Genomic survey, bioinformatics analysis, and expression profiles of TCP genes in Liriodendron chinense and functional characterization of LcTCP4

Wang, Minxin; Tu, Zhonghua; Wang, Jing; Zhang, Yu; Hu, Qinghua; Li, Huogen

doi:10.1007/s00468-024-02507-8

Trees

2024

DOI: 10.1007/s00468-024-02507-8

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Genomic survey, bioinformatics analysis, and expression profiles of TCP genes in Liriodendron chinense and functional characterization of LcTCP4

Minxin Wang,

Zhonghua Tu,

Jing Wang

et al.

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2024

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Cited by 2 publications

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Identification and characterization of the RcTCP gene family and its expression in response to abiotic stresses in castor bean

Li,

Liu,

et al. 2024

BMC Genomics

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Background The TCP (teosinte branched1/cincinnata/proliferating cell factor) family plays a prominent role in plant development and stress responses. However, TCP family genes have thus far not been identified in castor bean, and therefore an understanding of the expression and functional aspects of castor bean TCP genes is lacking. To identify the potential biological functions of castor bean (RcTCP) TCP members, the composition of RcTCP family members, their basic physicochemical properties, subcellular localizations, interacting proteins, miRNA target sites, and gene expression patterns under stress were assessed. Results The presence of 20 RcTCP genes on the nine chromosomes of castor bean was identified, all of which possess TCP domains. Phylogenetic analysis indicated a close relationship between RcTCP genes and Arabidopsis AtTCP genes, suggesting potential functional similarity. Subcellular localization experiments confirmed that RcTC01/02/03/10/16/18 are all localized in the nucleus. Protein interaction analysis revealed that the interaction quantity of RcTCP03/06/11 proteins is the highest, indicating a cascade response in the functional genes. Furthermore, it was found that the promoter region of RcTCP genes contains a large number of stress-responsive elements and hormone-induced elements, indicating a potential link between RcTCP genes and stress response functions. qRT-PCR showed that all RcTCP genes exhibit a distinct tissue-specific expression pattern and their expression is induced by abiotic stress (including low temperature, abscisic acid, drought, and high salt). Among them, RcTCP01/03/04/08/09/10/14/15/18/19 genes may be excellent stress-responsive genes. Conclusion We discovered that RcTCP genes play a crucial role in various activities, including growth and development, the stress response, and transcription. This study provides a basis for studying the function of RcTCP gene in castor.

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Identification and characterization of the RcTCP gene family and its expression in response to abiotic stresses in castor bean

Li,

Liu,

et al. 2024

BMC Genomics

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Identification and Expression Analysis of TCP Transcription Factors Under Abiotic Stress in Phoebe bournei

Lv,

Yang,

Zheng

et al. 2024

Plants

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The TCP gene family encodes plant transcription factors crucial for regulating growth and development. While TCP genes have been identified in various species, they have not been studied in Phoebe bournei (Hemsl.). This study identified 29 TCP genes in the P. bournei genome, categorizing them into Class I (PCF) and Class II (CYC/TB1 and CIN). We conducted analyses on the PbTCP gene at both the protein level (physicochemical properties) and the gene sequence level (subcellular localization, chromosomal distribution, phylogenetic relationships, conserved motifs, and gene structure). Most P. bournei TCP genes are localized in the nucleus, except PbTCP9 in the mitochondria and PbTCP8 in both the chloroplast and nucleus. Chromosomal mapping showed 29 TCP genes unevenly distributed across 10 chromosomes, except chromosome 8 and 9. We also analyzed the promoter cis-regulatory elements, which are mainly involved in plant growth and development and hormone responses. Notably, most PbTCP transcription factors respond highly to light. Further analysis revealed three subfamily genes expressed in five P. bournei tissues: leaves, root bark, root xylem, stem xylem, and stem bark, with predominant PCF genes. Using qRT-PCR, we examined six representative genes—PbTCP16, PbTCP23, PbTCP7, PbTCP29, PbTCP14, and PbTCP15—under stress conditions such as high temperature, drought, light exposure, and dark. PbTCP14 and PbTCP15 showed significantly higher expression under heat, drought, light and dark stress. We hypothesize that TCP transcription factors play a key role in growth under varying light conditions, possibly mediated by auxin hormones. This work provides insights into the TCP gene family’s functional characteristics and stress resistance regulation in P. bournei.

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Genomic survey, bioinformatics analysis, and expression profiles of TCP genes in Liriodendron chinense and functional characterization of LcTCP4

Cited by 2 publications

References 51 publications

Identification and characterization of the RcTCP gene family and its expression in response to abiotic stresses in castor bean

Identification and characterization of the RcTCP gene family and its expression in response to abiotic stresses in castor bean

Identification and Expression Analysis of TCP Transcription Factors Under Abiotic Stress in Phoebe bournei

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