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KeyTrackTM – At the root of development

Marco van Schriek January 2011 PAG – LemnaTec session


At the root of development Outline

• Introduction – Digital phenotyping – KeyTrack system

• Root phenotyping • Conclusions / next steps


The importance of phenotyping • For plant breeders the phenotype is the final goal…

• Detection of QTLs requires: – high quality molecular markers – high quality phenotypes!

• But ..Phenotyping is not (always) straightforward – Genetic and environmental factors are intertwined – Subjective / biased observations – Phenotype may depend on complex interactions of plant and (a)biotic agent (resistance, tolerance)


High quality phenotypes Left centre circle smaller than right one?

Two shades of red in this picture?


What is the KeyTrackTM system


From KeyTrackTM system to a digital phenotyping project


From KeyTrackTM system to a digital phenotyping project

Idea to workplan

KeyTrack run

From image to digital phenotyping

Statistic correlation study

Conclusions


Root phenotyping


Root phenotyping • Rootstock breeding constitute ~50% of the tomato market revenue • Not in line with the investments made in research • Root phenotyping / breeding – Tedious – Difficult

50%


Root phenotyping Core questions to be answered

1. Can we use the KeyTrack for root imaging

2. Can we measure variation in root phenotypes


Root imaging Technical aspects

? Light reflection in pictures

Pot type

? Zoom level of camera

Optimized

? Pot condensation

Watering/imaging scheme optimized

? Pot covering

Automated


Root imaging From image to digital phenotype


Root project Core questions to be answered

1. Can we use the KeyTrack for root imaging

2. Can we measure variation in root phenotypes


Root imaging using KeyTrackTM

Zamir Tomato ILL

Parents :

35 ILL lines in 5 replicates

4 side imaging for 18 day’s

M82 and S. pennellii (10 replicates)


Root imaging using KeyTrack Imaging

M82

S. pennellii

IL 1

IL 2

IL 3


Root imaging using KeyTrack From image to digital phenotype

Digital based root phenotype


Root imaging using KeyTrackTM


Root imaging using KeyTrackTM

Direct root mass measurement

KeyTrack root measurement 93 % Correlation !


Root imaging using KeyTrackTM

Direct root mass measurement

KeyTrack root measurement 93 % Correlation !


Conclusions

1. Can we use the KeyTrack for root imaging?

2. Can we measure variation in root phenotypes? Digital based root phenotype

Exploitation in breeding


Next steps in root research

1)

Screen germplasm for root phenotype variation

2)

Create populations for marker development on root phenotypes

3)

Exploit markers in root-stock breeding


Acknowledgement KeyTrack Team:

• • • • • •

Gert-Jan Speckmann (KeyTrack operation) Jose Guerra (bio-statistician) Koen Huvenaars (trainee bio-statistics) Shital Dixit (post-doc) Marco van Schriek (Project leader) Harold Verstegen (Manager)


THANK YOU E-mail mvs@keygene.com

KeyTrack is a registered trademark of Keygene N.V.


KeyTrack Root Phenotyping – At the Root of Development