Genome-wide analysis of the TCP gene family and their expression pattern in Cymbidium goeringii

Abstract

TCP gene family are specific transcription factors for plant, and considered to play an important role in development and growth. However, few related studies investigated the TCP gene trait and how it plays a role in growth and development of Orchidaceae. In this study, we obtained 14 TCP genes (CgTCPs) from the Spring Orchid Cymbidium goeringii genome. The classification results showed that 14 CgTCPs were mainly divided into two clades as follows: four PCF genes (Class I), nine CIN genes and one CYC gene (Class II). The sequence analysis showed that the TCP proteins of C. goeringii contain four conserved regions (basic Helix-Loop-Helix) in the TCP domain. The exon−intron structure varied in the clade according to a comparative investigation of the gene structure, and some genes had no introns. There are fewer CgTCP homologous gene pairs compared with Dendrobium catenatum and Phalaenopsis equestris, suggesting that the TCP genes in C. goeringii suffered more loss events. The majority of the cis-elements revealed to be enriched in the function of light responsiveness, followed by MeJA and ABA responsiveness, demonstrating their functions in regulating by light and phytohormones. The collinearity study revealed that the TCPs in D. catenatum, P. equestris and C. goeringii almost 1:1. The transcriptomic data and real-time reverse transcription-quantitative PCR (RT−qPCR) expression profiles showed that the flower-specific expression of the TCP class II genes (CgCIN2, CgCIN5 and CgCIN6) may be related to the regulation of florescence. Altogether, this study provides a comprehensive analysis uncovering the underlying function of TCP genes in Orchidaceae.

Genome-wide characterization of TCP family and their potential roles in abiotic stress resistance of oat (Avena sativa L.)

“…Our study found some AsTCP genes (19 genes, about 39%) did not contain introns. This structural feature is similar to that found in Camellia sinensis (87%) ( Shang et al., 2022 ), Cymbidium goeringii (57%) ( Liu D. et al., 2022 ), and Dactylis glomerata (18%) ( Wang C. et al, 2023 ). Most AsTCP genes do not have introns, meaning their transcription times are shorter than those containing introns.…”

Unveiling kiwifruit TCP genes: evolution, functions, and expression insights

“… 1 , 5 , 11 , 13 , 15 , 22 , 24 , 26 , 51 , 54 , 55 Genome-wide identification of the TCP gene family had been accomplished in several plants. 8 , 14 , 56–61 However, genome-wide characterization of the TCP gene family had not been conducted in kiwifruit. Here, we conducted the comprehensive genome-wide identification and characterization of the TCP gene family in two kiwifruit species (Ac and Ae), comparing their characters and evolutionary patterns.…”

Advances in Research on the Regulation of Floral Development by CYC-like Genes

“…The median tepal is typically modified into the labellum, which is often in the abaxial position because the inflorescence droops or the pedicel twists [ 129 ]. Many CYC -like genes in Phalaenopsis and Cattleya trianae have been identified and observed to influence floral or inflorescence development [ 130 , 131 , 132 ].…”

“…Hence PeCIN8 may be crucial for orchid ovule development because of its regulatory effects on cell division. In addition, Liu et al recently identified 10 ECE clade genes ( CgCIN s and CgCYC s) from the Cymbidium goeringii genome and observed that flower-specific gene expression may be associated with the regulation of flower development [ 131 ].…”