AUTHOR=Liu Ding-Kun , Zhang Cuili , Zhao Xuewei , Ke Shijie , Li Yuanyuan , Zhang Diyang , Zheng Qinyao , Li Ming-He , Lan Siren , Liu Zhong-Jian 

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

JOURNAL=Frontiers in Plant Science

VOLUME=13

YEAR=2022

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2022.1068969

DOI=10.3389/fpls.2022.1068969

ISSN=1664-462X

ABSTRACT=<p>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 (<italic>CgTCPs</italic>) from the Spring Orchid <italic>Cymbidium goeringii</italic> genome. The classification results showed that 14 <italic>CgTCPs</italic> 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 <italic>C. goeringii</italic> 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 <italic>CgTCP</italic> homologous gene pairs compared with <italic>Dendrobium catenatum</italic> and <italic>Phalaenopsis equestris</italic>, suggesting that the TCP genes in <italic>C. goeringii</italic> suffered more loss events. The majority of the <italic>cis</italic>-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 <italic>D. catenatum</italic>, <italic>P. equestris</italic> and <italic>C. goeringii</italic> 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 (<italic>CgCIN2</italic>, <italic>CgCIN5</italic> and <italic>CgCIN6</italic>) may be related to the regulation of florescence. Altogether, this study provides a comprehensive analysis uncovering the underlying function of TCP genes in Orchidaceae.</p>