Systematic Investigation of TCP Gene Family: Genome-Wide Identification and Light-Regulated Gene Expression Analysis in Pepino (Solanum Muricatum)

Si, Cheng; Zhan, Deli; Wang, Lihui; Sun, Xuemei; Zhong, Qing; Yang, Shipeng

doi:10.3390/cells12071015

Cited by 11 publications

(9 citation statements)

References 74 publications

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“…Currently, TCP genes have been identified in many plants, including 24, 22, and 41 genes in Arabidopsis [ 26 ], rice ( Oryza sativa ) [ 26 ], and Solanum muricatum [ 27 ], respectively. We identified 20 castor bean RcTCP genes, further supporting the variability in the number of TCP genes among different species.…”

Section: Discussionmentioning

confidence: 99%

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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Section: Discussionmentioning

confidence: 99%

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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“…Currently, TCP genes have been identified in many plants, including 24, 22, and 41 genes in Arabidopsis [22], rice [22], and Solanum muricatum [23], respectively. We identified 20 castor bean RcTCP genes, further supporting the variability in the number of TCP genes among different species.…”

Section: Discussionmentioning

confidence: 99%

Identification and Characterization of the RcTCP Gene Family and Its Expression in Response to Abiotic Stresses in Castor Bean

Li,

Liu,

et al. 2023

Preprint

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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 Twenty RcTCP genes were found to be unevenly distributed on the nine chromosomes of castor bean, and all of these genes possessed a TCP domain. Phylogenetic analysis indicated that the RcTCP genes were closely related to Arabidopsis AtTCP genes. Subcellular localization experiments indicated that RcTC01/02/03/10/16/18 were all localized in the nucleus. Protein interaction analysis showed that the RcTCP03/06/11 proteins had the highest number of interacting proteins. Furthermore, the promoter region of the RcTCP genes was found to contain numerous stress-responsive elements and hormone-induced elements, indicating a potential link between RcTCP genes and their function in response to stress. The 20 RcTCP genes exhibited obvious tissue-specific expression patterns, and the expression of these genes was induced by abiotic stress (including low temperature, abscisic acid, drought, and high salt). The RcTCP01/03/04/08/09/10/14/15/18/19 genes may be excellent stress-response 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 offers an initial documentation of the potential significance of RcTCP genes in castor bean.

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“…The similarity in nutritional composition among pepino, eggplant, and tomato is mainly due to their close relationship as closely related species. 25 , 26 From a molecular biology perspective, their genomes share many similarities, leading to commonalities in genetic information and metabolic pathways. 27 …”

Section: Discusionmentioning

confidence: 99%

Metabolomics analysis of quality components metabolism during the growth process of pepino ( Solanum muricatum ) fruit

Zhao,

Sun,

Wang

et al. 2023

Plant Signaling & Behavior

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Pepino ( Solanum muricatum ), a horticultural crop that has experienced significant growth in the highlands of China over the past two decades, is widely embraced by consumers due to its distinctive taste and nutritional advantages. This study focused on the cultivar ‘Qingcanxiang’ of pepino grown on the Qinghai-Tibetan Plateau was analyzed using UPLC-QTOF-MS and RNA-seq transcriptome sequencing. Fruit samples were collected at three distinct stages of development, and the results of the metabolomics and transcriptomics were compared and correlated. The study’s findings indicate that the ‘Qingcanxiang’ fruit contained a total of 187 metabolites, comprising 12 distinct categories of compounds, including amino acids and their derivatives, organic acids, sugars and alcohols, phenols and phenolic acids. Of these metabolites, 94 were identified as differential. Significant variations in nutrient composition were observed across the three growth stages of the fruit. Specifically, the stage spanning from the growth to the maturation was identified as the critical stages for nutrient accumulation and flavor development. Transcriptome sequencing analysis revealed a set of highly associated genes between aspartate and quinic acid, namely SIR2 , IRAK4 , RP-L29 , and CCNH . These genes are potentially involved in the regulation of both amino acid and phenolic acid synthesis. Through the application of metabolomics and transcriptomics, this investigation elucidates the alterations in metabolites and the underlying molecular regulatory mechanisms of pepino fruits during three growth stages. The findings furnish a theoretical foundation for the evaluation of nutritional quality and the enhancement of breeding strategies for pepino.

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Systematic Investigation of TCP Gene Family: Genome-Wide Identification and Light-Regulated Gene Expression Analysis in Pepino (Solanum Muricatum)

Cited by 11 publications

References 74 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 Characterization of the RcTCP Gene Family and Its Expression in Response to Abiotic Stresses in Castor Bean

Metabolomics analysis of quality components metabolism during the growth process of pepino ( Solanum muricatum ) fruit

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