New search
PLS0057
Plant Imaging Techniques
Introduction to plant imaging techniques by Confocal Laser Scanning Microscopy (CLSM), Fluorescence Microscopy, Scanning Electron Microscopy (SEM), Transmission Electron Microscopy (TEM), Light Microcopy (LM), X-ray computed tomography (CT) and digital imaging, Soft X-ray Scanning Transmission X-ray Microscopy (STXM), quantitative image analysis, neutron scattering. The lectures will give an overview on plant components biochemistry, structure and function, and the uses of advanced imaging techniques. Plant component characterization techniques will be discussed with emphasis on structural properties of various plant components i.e. proteins, cellular structures etc., that are essential for various functions in plants and other similar to plant systems (tissue).
Several examples with specific focus on plant structure will be introduced. Lab practicals will consist of introduction and guidance through technical parts of equipment and sample preparation in 4 groups for CLSM analysis e.g. protein histol-immunolabelling, hands-on on sample scanning and imaging, and quantitative image analysis.
Regarding SEM/TEM/LM techniques will be demonstrated and discussed in small groups, having various biological examples.
The use of CLSM in computational modeling will focus on data collection, analysis and design of a model using computational tools. Practical exercises for computational modeling will be included. Students will be introduced into several examples using structure-mechanistic modeling approach of biological material.
The X-ray CT which uses x-rays to create cross-sections of a plant object and later recreates a virtual model (3D model). This course will include several illustrative examples of plant origin. High resolution x-ray tomography and micro-computed tomography will be briefly introduced and discussed.
The Soft X-ray Scanning Transmission X-ray Microscopy (STXM) using analytical range in the soft X-ray region is a powerful analytical tool that be applied for studying fully hydrated biological materials and differentiation of biological molecules. Several biological examples will be illustrated in the course.
The students are expected to take an active part in lectures, discussions and lab practices, which is required in order to accomplish the course. During the course week students choose to theoretically implement one or few plant imaging methods in relation to the own research (PhD) project. The individual "case study" should include reflections from the course literature, lectures, discussions and lab exercises. During the last day of the course the students present their "case study" in a written form (max 2 A4 pages), which should be sent on the 18st May, 2018, to the course responsible (e-mail: ramune.kuktaite@slu.se). A summary of "case study" in a form of an oral 5 min presentation is also expected during the last day of the course.
Several examples with specific focus on plant structure will be introduced. Lab practicals will consist of introduction and guidance through technical parts of equipment and sample preparation in 4 groups for CLSM analysis e.g. protein histol-immunolabelling, hands-on on sample scanning and imaging, and quantitative image analysis.
Regarding SEM/TEM/LM techniques will be demonstrated and discussed in small groups, having various biological examples.
The use of CLSM in computational modeling will focus on data collection, analysis and design of a model using computational tools. Practical exercises for computational modeling will be included. Students will be introduced into several examples using structure-mechanistic modeling approach of biological material.
The X-ray CT which uses x-rays to create cross-sections of a plant object and later recreates a virtual model (3D model). This course will include several illustrative examples of plant origin. High resolution x-ray tomography and micro-computed tomography will be briefly introduced and discussed.
The Soft X-ray Scanning Transmission X-ray Microscopy (STXM) using analytical range in the soft X-ray region is a powerful analytical tool that be applied for studying fully hydrated biological materials and differentiation of biological molecules. Several biological examples will be illustrated in the course.
The students are expected to take an active part in lectures, discussions and lab practices, which is required in order to accomplish the course. During the course week students choose to theoretically implement one or few plant imaging methods in relation to the own research (PhD) project. The individual "case study" should include reflections from the course literature, lectures, discussions and lab exercises. During the last day of the course the students present their "case study" in a written form (max 2 A4 pages), which should be sent on the 18st May, 2018, to the course responsible (e-mail: ramune.kuktaite@slu.se). A summary of "case study" in a form of an oral 5 min presentation is also expected during the last day of the course.
Syllabus and other information
Syllabus
PLS0057 Plant Imaging Techniques, 3.0 Credits
Subjects
BiologyEducation cycle
Postgraduate levelGrading scale
Pass / Failed
Prior knowledge
PhD students from natural science disciplinesObjectives
Upon completion of the course, participants are expected to: • Describe different plant imaging methods applicable to study structure of plant components including advantages and limitations of the studied methods. • Specify when the selected imaging method is an appropriate tool to address a specific objective. • Localize, relate and map major components of various plant materials at the molecular level. • Have a broad understanding on combination and use of various multi-microscopy and x-ray scattering correlative methods. • Have a broad understanding on the use of one or several plant imaging methods suited specifically to a certain research area.Content
Introduction to plant imaging techniques by Confocal Laser Scanning Microscopy (CLSM), Fluorescence Microscopy, Scanning Electron Microscopy (SEM), Transmission Electron Microscopy (TEM), Light Microcopy (LM), X-ray computed tomography (CT) and digital imaging, Soft X-ray Scanning Transmission X-ray Microscopy (STXM), quantitative image analysis, neutron scattering. The lectures will give an overview on plant components biochemistry, structure and function, and the uses of advanced imaging techniques. Plant component characterization techniques will be discussed with emphasis on structural properties of various plant components i.e. proteins, cellular structures etc., that are essential for various functions in plants and other similar to plant systems (tissue). Several examples with specific focus on plant structure will be introduced. Lab practicals will consist of introduction and guidance through technical parts of equipment and sample preparation in 4 groups for CLSM analysis e.g. protein histol-immunolabelling, hands-on on sample scanning and imaging, and quantitative image analysis. Regarding SEM/TEM/LM techniques will be demonstrated and discussed in small groups, having various biological examples. The use of CLSM in computational modeling will focus on data collection, analysis and design of a model using computational tools. Practical exercises for computational modeling will be included. Students will be introduced into several examples using structure-mechanistic modeling approach of biological material. The X-ray CT which uses x-rays to create cross-sections of a plant object and later recreates a virtual model (3D model). This course will include several illustrative examples of plant origin. High resolution x-ray tomography and micro-computed tomography will be briefly introduced and discussed. The Soft X-ray Scanning Transmission X-ray Microscopy (STXM) using analytical range in the soft X-ray region is a powerful analytical tool that be applied for studying fully hydrated biological materials and differentiation of biological molecules. Several biological examples will be illustrated in the course. The students are expected to take an active part in lectures, discussions and lab practices, which is required in order to accomplish the course. During the course week students choose to theoretically implement one or few plant imaging methods in relation to the own research (PhD) project. The individual "case study" should include reflections from the course literature, lectures, discussions and lab exercises. During the last day of the course the students present their "case study" in a written form (max 2 A4 pages), which should be sent on the 18st May, 2018, to the course responsible (e-mail: ramune.kuktaite@slu.se). A summary of "case study" in a form of an oral 5 min presentation is also expected during the last day of the course.Additional information
Fee: free of charge for SLU students;for outside SLU students a course fee is 6000 SEK (+ travelling cost covered on own expenses).
Number of course participants is maximum 16.
Notice! The course will take place in Lund (Medicon Village and Biology house)
Responsible department
Department of Plant Breeding