Population Genomics and Haplotype Analysis in Bread Wheat Identify a Gene Regulating Glume Pubescence

Xin Hu, Jianfang Zuo

Research output: Contribution to journalArticlepeer-review

2 Scopus citations

Abstract

Glume hairiness or pubescence is an important morphological trait with high heritability to distinguish/characterize wheat and is related to the resistance to biotic and abiotic stresses. Hg1 (formerly named Hg) on chromosome arm 1AS controlled glume hairiness in wheat. Its genetic analysis and mapping have been widely studied, yet more useful and accurate information for fine mapping of Hg1 and identification of its candidate gene is lacking. The cloning of this gene has not yet been reported for the large complex wheat genome. Here, we performed a GWAS between SNP markers and glume pubescence (Gp) in a wheat population with 352 lines and further demonstrated the gene expression and haplotype analysis approach for isolating the Hg1 gene. One gene, TraesCSU02G143200 (TaELD1-1A), encoding glycosyltransferase-like ELD1/KOBITO 1, was identified as the most promising candidate gene of Hg1. The gene annotation, expression pattern, function SNP variation, haplotype analysis, and co-expression analysis in floral organ (spike) development indicated that it is likely to be involved in the regulation of glume pubescence. Our study demonstrates the importance of high-quality reference genomes and annotation information, as well as bioinformatics analysis, for gene cloning in wheat.
Original languageEnglish (US)
JournalFrontiers in plant science
Volume13
DOIs
StatePublished - Jul 13 2022
Externally publishedYes

Bibliographical note

KAUST Repository Item: Exported on 2022-09-14
Acknowledgements: We are greatly indebted to the reviewers for their critical, helpful, and constructive comments on this manuscript. We sincerely thank Dr. Yu-juan Zhang from Murdoch University for her help in professionally editing and improving the English language of this manuscript. We are grateful to the 1000 wheat exomes project for providing the genotypes of 352 accessions and Germplasm Resources Information Network (GRIN) database (https://npgsweb.ars-grin.gov/) of USDA for providing phenotypes of the accessions. We also thank prof. Assaf Distelfeld from the University of Haifa and Elisabetta Mazzucotelli from Council for Agricultural and Economics Research (CREA) for providing information on the glume hairiness of Zavitan and Svevo, assistant prof. Simon Krattinger and Dr. Lamia Aouini from King Abdullah University of Science and Technology for providing information on the glume hairiness of ArinaLrFor, and prof. Hirokazu Handa from Kyoto Prefectural University for commenting on the glume hairiness of Norin61, as well as Dr. Jing-juan Zhang from Murdoch University for providing information on the glume hairiness of Mace and LongReach Lancer.
This publication acknowledges KAUST support, but has no KAUST affiliated authors.

ASJC Scopus subject areas

  • Plant Science

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