Transcriptome-Based Analysis of Dof Family Transcription Factors and Their Responses to Abiotic Stress in Tea Plant (<i>Camellia sinensis</i>)

Li, Hui; Huang, Wei; Liu, Zhiwei; Wang, Yongxin; Zhuang, Jing

doi:10.1155/2016/5614142

Cited by 29 publications

(21 citation statements)

References 52 publications

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“…A phylogenetic tree was constructed using the neighbour-joining method in MEGA 6.0, and a diagram of the phylogenetic tree was drawn using EVOLVIEW ( www.evolgenius.info/evolview ). In addition, the conserved motifs of the CsVQ protein sequences were obtained and analysed using the MEME website (version 4.12.0, http://meme-suite.org/ ) using the parameters of 20 previously identified motifs [ 38 ].…”

Section: Methodsmentioning

confidence: 99%

Identification, characterization and expression analysis of the VQ motif-containing gene family in tea plant (Camellia sinensis)

Guo¹,

JiangFei²,

Yang³

et al. 2018

BMC Genomics

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BackgroundVQ motif-containing (VQ) proteins are plant-specific proteins that interact with WRKY transcription factors and play important roles in plant growth, development and stress response. To date, VQ gene families have been identified and characterized in many plant species, including Arabidopsis, rice and grapevine. However, the VQ gene family in tea plant has not been reported, and the biological functions of this family remain unknown.ResultsIn total, 25 CsVQ genes were identified based on the genome and transcriptome of tea plant, and a comprehensive bioinformatics analysis was performed. The CsVQ proteins all contained the typical conserved motif FxxhVQxhTG, and most proteins were localized in the nucleus. The phylogenetic analysis showed that the VQ proteins were classified into 5 groups (I, III-VI); the evolution of the CsVQ proteins is consistent with the evolutionary process of plants, and close proteins shared similar structures and functions. In addition, the expression analysis revealed that the CsVQ genes play important roles in the process of tea plant growth, development and response to salt and drought stress. Furthermore, a potential regulatory network including the interactions of CsVQ proteins with CsWRKY transcription factors and the regulation of upstream microRNA that is closely related to the above-mentioned processes is proposed.ConclusionsThe results of this study increase our understanding and characterization of CsVQ genes and their encoded proteins in tea plant. This systematic analysis provided comprehensive information for further studies investigating the biological functions of CsVQ proteins in various developmental processes of tea plants.Electronic supplementary materialThe online version of this article (10.1186/s12864-018-5107-x) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Identification, characterization and expression analysis of the VQ motif-containing gene family in tea plant (Camellia sinensis)

Guo¹,

JiangFei²,

Yang³

et al. 2018

BMC Genomics

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“…Corrales et al (2014) found that the overexpression of SlCDF1 and SlCDF3 (two tomato Cycling Dof Factors) significantly enhanced the drought resistance and salt tolerance of Arabidopsis and activated other stress-responsive genes such as COR15, RD29A, and ERD10. Complementing the work of Li et al (2016), we have identified 16 new CsDof genes, thereby expanding our understanding of drought stress response in tea. moderate, and tea plants grow well.…”

Section: Introductionmentioning

confidence: 96%

Genome-wide identification and expression analysis of theDofgene family under drought stress in tea (Camellia sinensis)

Zhang

et al. 2020

PeerJ

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Background DNA-binding one zinc finger (Dof) proteins are plant-specific transcription factors important for seed development, hormone regulation, and defense against abiotic stress. Although drought stress is a key determinant of plant physiology and metabolic homeostasis, the role of Dof genes in different degrees of PEG6000-induced drought stress has received little attention. Methods Tea plants (Camellia sinensis) were exposed to mild, moderate and severe drought stress. The Tea Genome and Plant TFDB databases were used to identify Dof gene family members in the tea plant. Clustal W2.1, MEGA6.0, ScanProsite, SMART, ExPASy, GSDS, MEME and STRING were used to build a phylogenetic tree, predict the molecular masses and isoelectric points of the Dof proteins, and construct a predicted protein-protein interaction network between the CsDof TFs and proteins in the A. thaliana database. The expression patterns of Dof genes in different tissues were analyzed, and qRT-PCR was used to measure the expression of Dof genes under different degrees of drought stress in tea. Results We identified 16 Dof genes in tea (C. sinensis cv. Huangjinya) using whole-genome analysis. Through comparative analysis of tea and Arabidopsis thaliana, we divided the Dof genes into four families (A, B, C, and D). We identified 15 motifs in the amino acid sequences of the CsDof proteins. Gene sequences and motif structures were highly conserved among families, especially in the B1 and C2 subfamilies. The protein-protein interaction network indicated that multiple CsDof proteins may be involved in the response to drought stress. Real-time PCR was used to examine the tissue-specific expression patterns of the CsDof genes and to measure their responses to different levels of PEG6000-induced drought stress in mature leaves. Most CsDof genes responded to drought stress. These results provide information on the Dof gene family in tea, offer new insights into the function of CsDof genes in a perennial species, and lay the foundation for further analysis of their functions.

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“…The regulatory genes related to biotic and abiotic stresses in Camellia were essential to cultivate new varieties with enhanced environmental resilience and field performance. Presently, regulatory genes, particularly transcription factors and their targets, were discovered extensively in Camellia species [ 16 , 17 , 18 , 120 ]. However, only a few genes of transcription factors were characterized through transgenic analysis in model species.…”

Section: Functional Characterization Of Genes Related To Key Pathwmentioning

confidence: 99%

Unraveling the Roles of Regulatory Genes during Domestication of Cultivated Camellia: Evidence and Insights from Comparative and Evolutionary Genomics

Yan

Lin

Lyu

et al. 2018

Genes

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With the increasing power of DNA sequencing, the genomics-based approach is becoming a promising resolution to dissect the molecular mechanism of domestication of complex traits in trees. Genus Camellia possesses rich resources with a substantial value for producing beverage, ornaments, edible oil and more. Currently, a vast number of genetic and genomic research studies in Camellia plants have emerged and provided an unprecedented opportunity to expedite the molecular breeding program. In this paper, we summarize the recent advances of gene expression and genomic resources in Camellia species and focus on identifying genes related to key economic traits such as flower and fruit development and stress tolerances. We investigate the genetic alterations and genomic impacts under different selection programs in closely related species. We discuss future directions of integrating large-scale population and quantitative genetics and multiple omics to identify key candidates to accelerate the breeding process. We propose that future work of exploiting the genomic data can provide insights related to the targets of domestication during breeding and the evolution of natural trait adaptations in genus Camellia.

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Transcriptome-Based Analysis of Dof Family Transcription Factors and Their Responses to Abiotic Stress in Tea Plant (Camellia sinensis)

Cited by 29 publications

References 52 publications

Identification, characterization and expression analysis of the VQ motif-containing gene family in tea plant (Camellia sinensis)

Identification, characterization and expression analysis of the VQ motif-containing gene family in tea plant (Camellia sinensis)

Genome-wide identification and expression analysis of theDofgene family under drought stress in tea (Camellia sinensis)

Unraveling the Roles of Regulatory Genes during Domestication of Cultivated Camellia: Evidence and Insights from Comparative and Evolutionary Genomics

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