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SNP and haplotype identification of the wheat monomeric α-amylase inhibitor genes

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Abstract

Seventy-three gene sequences encoding monomeric α-amylase inhibitors were characterized from cultivated wheat “Chinese Spring”, group 6 nullisomic-tetrasomic lines of “Chinese Spring” and diploid putative progenitors of common wheat. The monomeric α-amylase inhibitors from the different sources shared very high homology (99.54%). The different α-amylase inhibitors, which were determined by the 24 single nucleotide polymorphisms (SNPs) of their gene sequences, were investigated. A total of 15 haplotypes were defined by sequence alignment, among which 9 haplotypes were found with only one single sequence sample. Haplotype H02 was found to be the main haplotype occurring in 83 WMAI sequence samples, followed by haplotype H11. The median-joining network for the 15 haplotypes of monomeric α-amylase inhibitor gene sequences from hexaploid wheats was star like, and at least two subclusters emerged. Furthermore evidence of homologous recombination was found between the haplotypes. The relationship between nucleotide substitutions and the amino acid changes in WMAI of hexaploid wheats was summarized. It was clear that only five polymorphic sites in the nucleotide sequence of WMAI resulted in amino acid variations, and that should be the reason for different structure and function of inhibitors. However, little evidence could be found that there were WMAI genes in the A genome of hexaploid wheat, whereas it could conclude from our results that the A genome diploid wheat had WMAI genes. The overall information on the monomeric α-amylase inhibitors from wheat and Aegilops strongly support the view that these inhibitors have evolved from a common ancestral gene through duplication and mutation.

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Abbreviations

WMAI:

Wheat monomeric α-amylase inhibitor

WDAI:

Wheat dimeric α-amylase inhibitor

FAB-MS:

Fast-atom-bombardment mass spectrometry

SNP:

Single nucleotide polymorphism

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Acknowledgements

The authors thank Dr. George Fedak (Eastern Cereal and Oilseed Research Centre, Agriculture and Agri-Food of Canada, Ottawa, ON Canada) and the anonymous reviewers for critical review of the manuscript. This work was supported by the Key Technologies R&D Program (2006BAD01A02 and 2006BAD12B02), the National High Technology Research and Development Program of China (863 program 2006AA10Z179 and 2006AA10Z1F8), National Natural Science Foundation of China (No. 30571163), and the FANEDD project (200357 and 200458) from Ministry of Education, China. Dr. Y.-M. Wei was supported by the Program for New Century Excellent Talents in University of China (NCET-05-0814). Prof. Y.-L. Zheng was supported by the Program for Changjiang Scholars and Innovative Research Teams in University of China (IRT0453).

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Authors and Affiliations

  1. Key Laboratory of Southwestern Crop Genetic Resources and Improvement, Ministry of Education, Sichuan Agricultural University, Yaan, 625014, Sichuan, China

    Ji-Rui Wang, Yu-Ming Wei, Ze-Hong Yan & You-Liang Zheng

  2. Triticeae Research Institute, Sichuan Agricultural University, Yaan, 625014, Sichuan, China

    Yu-Ming Wei, Ze-Hong Yan & You-Liang Zheng

Authors
  1. Ji-Rui Wang
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  2. Yu-Ming Wei
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  3. Ze-Hong Yan
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  4. You-Liang Zheng
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Correspondence to You-Liang Zheng.

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Ji-Rui Wang and Yu-Ming Wei are contributed equally to this paper.

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Wang, JR., Wei, YM., Yan, ZH. et al. SNP and haplotype identification of the wheat monomeric α-amylase inhibitor genes. Genetica 134, 277–285 (2008). https://doi.org/10.1007/s10709-007-9235-5

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  • DOI: https://doi.org/10.1007/s10709-007-9235-5

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