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

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  • Laura Perez-Fons
  • Tatiana M Ovalle
  • M N Maruthi
  • John Colvin
  • Luis Augusto Becerra Lopez-Lavalle
  • Paul 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 high level of similarity between accessions. Specific differentiating features/metabolites were identified, including those potentially conferring vigour to whitefly tolerance on a constitutive manner. The implications of using these cassava varieties as parental breeding material and the future potential of incorporating more exotic donor material is discussed.

Suggested Citation

  • Laura Perez-Fons & Tatiana M Ovalle & M N Maruthi & John Colvin & Luis Augusto Becerra Lopez-Lavalle & Paul D Fraser, 2020. "The metabotyping of an East African cassava diversity panel: A core collection for developing biotic stress tolerance in cassava," PLOS ONE, Public Library of Science, vol. 15(11), pages 1-16, November.
  • Handle: RePEc:plo:pone00:0242245
    DOI: 10.1371/journal.pone.0242245
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    References listed on IDEAS

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    1. Silver Tumwegamire & Edward Kanju & James Legg & Rudolph Shirima & Salehe Kombo & Geoffrey Mkamilo & Kiddo Mtunda & Karoline Sichalwe & Heneriko Kulembeka & Innocent Ndyetabura & Haji Saleh & Robert K, 2018. "Exchanging and managing in-vitro elite germplasm to combat Cassava Brown Streak Disease (CBSD) and Cassava Mosaic Disease (CMD) in Eastern and Southern Africa," Food Security: The Science, Sociology and Economics of Food Production and Access to Food, Springer;The International Society for Plant Pathology, vol. 10(2), pages 351-368, April.
    2. Victorino O. Floro & Ricardo A. Labarta & Luis A. Becerra López†Lavalle & Jose M. Martinez & Tatiana M. Ovalle, 2018. "Household Determinants of the Adoption of Improved Cassava Varieties using DNA Fingerprinting to Identify Varieties in Farmer Fields: A Case Study in Colombia," Journal of Agricultural Economics, Wiley Blackwell, vol. 69(2), pages 518-536, June.
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