Record Details

Next generation sequencing based genotyping, cytometry and phenotyping for understanding diversity and evolution of guinea yams

CGSpace

View Archive Info
 
 
Field Value
 
Title Next generation sequencing based genotyping, cytometry and phenotyping for understanding diversity and evolution of guinea yams
 
Creator Girma, G.
Hyma, K.E.
Asiedu, Robert
Mitchell, S.E.
Gedil, M.
Spillane, Charles
 
Subject DIOSCOREA ROTUNDATA
GUINEA YAM
 
Description Published online 1 July 2014
Key message Genotyping by sequencing (GBS) is used to understand the origin and domestication of guinea yams, including the contribution of wild relatives and polyploidy events to the cultivated guinea yams. Abstract Patterns of genetic diversity within and between two cultivated guinea yams (Dioscorea rotundata and D. cayenensis) and five wild relatives (D. praehensilis, D. mangenotiana, D. abyssinica, D. togoensis and D. burkilliana) were investigated using next-generation sequencing (genotyping by sequencing, GBS). Additionally, the two cultivated species were assessed for intra-specific morphological and ploidy variation. In guinea yams, ploidy level is correlated with species identity. Using flow cytometry a single ploidy level was inferred across D. cayenensis (3x, N = 21), D. praehensilis (2x, N = 7), and D. mangenotiana (3x, N = 5) accessions, whereas both diploid and triploid (or aneuploid) accessions were present in D. rotundata (N = 11 and N = 32, respectively). Multi-dimensional scaling and maximum parsimony analyses of 2,215 SNPs revealed that wild guinea yam populations form discrete genetic groupings according to species. D. togoensis and D. burkilliana were most distant from the two cultivated yam species, whereas D. abyssinica, D. mangenotiana, and D. praehensilis were closest to cultivated yams. In contrast, cultivated species were genetically less clearly defined at the intra-specific level. While D. cayenensis formed a single genetic group, D. rotundata comprised three separate groups consisting of; (1) a set of diploid individuals genetically similar to D. praehensilis, (2) a set of diploid individuals genetically similar to D. cayenensis, and (3) a set of triploid individuals. The current study demonstrates the utility of GBS for assessing yam genomic diversity. Combined with morphological and biological data, GBS provides a powerful tool for testing hypotheses regarding the evolution, domestication and breeding of guinea yams.
Peer Review
 
Date 2016-07-11T08:41:34Z
2016-07-11T08:41:34Z
2014-07
 
Type Journal Article
 
Identifier Girma, G., Hyma, K.E., Asiedu, R., Mitchell, S.E., Gedil, M. & Spillane, C. (2014). Next-generation sequencing based genotyping, cytometry and phenotyping for understanding diversity and evolution of guinea yams. Theoretical and Applied Genetics, 127(8), 1783-1794.
0040-5752
https://hdl.handle.net/10568/76052
 
Language en
 
Source Theoritical and Applied Genetics