The identification and characterisation of alleles of sucrose phosphate synthase gene family III in sugarcane

McIntyre, C. L., Jackson, M., Cordeiro, G. M., Amouyal, O., Hermann, S., Aitken, K. S., Eliott, F., Henry, R. J., Casu, R. E. and Bonnett, G. D. (2006) The identification and characterisation of alleles of sucrose phosphate synthase gene family III in sugarcane. Molecular Breeding, 18 1: 39-50. doi:10.1007/s11032-006-9012-7


Author McIntyre, C. L.
Jackson, M.
Cordeiro, G. M.
Amouyal, O.
Hermann, S.
Aitken, K. S.
Eliott, F.
Henry, R. J.
Casu, R. E.
Bonnett, G. D.
Title The identification and characterisation of alleles of sucrose phosphate synthase gene family III in sugarcane
Journal name Molecular Breeding   Check publisher's open access policy
ISSN 1380-3743
Publication date 2006
Sub-type Article (original research)
DOI 10.1007/s11032-006-9012-7
Volume 18
Issue 1
Start page 39
End page 50
Total pages 12
Place of publication Netherlands
Publisher Springer
Collection year 2006
Language eng
Subject C1
270201 Gene Expression
620106 Sugar
Abstract Little is known about the extent of allelic diversity of genes in the complex polyploid, sugarcane. Using sucrose phosphate synthase (SPS) Gene (SPS) Family III as an example, we have amplified and sequenced a 400 nt region from this gene from two sugarcane lines that are parents of a mapping population. Ten single nucleotide polymorphisms (SNPs) were identified within the 400 nt region of which seven were present in both lines. In the elite commercial cultivar Q165(A), 10 sequence haplotypes were identified, with four haplotypes recovered at 9% or greater frequency. Based on SNP presence, two clusters of haplotypes were observed. In IJ76-514, a Saccharum officinarum accession, 8 haplotypes were identified with 4 haplotypes recovered at 13% or greater frequency. Again, two clusters of haplotypes were observed. The results suggest that there may be two SPS Gene Family III genes per genome in sugarcane, each with different numbers of different alleles. This suggestion is supported by sequencing results in an elite parental sorghum line, 403463-2-1, in which 4 haplotypes, corresponding to two broad types, were also identified. Primers were designed to the sugarcane SNPs and screened over bulked DNA from high and low Sucrose-containing progeny from a cross between Q165(A) and IJ76-514. The SNP frequency did not vary in the two bulked DNA samples, suggesting that these SNPs from this SPS gene family are not associated with variation in sucrose content. Using an ecotilling approach, two of the SPS Gene Family III haplotypes were mapped to two different linkage groups in homology group 1 in Q165(A). Both haplotypes mapped near QTLs for increased sucrose content but were not themselves associated with any sugar-related trait.
Keyword sugarcane
SNP
sucrose phosphate synthase
ecotilling
sugar
sorghum
Sequence Polymorphism
Pcr Amplification
Saccharum
Map
Construction
Accumulation
Population
Discovery
Cultivar
Traits
Q-Index Code C1

Document type: Journal Article
Sub-type: Article (original research)
Collections: 2007 Higher Education Research Data Collection
School of Biological Sciences Publications
 
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Created: Wed, 15 Aug 2007, 09:21:07 EST