Evidence map›Paper›PMID 39987072›Full record

ArticleBMC genomics2025

Pan-WD40ome analysis of 26 diverse inbred lines reveals the structural and functional diversity of WD40 proteins in maize.

Shenghui Ji, Pengfei Yin, Tao Li, Xiaoxia Du, Wenkang Chen, Renyu Zhang, Xiaohong Yang, Xuan Zhang

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Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

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2citing papers in PubMed
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3 · Its place in the literature

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2 citing papers in PubMed.

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5 · Who and what money

Authors and funding

8 authors.

Shenghui Ji *State Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Pengfei Yin *State Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Tao LiState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Xiaoxia DuState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Wenkang ChenState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Renyu ZhangState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China.
Xiaohong YangState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China. yxiaohong@cau.edu.cn.
Xuan ZhangState Key Laboratory of Plant Environmental Resilience and National Maize Improvement Center of China, China Agricultural University, Beijing, 100193, China. zhangxuancau@cau.edu.cn.

Funding

National Natural Science Foundation of China 32201792National Natural Science Foundation of China 32225036National Natural Science Foundation of China 32301818The Pinduoduo-China Agricultural University Research Fund PC2023A01003The Postdoctoral Fellowship Program of CPSF GZB20230855
6 · The paper itself

Abstract

backgroundThe WD40 repeat proteins are crucial components of eukaryotic genomes and contribute to a wide array of plant developmental processes and environmental interactions. However, the true extent of intraspecific WD40 diversity in plants is unclear.

resultsWe defined a nearly complete species-wide pan-WD40ome in maize based on the published genome sequences of 26 nested association mapping (NAM) population founders. The pan-WD40ome largely saturated with inclusion of approximately 20 inbred lines, with about 95% of the pan-WD40ome being present in at least two founders. The architectural diversity of the WD40 domains, additional domains, and consequent spatial protein structures suggested the functional diversity of the maize pan-WD40ome. This finding was supported by significant associations between 87 WD40 genes and 19 agronomic, 3 kernel-quality, and 3 biotic-stress traits, as well as the multiple molecular pathways through which the trait-associated WD40 genes were predicted to function. In addition, WD40 genes exhibited abundant genomic variations among the NAM founders. Sequence analysis indicated that gene duplications and gene translocations caused by Helitron transposons may play important roles in the amplification of WD40 genes during the evolution of the maize WD40 gene family.

conclusionsIn summary, this study provides a comprehensive framework for understanding the structural and functional diversity of the pan-WD40ome in maize and other agronomically important species with complex genomes, as well as excellent candidate genes/alleles for maize genetic improvement.

Indexed as

Genetic VariationPlant ProteinsWD40 RepeatsZea maysGenome, PlantInbreedingPhylogenyPlant Proteins3D structureAssociation analysisFunctional diversityMaizePan-WD40ome

Identifiers

PMID39987072
PMCPMC11847395

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