Genome-wide identification and transcript analysis of TCP transcription factors in grapevine

Xiangpeng Leng,Gengsen Liu,Hongru Wei,Dongjie Jia,Yongzhang Wang,Xiaozhao Xu,Yongbing Yuan,Sandip A Ghuge

doi:10.1186/s12864-019-6159-2

Xiangpeng Leng, Gengsen Liu + Show 6 more

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https://doi.org/10.1186/s12864-019-6159-2

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Abstract

BackgroundThe plant-specific TCP transcription factors play different functions in multiple processes of plant growth and development. TCP family genes have been identified in several plant species, but no comprehensive analysis of the TCP family in grapevine has been undertaken to date, especially their roles in fruit development.ResultsA total of 18 non-redundant grapevine TCP (VvTCP) genes distributing on 11 chromosomes were identified. Phylogenetic and structural analysis showed that VvTCP genes were divided into two main classes - class I and class II. The Class II genes were further classified into two subclasses, the CIN subclass and the CYC/TB1 subclass. Segmental duplication was a predominant duplication event which caused the expansion of VvTCP genes. The cis-acting elements analysis and tissue-specific expression patterns of VvTCP genes demonstrated that these VvTCP genes might play important roles in plant growth and development. Expression patterns of VvTCP genes during fruit development and ripening were analyzed by RNA-Seq and qRT-PCR. Among them, 11 VvTCP genes were down-regulated during different fruit developmental stages, while only one VvTCP genes were up-regulated, suggesting that most VvTCP genes were probably related to early development in grapevine fruit. Futhermore, the expression of most VvTCP genes can be inhibited by drought and waterlogging stresses.ConclusionsOur study establishes the first genome-wide analysis of the grapevine TCP gene family and provides valuable information for understanding the classification and functions of the TCP genes in grapevine.

Highlights

The plant-specific TCP transcription factors play different functions in multiple processes of plant growth and development
TCP transcription factors were named after four founding members: TEOSINTE BRANCHED1 (TB1) from Zea mays, CYCLOIDEA (CYC) from Antirrhinum majus, PROLIFERATING CELL NUCLEAR ANTIGEN FACTOR 1 and 2 (PCF1 and PCF2) from Oryza sativa [4,5,6]
VvTCP14 showed the lowest value of the molecular weight (17.72 kDa), while the highest of the molecular weight (48.54 kDa) was observed in VvTCP6

Summary

Introduction

The plant-specific TCP transcription factors play different functions in multiple processes of plant growth and development. TCP proteins are a small family of plant-specific transcription factors and play important roles in multiple processes of plant growth and development by regulating cell growth and proliferation [1,2,3]. Increasing evidences show that TCP transcription factors play versatile functions in multiple physiological and biological processes during plant growth and development, such as branching [9, 10], leaf morphogenesis [11, 12], flower development [13, 14], seed germination [15, 16], hormone pathways [17, 18] and response to environmental stress [19]. The strawberry FaTCP11 gene participates in ripening-related processes and regulates flavan-3-ols synthesis [23]

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