Molecular Breeding

, Volume 30, Issue 1, pp 583–595 | Cite as

Detection of allelic variation at the Wx locus with single-segment substitution lines in rice (Oryza sativa L.)

  • Bin Teng
  • Ruizhen Zeng
  • Yicun Wang
  • Ziqiang Liu
  • Zemin Zhang
  • Haitao Zhu
  • Xiaohua Ding
  • Wentao Li
  • Guiquan Zhang


Apparent amylose content (AAC) is a key determinant of eating and cooking quality in rice and it is mainly controlled by the Wx gene which encodes a granule-bound starch synthase (GBSS). In this study, sixteen single-segment substitution lines harboring the Wx gene from 16 different donors and their recipient HJX74 were used to detect the naturally occurring allelic variation at the Wx locus. The AAC in the materials varied widely and could be grouped into glutinous, low, intermediate, and two high AAC sub-classes, high I (24.36–25.20%) and high II (25.81–26.19%), under different experimental environments, which showed a positive correlation with the enzymatic activity of GBSS. One insertion/deletion (InDel) and three single nucleotide polymorphisms in the Wx gene were detected and their combinations resulted in the variation of five classes of AAC. Based on the results of AAC phenotypes, GBSS activities and cDNA sequences, five Wx alleles, wx, Wx t, Wx g1, Wx g2, and Wx g3, were identified, two of which, Wx g2 and Wx g3, are separated for the first time in this study. Under different cropping seasons, the AAC differed significantly for the Wx t and Wx g1 alleles, with higher AAC in the fall season than in the spring season, but did not differ significantly for the wx, Wx g2, and Wx g3 alleles. In conclusion, the present results might contribute to our understanding of the naturally occurring allelic variation at the Wx locus and will facilitate the improvement of rice quality by marker-assisted selection.


Waxy gene Allelic variation Single-segment substitution line Apparent amylose content Rice 



This research was funded by the grants from the National Natural Science Foundation of China (30870074 and U1031002).

Supplementary material

11032_2011_9647_MOESM1_ESM.doc (109 kb)
Supplementary material 1 (DOC 109 kb)


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Copyright information

© Springer Science+Business Media B.V. 2011

Authors and Affiliations

  • Bin Teng
    • 1
    • 3
  • Ruizhen Zeng
    • 1
    • 2
  • Yicun Wang
    • 1
  • Ziqiang Liu
    • 1
    • 2
  • Zemin Zhang
    • 1
    • 2
  • Haitao Zhu
    • 1
  • Xiaohua Ding
    • 1
  • Wentao Li
    • 1
  • Guiquan Zhang
    • 1
    • 2
  1. 1.Guangdong Provincial Key Lab of Plant Molecular BreedingSouth China Agricultural UniversityGuangzhouPeople’s Republic of China
  2. 2.State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresourcesSouth China Agricultural UniversityGuangzhouPeople’s Republic of China
  3. 3.Anhui Provincial Key Lab of Rice Genetics and BreedingInstitute of Rice Research, Anhui Academy of Agricultural SciencesHefeiPeople’s Republic of China

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