The metabotyping of an East African cassava diversity panel: A core collection for developing biotic stress tolerance in cassava

PloS One
Laura Perez-FonsPaul D Fraser

Abstract

Cassava will have a vital role to play, if food security is to be achieved in Sub-Saharan Africa, especially Central and East Africa. The whitefly Bemisia tabaci poses a major threat to cassava production by small holder farmers in part due to their role as a vector of cassava mosaic begomoviruses (CMBs) and cassava brown streak ipomoviruses (CBSIs). In the present study untargeted metabolomics has been used as a tool to assess natural variation, similarities and attempts to identify trait differentiators among an East African cassava diversity panel that displayed tolerance/resistance to the effects of Bemisia tabaci infestation. The metabolome captured, was represented by 1529 unique chemical features per accession. Principal component analysis (PCA) identified a 23% variation across the panel, with geographical origin/adaption the most influential classification factors. Separation based on resistance and susceptible traits to Bemisia tabaci could also be observed within the data and was corroborated by genotyping data. Thus the metabolomics pipeline represented an effective metabotyping approach. Agglomerative Hierarchical Clustering Analysis (HCA) of both the metabolomics and genotyping data was performed and revealed a hi...Continue Reading

References

May 19, 2009·Plant Physiology·Kirsten A LeissPeter G L Klinkhamer
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Dec 18, 2018·Journal of Agricultural and Food Chemistry·Margit DrapalPaul D Fraser
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Nov 30, 2019·BMC Plant Biology·Laura Perez-FonsPaul D Fraser
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Methods Mentioned

BETA
genotyping
PCA
chip

Software Mentioned

R
MetaMS
OPLS
DA
Cluster package
NGSEP
MetaMS script
mGWAS
Plot

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