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Genome-wide association study reveals a genomic region on 5AL for salinity tolerance in wheat

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Abstract

Soil salinity is a major threat to crop productivity and quality worldwide. In order to reduce the negative effects of salinity stress, it is important to understand the genetic basis of salinity tolerance. Identifying new salinity tolerance QTL or genes is crucial for breeders to pyramid different tolerance mechanisms to improve crop adaptability to salinity. Being one of the major cereal crops, wheat is known as a salt-sensitive glycophyte and subject to substantial yield losses when grown in the presence of salt. In this study, both pot and tank experiments were conducted to investigate the genotypic variation present in 328 wheat varieties in their salinity tolerance at the vegetative stage. A Genome-Wide Association Studies (GWAS) were carried out to identify QTL conferring salinity tolerance through a mixed linear model. Six, five and eight significant marker-trait associations (MTAs) were identified from pot experiments, tank experiments and average damage scores, respectively. These markers are located on the wheat chromosomes 1B, 2B, 2D, 3A, 4B, and 5A. These tolerance alleles were additive in their effects and, when combined, increased tolerance to salinity. Candidate genes identified in these QTL regions encoded a diverse class of proteins involved in salinity tolerance in plants. A Na+/H+ exchanger and a potassium transporter on chromosome 5A (IWB30519) will be of a potential value for improvement of salt tolerance of wheat cultivars using marker assisted selection programs. Some useful genotypes, which showed consistent tolerance in different trials, can also be effectively used in breeding programs.

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Acknowledgements

The authors would like to thank Mr Mark Livermore at the Tasmanian Institute of Agriculture, University of Tasmania for English editing.

Funding

This research was funded by the National Natural Science Foundation of China (31871535) and the Grains Research and Development Corporation (GRDC) of Australia.

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Authors and Affiliations

  1. Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Australia

    Md. Quamruzzaman, S. M. Nuruzzaman Manik, Sergey Shabala & Meixue Zhou

  2. College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China

    Fangbin Cao

  3. International Research Centre for Environmental Membrane Biology, Foshan University, Chancheng, China

    Sergey Shabala

  4. College of Agronomy, Shanxi Agricultural University, Taigu, 030801, China

    Meixue Zhou

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Quamruzzaman, M., Manik, S.M.N., Shabala, S. et al. Genome-wide association study reveals a genomic region on 5AL for salinity tolerance in wheat. Theor Appl Genet 135, 709–721 (2022). https://doi.org/10.1007/s00122-021-03996-8

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