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Genome-wide identification and analysis of MIKC-type MADS-box genes expression in Chimonanthus salicifolius

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Abstract

Background

MIKC type MADS-box transcription factors are one of the largest gene families and play a pivotal role in flowering time and flower development. Chimonanthus salicifolius belongs to the family Calycanthaceae and has a unique flowering time and flowering morphology compared to other Chimonanthus species, but the research on MIKC type MADS-box gene family of C. salicifolius has not been reported.

Objective

Identification, comprehensive bioinformatic analysis, the expression pattern of MIKC-type MADS-box gene family from different tissues of C. salicifolius.

Methods

Genome-wide investigation and expression pattern under different tissues of the MIKC-type MADS-box gene family in C. salicifolius, and their phylogenetic relationships, evolutionary characteristics, gene structure, motif distribution, promoter cis-acting element were performed.

Results

A total of 29 MIKC-type MADS-box genes were identified from the whole genome sequencing. Interspecies synteny analysis revealed more significant collinearity between C. salicifolius and the magnoliids species compared to eudicots and monocots. MIKC-type MADS-box genes from the same subfamily share similar distribution patterns, gene structure, and expression patterns. Compared with Arabidopsis thaliana, Nymphaea colorata, and Chimonanthus praecox, the FLC genes were absent in C. salicifolius, while the AGL6 subfamily was expanded in C. salicifolius. The selectively expanded promoter (AGL6) and lack of repressor (FLC) genes may explain the earlier flowering in C. salicifolius. The loss of the AP3 homologous gene in C. salicifolius is probably the primary cause of the morphological distinction between C. salicifolius and C. praecox. The csAGL6a gene is specifically expressed in the flowering process and indicates the potential function of promoting flowering.

Conclusion

This study offers a genome-wide identification and expression profiling of the MIKC-types MADS-box genes in the C. salicifolius, and establishes the foundation for screening flowering development genes and understanding the potential function of the MIKC-types MADS-box genes in the C. salicifolius.

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Availability of data and materials

The data that support the findings of this study are available from the corresponding author upon reasonable request.

Code availability

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Acknowledgements

The authors would like to thank Dr. Jin-Peng Wan (XTBG Tropical Botanical Garden, Chinese Academy of Sciences) and Yang Yang (Zhejiang A&F University) for linguistic assistance during preparation of this manuscript.

Funding

This study was supported by the Research Development Fund of Zhejiang A&F University (2019FR028) and Open Fund of Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants (2020E10013-K202104) and The key research and development program of Zhejiang Province (2021C02071).

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  1. Fang-Fang Gui and Ge-Ge Jiang have contributed equally to this work.

Authors and Affiliations

  1. School of Landscape Architecture, Zhejiang Agriculture and Forestry University, Hangzhou, 311300, China

    Fang-Fang Gui, Ge-Ge Jiang,  Bin Dong, Shi-Wei Zhong, Zheng Xiao,  Qiu Fang, Yi-Guang Wang, Li-Yuan Yang & Hongbo Zhao

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  1. Fang-Fang Gui
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Contributions

G-FF: Conceptualization Methodology, Data curation, Writing—original draft. Y-LY: Methodology, Writing—review and editing. J-GG: Software, Validation. FQ, XZ, Z-SW and W-YG: Investigation. DB ang Y-LY: Supervision. Z-HB: Project administration. All authors have read and agreed to the published version of the manuscript.

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Correspondence to Li-Yuan Yang or Hongbo Zhao.

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Gui, FF., Jiang, GG., Bin Dong et al. Genome-wide identification and analysis of MIKC-type MADS-box genes expression in Chimonanthus salicifolius. Genes Genom 45, 1127–1141 (2023). https://doi.org/10.1007/s13258-023-01420-7

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