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Genes
Volume 16
Issue 9
10.3390/genes16091036
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This is an early access version, the complete PDF, HTML, and XML versions will be available soon.
Article

Genome-Wide Identification of the Dendrocalamus latiflorus IDD Gene Family and Its Functional Role in Bamboo Shoot Development

by
Yu-Han Lin
1,
Peng-Kai Zhu
1,
Mei-Yin Zeng
1,
Xin-Ru Gao
1,
Tian-You He
1,
Jun-Dong Rong
2,
Yu-Shan Zheng
1,2 and
Ling-Yan Chen
1,*
1
College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China
2
College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China
*
Author to whom correspondence should be addressed.
Genes 2025, 16(9), 1036; https://doi.org/10.3390/genes16091036 (registering DOI)
Submission received: 5 August 2025 / Revised: 22 August 2025 / Accepted: 29 August 2025 / Published: 30 August 2025
(This article belongs to the Special Issue Genetic and Functional Genomics Insights into the Genetic Improvement of Stress Resistance in Economic Crops)
Versions Notes

Abstract

Background: Transcription factors (TFs) critically regulate gene expression, orchestrating plant growth, development, and stress responses. The conserved IDD (INDETERMINATE DOMAIN) TF family modulates key developmental processes, including root, stem, and seed morphogenesis. Dendrocalamus latiflorus Munro, an economically vital sympodial bamboo in southern China, suffers significant yield losses due to prevalent bamboo shoot abortion, impacting both edible shoot production and timber output. Despite the documented roles of IDD TFs in shoot apical meristem expression and lateral organ regulation, their genome-wide characterization in D. latiflorus remains unstudied. Methods: Using IDD members from Arabidopsis thaliana, Oryza sativa, and Phyllostachys edulis as references, we identified 45 DlIDD genes in D. latiflorus. Comprehensive bioinformatics analyses included gene characterization, protein physicochemical assessment, phylogenetic reconstruction, and examination of gene structures/conserved domains. Differential expression of DlIDD genes was profiled between dormant and sprouting bamboo shoots to infer putative functions. Results: The 45 DlIDD genes were phylogenetically classified into three subfamilies and unevenly distributed across 34 chromosomes. Whole-genome duplication (WGD) events drove the expansion of this gene family. Promoter analyses revealed enriched cis-regulatory elements associated with hormone response and developmental regulation. Functional analyses suggested potential roles for DlIDD genes in bamboo shoot development. Conclusions: This study provides a foundation for future research to elucidate the functions of IDD TFs and their regulatory mechanisms in bamboo shoot morphogenesis and lateral bud development within woody monocots.
Keywords: gene family; IDD transcription factors; bamboo shoot development; Dendrocalamus latiflorus gene family; IDD transcription factors; bamboo shoot development; Dendrocalamus latiflorus

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MDPI and ACS Style

Lin, Y.-H.; Zhu, P.-K.; Zeng, M.-Y.; Gao, X.-R.; He, T.-Y.; Rong, J.-D.; Zheng, Y.-S.; Chen, L.-Y. Genome-Wide Identification of the Dendrocalamus latiflorus IDD Gene Family and Its Functional Role in Bamboo Shoot Development. Genes 2025, 16, 1036. https://doi.org/10.3390/genes16091036

AMA Style

Lin Y-H, Zhu P-K, Zeng M-Y, Gao X-R, He T-Y, Rong J-D, Zheng Y-S, Chen L-Y. Genome-Wide Identification of the Dendrocalamus latiflorus IDD Gene Family and Its Functional Role in Bamboo Shoot Development. Genes. 2025; 16(9):1036. https://doi.org/10.3390/genes16091036

Chicago/Turabian Style

Lin, Yu-Han, Peng-Kai Zhu, Mei-Yin Zeng, Xin-Ru Gao, Tian-You He, Jun-Dong Rong, Yu-Shan Zheng, and Ling-Yan Chen. 2025. "Genome-Wide Identification of the Dendrocalamus latiflorus IDD Gene Family and Its Functional Role in Bamboo Shoot Development" Genes 16, no. 9: 1036. https://doi.org/10.3390/genes16091036

APA Style

Lin, Y.-H., Zhu, P.-K., Zeng, M.-Y., Gao, X.-R., He, T.-Y., Rong, J.-D., Zheng, Y.-S., & Chen, L.-Y. (2025). Genome-Wide Identification of the Dendrocalamus latiflorus IDD Gene Family and Its Functional Role in Bamboo Shoot Development. Genes, 16(9), 1036. https://doi.org/10.3390/genes16091036

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