IDEAS home Printed from https://ideas.repec.org/a/plo/pone00/0242245.html
   My bibliography  Save this article

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

Author

Listed:
  • 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
    as

    Download full text from publisher

    File URL: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0242245
    Download Restriction: no

    File URL: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0242245&type=printable
    Download Restriction: no

    File URL: https://libkey.io/10.1371/journal.pone.0242245?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    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.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Jackie Atim & Andrew Kalyebi & Adriana Bohorquez-Chaux & Luis Augusto Becerra Lopez-Lavalle & Christopher Abu Omongo & John Colvin & M. N. Maruthi, 2024. "Identifying Cassava Genotypes Resistant to the African Cassava Whitefly, Bemisia tabaci (Gennadius)," Agriculture, MDPI, vol. 14(7), pages 1-17, June.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Ayala Wineman & Timothy Njagi & C. Leigh Anderson & Travis W. Reynolds & Didier Yélognissè Alia & Priscilla Wainaina & Eric Njue & Pierre Biscaye & Miltone W. Ayieko, 2020. "A Case of Mistaken Identity? Measuring Rates of Improved Seed Adoption in Tanzania Using DNA Fingerprinting," Journal of Agricultural Economics, Wiley Blackwell, vol. 71(3), pages 719-741, September.
    2. repec:ags:aaea22:335831 is not listed on IDEAS
    3. Wossen, Tesfamicheal & Abay, Kibrom A. & Abdoulaye, Tahirou, 2022. "Misperceiving and misreporting input quality: Implications for input use and productivity," Journal of Development Economics, Elsevier, vol. 157(C).
    4. Michelson, Hope & Gourlay, Sydney & Lybbert, Travis & Wollburg, Philip, 2023. "Review: Purchased agricultural input quality and small farms," Food Policy, Elsevier, vol. 116(C).
    5. Felister Y. Tibamanya & Mursali A. Milanzi & Arne Henningsen, 2021. "Drivers of and Barriers to Adoption of Improved Sun- flower Varieties amongst Smallholder Farmers in Singida, Tanzania: the Double-Hurdle Approach," IFRO Working Paper 2021/03, University of Copenhagen, Department of Food and Resource Economics.
    6. Catherine Larochelle & Jeffrey Alwang, 2022. "Impacts of Improved Bean Varieties Adoption on Dietary Diversity and Food Security in Rwanda," The European Journal of Development Research, Palgrave Macmillan;European Association of Development Research and Training Institutes (EADI), vol. 34(2), pages 1144-1166, April.
    7. Paola Mallia, 2022. "You reap what (you think) you sow? Evidence on farmers’behavioral adjustments in the case of correct crop varietal identification," PSE Working Papers hal-03597332, HAL.
    8. Cu Thi Le Thuy & Luis Augusto Becerra Lopez-Lavalle & Nguyen Anh Vu & Nguyen Huu Hy & Pham Thi Nhan & Hernan Ceballos & Jonathan Newby & Nguyen Ba Tung & Nguyen Trong Hien & Le Ngoc Tuan & Nguyen Hung, 2021. "Identifying New Resistance to Cassava Mosaic Disease and Validating Markers for the CMD2 Locus," Agriculture, MDPI, vol. 11(9), pages 1-15, August.
    9. Ruzzante, Sacha & Labarta, Ricardo & Bilton, Amy, 2021. "Adoption of agricultural technology in the developing world: A meta-analysis of the empirical literature," World Development, Elsevier, vol. 146(C).
    10. Maredia, Mywish K. & Reyes, Byron A. & Manu-Aduening, Joseph & Dankyi, Awere & Hamazakaza, Petan & Muimui, Kennedy & Rabbi, Ismail & Kulakow, Peter & Parkes, Elizabeth & Abdoulaye, Tahirou & Katungi, , 2016. "Testing Alternative Methods of Varietal Identification Using DNA Fingerprinting: Results of Pilot Studies in Ghana and Zambia," Food Security International Development Working Papers 246950, Michigan State University, Department of Agricultural, Food, and Resource Economics.
    11. Monika Verma & Christine Plaisier & Coen P. A. van Wagenberg & Thom Achterbosch, 2019. "A Systems Approach to Food Loss and Solutions: Understanding Practices, Causes, and Indicators," Sustainability, MDPI, vol. 11(3), pages 1-22, January.
    12. Rosina Wanyama & Pepijn Schreinemachers & Justus Ochieng’ & Omary Bwambo & Roselyne Alphonce & Fekadu Fufa Dinssa & Ya-ping Lin & Roland Schafleitner, 2023. "Adoption and impact of improved amaranth cultivars in Tanzania using DNA fingerprinting," Food Security: The Science, Sociology and Economics of Food Production and Access to Food, Springer;The International Society for Plant Pathology, vol. 15(5), pages 1185-1196, October.
    13. Pepijn Schreinemachers & Teresa Sequeros & Saima Rani & Md. Abdur Rashid & Nithya Vishwanath Gowdru & Muhammad Shahrukh Rahman & Mohammed Razu Ahmed & Ramakrishnan Madhavan Nair, 2019. "Counting the beans: quantifying the adoption of improved mungbean varieties in South Asia and Myanmar," Food Security: The Science, Sociology and Economics of Food Production and Access to Food, Springer;The International Society for Plant Pathology, vol. 11(3), pages 623-634, June.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pone00:0242245. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: plosone (email available below). General contact details of provider: https://journals.plos.org/plosone/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.