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Allelic variation in Puroindoline genes in synthetic hexaploid wheats and development of allele-specific PCR markers for new soft-texture alleles

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Abstract

Grain hardness is an important end-use quality trait which can significantly affect milling and processing quality of wheat. It is controlled by Puroindoline (Pin) genes in wheat, of which Pina-D1 and Pinb-D1 control major phenotypic variation, while Pinb-B2 explain moderate variation. We analyzed the allelic variation of three Pin genes in a panel of 227 synthetic hexaploid wheats (SHWs) using allele-specific markers either previously available or newly developed in this study to identify new alleles and facilitate their introgression. Eight different alleles were identified in Pina-D1 gene using six newly developed markers. The wild-type alleles, Pina-D1a and Pinb-D1a, were identified in 11.6 and 24.2% of accessions, respectively. It was found that Pina-D1c was most frequent (30.7%), followed by Pina-D1e allele (18%) at Pina-D1. For Pinb-D1, three new markers were developed which classified synthetic wheats into four haplotype groups, of which Hap-IV (Pinb-D1j/Pinb-D1o) was most frequent (52.8%). A cleaved amplified polymorphic site (CAPS) marker using ApoI restriction enzyme successfully classified accessions into wild-type and non-wild-type groups. At Pinb-B2 gene, the frequency of Pinb-B2b allele was higher (76.2%) which is associated with relatively hard texture compared to Pinb-B2a allele. The results provide a deeper insight into the allelic composition of grain of grain texture genes in SHWs which can be introgressed to develop required texture market class using allele-specific markers developed in this study.

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All the data associated with the manuscript is provided as Supplementary tables.

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Acknowledgements

We acknowledge the Science and Technology Partnership Program, Ministry of Science and Technology (MoST) of China (KY202201001) for financial support. We also acknowledge Bioversity International and Grain Research & Development Corporation to partially support Dr. Awais Rasheed under Vavilov-Frankel Fellowship.

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Authors and Affiliations

  1. Department of Plant Sciences, Quaid-I-Azam University Islamabad, Islamabad, 45320, Pakistan

    Muhammad Aamir Khan, Yuanyuan Tian, Humaira Qayyum & Awais Rasheed

  2. College of Biological Sciences and Technology, Bei**g Forestry University, 35 Qinghua East Road, Bei**g, 100083, China

    Yuanyuan Tian

  3. Institute of Crop Science, National Wheat Improvement Center, & CIMMYT-China Office, Chinese Academy of Agricultural Sciences (CAAS), 12 Zhongguancun South Street, Bei**g, 100081, China

    Awais Rasheed & Zhonghu He

Authors
  1. Muhammad Aamir Khan
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  2. Yuanyuan Tian
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  3. Humaira Qayyum
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  4. Awais Rasheed
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  5. Zhonghu He
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Contributions

MAK conducted the experiment and wrote the manuscript, YT did the SKCS phenoty**, HQ conducted the sequencing work and wrote the initial draft, AR designed the experiment and edited the manuscript; ZH designed the experiment and edited the manuscript.

Corresponding authors

Correspondence to Awais Rasheed or Zhonghu He.

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We declare no conflict of interest.

Additional information

Communicated by Volker Mohler.

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Supplementary file2 (XLSX 34 KB)

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Khan, M.A., Tian, Y., Qayyum, H. et al. Allelic variation in Puroindoline genes in synthetic hexaploid wheats and development of allele-specific PCR markers for new soft-texture alleles. CEREAL RESEARCH COMMUNICATIONS (2024). https://doi.org/10.1007/s42976-024-00497-4

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