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Quantitative trait loci underlying root yield and starch content in an F1 derived cassava population (Manihot esculenta Crantz)

Published online by Cambridge University Press:  19 September 2016

S. SRAPHET ,
A. BOONCHANAWIWAT ,
T. THANYASIRIWAT ,
R. THAIKERT ,
S. WHANKAEW ,
D. R. SMITH ,
O. BOONSENG ,
D. A. LIGHTFOOT  and
K. TRIWITAYAKORN
S. SRAPHET
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand
A. BOONCHANAWIWAT
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand
T. THANYASIRIWAT
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand Department of Agriculture and Resource, Faculty of Natural Resources and Agro-Industry, Kasetsart University Chalermprakiat Sakon Nakhon Province Campus, Mueang Sakon Nakhon 47000, Thailand
R. THAIKERT
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand
S. WHANKAEW
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand
D. R. SMITH
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand
O. BOONSENG
Affiliation:
Rayong Field Crops Research Center, Ministry of Agriculture and Cooperatives, Rayong 21150, Thailand
D. A. LIGHTFOOT
Affiliation:
Genomics Core-Facility, Southern Illinois University at Carbondale, Carbondale, Illinois 62901, USA
K. TRIWITAYAKORN*
Affiliation:
Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom 73170, Thailand Center for Cassava Molecular Biotechnology, Faculty of Science, Mahidol University, Bangkok 10400, Thailand
*
*To whom all correspondence should be addressed. Email: kanokporn.tri@mahidol.ac.th
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Summary

Cassava (Manihot esculenta Crantz) root yield measured as fresh weight (hereafter root yield) is declining in much of Asia and Africa. The current study aimed to identify quantitative trait loci (QTL) underlying both root and starch fresh weights in F1 cassava. Eight QTL were associated with root yield, underlying 12·9–40·0% of the phenotypic variation (PVE). Nine QTL were associated with starch content, underlying 11·3–27·3% of the PVE. Quantitative trait loci were identified from four different environments that encompassed two locations and 3 years. Consistent QTL for root yield, YLD5_R11 and YLD8_L09 on linkage group (LG) 16, were detected across years and locations. Quantitative trait loci for starch content, ST3_R09, ST6_R10 and ST7_R11 on LG 11, were found across 3 years. Co-localization of QTL for both traits with positive correlation was detected between YLD3_R10 and ST5_R10 on LG 9. Candidate genes within the QTL that were consistent across multiple environments were identified based on cassava genome sequences. Genes predicted to encode for glycosyl hydrolases, uridine 5’-diphospho-(UDP)-glucuronosyl transferases and UDP-glucosyl transferases were found among the 44 genes located within the region containing the QTL controlling starch content. Sixteen genes predicted to encode proteins that were possibly associated with root yield were identified. The QTL controlling root yield and starch content in the current study will be useful for molecular breeding of cassava through marker-assisted selection. The identification of candidate genes underlying both traits will be useful both as markers and for gene expression studies.

Type
Crops and Soils Research Papers
Information
The Journal of Agricultural Science , Volume 155 , Issue 4 , May 2017 , pp. 569 - 581
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Copyright
Copyright © Cambridge University Press 2016 

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