised by Morten Lillemo, NMBU. Teachers and reasearchers from NMBU, University of Helsinki and Swedish University of Agricultural Sciences (SLU) will participate. Please see the course information web page on NOVA's website for more information about the course:https://www.nmbu.no/en/students/nova/students/phd-courses/phd-courses-2020/node/38597

Examiner:
Examination details: Continous Exam: Passed / Failed